Sample	Total read pairs processed	Read 1 with adapter	Read 2 with adapter	Pairs that were too short	Pairs with too many N	Pairs written (passing filters)
col0.leaf.1	23,024,277	625,622 (2.7%)	720,360 (3.1%)	732,034 (3.2%)	1,060 (0.0%)	22,291,183 (96.8%)
col0.leaf.2	27,354,826	735,921 (2.7%)	864,487 (3.2%)	822,435 (3.0%)	1,252 (0.0%)	26,531,139 (97.0%)
col0.leaf.3	27,318,270	747,297 (2.7%)	871,583 (3.2%)	891,925 (3.3%)	1,074 (0.0%)	26,425,271 (96.7%)
col0.seedling.0hW.1	6,124,981	198,146 (3.2%)	199,263 (3.3%)	0 (0.0%)	0 (0.0%)	6,124,981 (100.0%)
col0.seedling.0hW.2	6,614,086	223,077 (3.4%)	207,050 (3.1%)	0 (0.0%)	1 (0.0%)	6,614,085 (100.0%)
col0.seedling.0hW.3	6,320,974	201,389 (3.2%)	196,466 (3.1%)	0 (0.0%)	0 (0.0%)	6,320,974 (100.0%)
col0.seedling.1hWFR.1	6,641,376	211,143 (3.2%)	207,615 (3.1%)	1 (0.0%)	1 (0.0%)	6,641,374 (100.0%)
col0.seedling.1hWFR.2	6,392,142	209,946 (3.3%)	203,215 (3.2%)	0 (0.0%)	0 (0.0%)	6,392,142 (100.0%)
col0.seedling.1hWFR.3	6,136,582	196,506 (3.2%)	195,917 (3.2%)	0 (0.0%)	1 (0.0%)	6,136,581 (100.0%)
ox.leaf.1	21,641,409	613,368 (2.8%)	706,877 (3.3%)	872,742 (4.0%)	956 (0.0%)	20,767,711 (96.0%)
ox.leaf.2	27,827,446	767,052 (2.8%)	911,866 (3.3%)	963,175 (3.5%)	1,250 (0.0%)	26,863,021 (96.5%)
ox.leaf.3	25,841,093	721,559 (2.8%)	859,687 (3.3%)	796,670 (3.1%)	1,218 (0.0%)	25,043,205 (96.9%)
ox.seedling.0hW.1	6,128,731	197,365 (3.2%)	196,489 (3.2%)	0 (0.0%)	0 (0.0%)	6,128,731 (100.0%)
ox.seedling.0hW.2	6,501,394	207,922 (3.2%)	206,467 (3.2%)	1 (0.0%)	1 (0.0%)	6,501,392 (100.0%)
ox.seedling.0hW.3	6,475,204	216,385 (3.3%)	216,134 (3.3%)	0 (0.0%)	0 (0.0%)	6,475,204 (100.0%)
ox.seedling.1hWFR.1	6,228,406	206,988 (3.3%)	204,870 (3.3%)	0 (0.0%)	1 (0.0%)	6,228,405 (100.0%)
ox.seedling.1hWFR.2	6,322,078	208,702 (3.3%)	207,777 (3.3%)	0 (0.0%)	0 (0.0%)	6,322,078 (100.0%)
ox.seedling.1hWFR.3	6,368,502	204,984 (3.2%)	203,988 (3.2%)	0 (0.0%)	2 (0.0%)	6,368,500 (100.0%)