CHROM	POSI	variant	bulk1_depth	bulk2_depth	p99	p95	bulk1_SNPindex	bulk2_SNPindex	delta_SNPindex
SL4.0ch01	769985	indel	17	29	0.4929	0.3813	0.0588	0.5862	0.5274
SL4.0ch01	933937	indel	12	12	0.5833	0.5	0.0833	0.6667	0.5833
SL4.0ch01	1074741	snp	11	16	0.5682	0.4432	0.0909	0.6875	0.5966
SL4.0ch01	1312367	snp	16	18	0.5347	0.4167	0.0625	0.6667	0.6042
SL4.0ch01	1346308	snp	10	14	0.6143	0.4857	0.0	0.7143	0.7143
SL4.0ch01	1399717	indel	12	16	0.5833	0.4583	0.0	0.625	0.625
SL4.0ch01	1402168	snp	16	21	0.5238	0.3988	0.0625	0.619	0.5565
SL4.0ch01	1532375	snp	11	18	0.5758	0.4495	0.0909	0.6667	0.5758
SL4.0ch01	1777227	snp	19	15	0.5333	0.4175	0.2632	0.8	0.5368
SL4.0ch01	1886762	indel	10	21	0.5667	0.4619	0.0	0.6667	0.6667
SL4.0ch01	1886795	snp	8	14	0.6429	0.5	0.0	0.7143	0.7143
SL4.0ch01	2048070	snp	12	20	0.5667	0.4333	0.1667	0.75	0.5833
SL4.0ch01	2340208	snp	9	11	0.6162	0.5051	0.1111	0.7273	0.6162
SL4.0ch01	2341943	snp	12	18	0.5556	0.4444	0.1667	0.7778	0.6111
SL4.0ch01	2359271	indel	20	15	0.55	0.4167	0.2	0.8	0.6
SL4.0ch01	2610628	indel	13	19	0.5344	0.4291	0.0	0.5789	0.5789
SL4.0ch01	2610687	snp	13	21	0.5311	0.4249	0.0	0.5714	0.5714
SL4.0ch01	2708937	snp	9	24	0.5694	0.4444	0.1111	0.75	0.6389
SL4.0ch01	2766988	snp	17	23	0.5192	0.4015	0.1176	0.7391	0.6215
SL4.0ch01	2788842	snp	13	14	0.5604	0.467	0.0769	0.6429	0.5659
SL4.0ch01	2896998	snp	9	18	0.6111	0.4444	0.1111	0.7778	0.6667
SL4.0ch01	2988024	snp	9	9	0.6667	0.5556	0.0	0.6667	0.6667
SL4.0ch01	3011682	snp	13	17	0.5339	0.4208	0.2308	0.7647	0.5339
SL4.0ch01	3230829	snp	16	17	0.5221	0.4007	0.0	0.5294	0.5294
SL4.0ch01	3570342	indel	10	19	0.5842	0.4368	0.4	1.0	0.6
SL4.0ch01	3586699	snp	11	14	0.6039	0.461	0.2727	0.9286	0.6558
SL4.0ch01	3608879	snp	12	12	0.5833	0.5	0.4167	1.0	0.5833
SL4.0ch01	3615175	snp	16	20	0.525	0.4125	0.3125	0.85	0.5375
SL4.0ch01	4491942	snp	11	21	0.5801	0.4416	0.1818	0.8095	0.6277
SL4.0ch01	20680161	indel	13	20	0.5423	0.4154	1.0	0.05	-0.95
SL4.0ch01	21482485	indel	13	20	0.5423	0.4154	0.0	1.0	1.0
SL4.0ch01	24587269	snp	12	20	0.5667	0.4333	0.75	0.1	-0.65
SL4.0ch01	26946093	indel	14	20	0.5429	0.4214	0.9286	0.0	-0.9286
SL4.0ch01	27468578	indel	11	20	0.5682	0.4364	1.0	0.1	-0.9
SL4.0ch01	40104670	indel	16	17	0.5221	0.4007	0.0	1.0	1.0
SL4.0ch01	69992703	indel	11	23	0.5613	0.4269	0.0	0.8261	0.8261
SL4.0ch02	21930099	indel	13	28	0.5247	0.4121	1.0	0.1071	-0.8929
SL4.0ch02	38653729	snp	21	19	0.4987	0.3985	0.8571	0.2632	-0.594
SL4.0ch02	45728971	indel	13	22	0.542	0.4196	1.0	0.0455	-0.9545
SL4.0ch02	50798439	indel	12	23	0.5362	0.4348	0.0	0.7826	0.7826
SL4.0ch03	4937370	snp	19	26	0.4818	0.3765	0.6842	0.1923	-0.4919
SL4.0ch03	4938064	indel	16	22	0.5227	0.4091	0.625	0.0	-0.625
SL4.0ch03	4959305	indel	16	30	0.5125	0.3875	0.5625	0.0333	-0.5292
SL4.0ch03	4961375	snp	10	29	0.5552	0.4241	0.7	0.1379	-0.5621
SL4.0ch03	27648896	snp	11	8	0.6932	0.5114	0.0909	0.875	0.7841
SL4.0ch03	46097814	snp	8	23	0.5761	0.4783	0.75	0.0	-0.75
SL4.0ch03	60758970	indel	13	20	0.5423	0.4154	0.0	1.0	1.0
SL4.0ch04	43144001	indel	17	23	0.5192	0.4015	1.0	0.087	-0.913
SL4.0ch05	510326	indel	19	25	0.4968	0.3895	1.0	0.08	-0.92
SL4.0ch05	2410474	indel	14	13	0.5604	0.467	0.9286	0.0	-0.9286
SL4.0ch05	21330219	snp	10	18	0.5778	0.4556	0.9	0.2778	-0.6222
SL4.0ch05	60586485	indel	11	24	0.5682	0.4356	1.0	0.0833	-0.9167
SL4.0ch05	61899104	indel	10	25	0.56	0.44	1.0	0.12	-0.88
SL4.0ch06	7291745	indel	12	21	0.5595	0.4286	0.6667	0.0476	-0.619
SL4.0ch07	7267077	indel	22	20	0.5136	0.3818	0.7727	0.05	-0.7227
SL4.0ch07	12645343	snp	15	26	0.5308	0.4051	0.2	0.7692	0.5692
SL4.0ch07	19246607	snp	13	12	0.6026	0.4487	0.6154	0.0	-0.6154
SL4.0ch07	24240970	indel	19	19	0.5263	0.4211	1.0	0.0	-1.0
SL4.0ch07	32615753	snp	17	23	0.5192	0.4015	0.5882	0.0435	-0.5448
SL4.0ch07	37440143	snp	12	16	0.5833	0.4583	0.6667	0.0625	-0.6042
SL4.0ch07	50150626	snp	21	22	0.4935	0.3939	0.6667	0.0909	-0.5758
SL4.0ch08	1665745	indel	12	20	0.5667	0.4333	0.0	0.95	0.95
SL4.0ch08	54610181	indel	8	31	0.5847	0.4597	0.0	0.9677	0.9677
SL4.0ch10	19288280	indel	12	19	0.5482	0.4342	1.0	0.0526	-0.9474
SL4.0ch11	50535984	indel	13	27	0.5442	0.4017	0.0	0.9259	0.9259
SL4.0ch11	53167223	snp	18	16	0.5347	0.4167	0.6667	0.0625	-0.6042
SL4.0ch11	53187730	indel	17	22	0.5374	0.4011	1.0	0.1364	-0.8636
SL4.0ch11	53397096	snp	16	21	0.5238	0.3988	0.5625	0.0	-0.5625
SL4.0ch11	53397929	snp	13	28	0.5247	0.4121	0.6154	0.0	-0.6154
SL4.0ch11	53408600	snp	11	18	0.5758	0.4495	0.6364	0.0	-0.6364
SL4.0ch11	53410476	snp	19	30	0.4895	0.3754	0.5789	0.0333	-0.5456
SL4.0ch11	53411382	indel	13	26	0.5385	0.4231	0.5385	0.0	-0.5385
SL4.0ch11	53412450	indel	19	10	0.5842	0.4368	0.6316	0.0	-0.6316
SL4.0ch11	53415864	snp	21	22	0.4935	0.3939	0.7143	0.0	-0.7143
SL4.0ch11	53415907	indel	22	22	0.5	0.3636	0.6818	0.0	-0.6818
SL4.0ch11	53419273	snp	13	21	0.5311	0.4249	0.6154	0.0	-0.6154
SL4.0ch11	53422178	indel	10	8	0.675	0.525	0.8	0.0	-0.8
SL4.0ch11	53423793	snp	14	18	0.5476	0.4286	0.5714	0.0	-0.5714
SL4.0ch11	53431542	snp	14	12	0.5595	0.4643	0.5714	0.0	-0.5714
SL4.0ch11	53432311	snp	13	17	0.5339	0.4208	0.7692	0.0588	-0.7104
SL4.0ch11	53433577	indel	13	13	0.6154	0.4615	0.6923	0.0	-0.6923
SL4.0ch11	53433685	snp	8	15	0.6167	0.4833	0.625	0.0	-0.625
SL4.0ch11	53435216	snp	18	18	0.5556	0.3889	0.6111	0.0	-0.6111
SL4.0ch11	53449379	snp	15	12	0.5833	0.45	0.6	0.0	-0.6
SL4.0ch11	53450291	snp	18	24	0.5	0.3889	0.5556	0.0	-0.5556
SL4.0ch11	53454898	indel	20	24	0.5	0.3917	0.7	0.0	-0.7
SL4.0ch11	53459093	snp	13	28	0.5247	0.4121	0.5385	0.0	-0.5385
SL4.0ch11	53459196	indel	11	24	0.5682	0.4356	0.7273	0.0	-0.7273
SL4.0ch11	53459225	snp	13	22	0.542	0.4196	0.6154	0.0	-0.6154
SL4.0ch11	53459701	indel	11	18	0.5758	0.4495	0.6364	0.0	-0.6364
SL4.0ch11	53460574	snp	19	19	0.5263	0.4211	0.5789	0.0	-0.5789
SL4.0ch11	53460610	indel	25	21	0.4971	0.379	0.56	0.0	-0.56
SL4.0ch11	53467816	snp	16	15	0.5458	0.4208	0.5625	0.0	-0.5625
SL4.0ch11	53468724	snp	13	28	0.5247	0.4121	0.7692	0.0357	-0.7335
SL4.0ch11	53479294	snp	13	25	0.5292	0.4092	0.6154	0.04	-0.5754
SL4.0ch11	53479480	snp	13	20	0.5423	0.4154	0.8462	0.0	-0.8462
SL4.0ch11	53481448	snp	18	25	0.4978	0.3933	0.5556	0.04	-0.5156
SL4.0ch11	53482121	snp	17	24	0.5074	0.4069	0.5294	0.0	-0.5294
SL4.0ch11	53483671	snp	22	19	0.5096	0.3971	0.5455	0.0	-0.5455
SL4.0ch11	53483821	indel	18	24	0.5	0.3889	0.5556	0.0	-0.5556
SL4.0ch11	53487893	indel	10	20	0.55	0.45	0.6	0.0	-0.6
SL4.0ch11	53488406	snp	19	16	0.5493	0.4243	0.7368	0.0	-0.7368
SL4.0ch11	53489732	indel	18	25	0.4978	0.3933	0.6667	0.04	-0.6267
SL4.0ch11	53489801	snp	21	20	0.5167	0.4095	0.619	0.05	-0.569
SL4.0ch11	53490828	indel	15	17	0.5412	0.4314	0.7333	0.1765	-0.5569
SL4.0ch11	53492452	snp	9	8	0.6528	0.5417	0.6667	0.0	-0.6667
SL4.0ch11	53494984	indel	9	14	0.6032	0.4921	0.6667	0.0	-0.6667
SL4.0ch11	53504580	indel	18	25	0.4978	0.3933	0.6667	0.08	-0.5867
SL4.0ch11	53505368	snp	9	17	0.6013	0.4837	0.6667	0.0588	-0.6078
SL4.0ch11	53509867	snp	10	24	0.5667	0.4417	0.9	0.0	-0.9
SL4.0ch11	53511186	snp	21	30	0.481	0.3762	0.5714	0.0333	-0.5381
SL4.0ch11	53512093	snp	11	17	0.6096	0.4599	0.9091	0.0588	-0.8503
SL4.0ch11	53513788	snp	9	15	0.6	0.4889	0.6667	0.0	-0.6667
SL4.0ch11	53514561	snp	15	16	0.5458	0.4208	0.6	0.0	-0.6
SL4.0ch11	53529373	snp	13	13	0.6154	0.4615	0.6154	0.0	-0.6154
SL4.0ch11	53534577	snp	13	21	0.5311	0.4249	0.6923	0.0952	-0.5971
SL4.0ch11	53535964	snp	17	20	0.5235	0.4059	0.5882	0.05	-0.5382
SL4.0ch11	53539240	indel	11	22	0.5455	0.4545	0.5455	0.0	-0.5455
SL4.0ch11	53544465	snp	16	26	0.5192	0.399	0.5625	0.0	-0.5625
SL4.0ch11	53547624	indel	25	27	0.4637	0.3585	0.52	0.037	-0.483
SL4.0ch11	53547676	snp	20	26	0.4923	0.3808	0.6	0.0769	-0.5231
SL4.0ch11	53548195	indel	11	12	0.6439	0.4773	0.8182	0.1667	-0.6515
SL4.0ch11	53548215	snp	12	12	0.5833	0.5	0.75	0.1667	-0.5833
SL4.0ch11	53549523	snp	19	26	0.4818	0.3765	0.5789	0.0769	-0.502
SL4.0ch11	53552797	snp	21	24	0.506	0.3869	0.5714	0.0	-0.5714
SL4.0ch11	53553910	indel	19	25	0.4968	0.3895	0.8421	0.0	-0.8421
SL4.0ch11	53553954	indel	13	21	0.5311	0.4249	0.7692	0.0	-0.7692
SL4.0ch11	53555606	snp	10	16	0.5875	0.4625	0.7	0.0	-0.7
SL4.0ch11	53555792	snp	13	13	0.6154	0.4615	0.6154	0.0	-0.6154
SL4.0ch11	53556379	snp	13	18	0.5684	0.4359	0.6154	0.0	-0.6154
SL4.0ch11	53559858	snp	12	18	0.5556	0.4444	0.6667	0.0	-0.6667
SL4.0ch11	53559963	snp	10	23	0.5696	0.4522	0.6	0.0	-0.6
SL4.0ch11	53565021	snp	13	20	0.5423	0.4154	0.6154	0.05	-0.5654
SL4.0ch11	53569951	snp	17	12	0.5735	0.4412	0.5882	0.0	-0.5882
SL4.0ch11	53571836	indel	15	26	0.5308	0.4051	0.6667	0.1154	-0.5513
SL4.0ch11	53603739	snp	18	16	0.5347	0.4167	0.5556	0.0	-0.5556
SL4.0ch11	53604386	snp	13	16	0.5673	0.4423	0.6923	0.0	-0.6923
SL4.0ch11	53609026	snp	23	16	0.5272	0.4022	0.6087	0.0625	-0.5462
SL4.0ch11	53610685	indel	16	18	0.5347	0.4167	0.5625	0.0	-0.5625
SL4.0ch11	53615125	indel	15	15	0.5333	0.4	0.5333	0.0	-0.5333
SL4.0ch11	53615698	snp	11	16	0.5682	0.4432	0.6364	0.0	-0.6364
SL4.0ch11	53616014	snp	16	20	0.525	0.4125	0.625	0.1	-0.525
SL4.0ch11	53616875	snp	12	10	0.6333	0.4667	0.6667	0.0	-0.6667
SL4.0ch11	53618036	snp	10	16	0.5875	0.4625	0.7	0.0625	-0.6375
SL4.0ch11	53623993	snp	16	22	0.5227	0.4091	0.6875	0.0909	-0.5966
SL4.0ch11	53628076	snp	15	15	0.5333	0.4	0.6	0.0667	-0.5333
SL4.0ch11	53637503	snp	21	12	0.5595	0.4286	0.619	0.0	-0.619
SL4.0ch11	53639844	indel	23	25	0.4991	0.3791	0.5652	0.04	-0.5252
SL4.0ch11	53639959	indel	18	27	0.4815	0.3889	0.5	0.0	-0.5
SL4.0ch11	53640684	snp	13	22	0.542	0.4196	0.6154	0.0455	-0.5699
SL4.0ch11	53641155	indel	15	19	0.5333	0.4175	0.6	0.0	-0.6
SL4.0ch11	53654564	indel	22	22	0.5	0.3636	0.5	0.0	-0.5
SL4.0ch11	53658782	snp	15	19	0.5333	0.4175	0.6	0.0	-0.6
SL4.0ch11	53663685	snp	9	19	0.5789	0.462	0.6667	0.0	-0.6667
SL4.0ch11	53679538	snp	21	26	0.4927	0.3773	0.5714	0.0769	-0.4945
SL4.0ch11	53680356	indel	18	22	0.5152	0.404	0.5556	0.0	-0.5556
SL4.0ch11	53937114	indel	15	21	0.5333	0.419	0.6667	0.0476	-0.619
SL4.0ch12	39750822	snp	12	18	0.5556	0.4444	0.5833	0.0	-0.5833
SL4.0ch12	64387683	indel	10	22	0.5727	0.4364	1.0	0.0455	-0.9545
SL4.0ch12	66282275	snp	11	20	0.5682	0.4364	0.2727	1.0	0.7273