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)
BES1i.d.1	20,572,604	1,176,730 (5.7%)	1,150,793 (5.6%)	23,962 (0.1%)	2,406 (0.0%)	20,546,236 (99.9%)
BES1i.d.2	21,933,331	1,288,819 (5.9%)	1,227,220 (5.6%)	53,219 (0.2%)	2,371 (0.0%)	21,877,741 (99.7%)
BES1i.d.3	22,505,853	1,194,263 (5.3%)	1,155,789 (5.1%)	27,451 (0.1%)	2,228 (0.0%)	22,476,174 (99.9%)
BES1i.g.1	20,849,977	1,140,713 (5.5%)	1,120,707 (5.4%)	20,877 (0.1%)	2,523 (0.0%)	20,826,577 (99.9%)
BES1i.g.2	22,084,042	1,205,926 (5.5%)	1,171,111 (5.3%)	25,346 (0.1%)	2,304 (0.0%)	22,056,392 (99.9%)
BES1i.g.3	20,991,357	1,122,079 (5.3%)	1,096,129 (5.2%)	23,626 (0.1%)	2,488 (0.0%)	20,965,243 (99.9%)
WT.2.1	19,661,692	1,557,660 (7.9%)	1,649,510 (8.4%)	0 (0.0%)	3 (0.0%)	19,661,689 (100.0%)
WT.2.2	26,277,909	1,940,752 (7.4%)	2,091,709 (8.0%)	5 (0.0%)	5 (0.0%)	26,277,899 (100.0%)
WT.2.3	34,559,704	2,542,541 (7.4%)	2,728,790 (7.9%)	6 (0.0%)	2 (0.0%)	34,559,696 (100.0%)
WT.4.1	34,324,850	2,119,905 (6.2%)	2,262,790 (6.6%)	3 (0.0%)	1 (0.0%)	34,324,846 (100.0%)
WT.4.2	39,129,208	2,620,862 (6.7%)	2,854,665 (7.3%)	8 (0.0%)	9 (0.0%)	39,129,191 (100.0%)
WT.4.3	34,386,169	2,100,858 (6.1%)	2,232,988 (6.5%)	9 (0.0%)	1 (0.0%)	34,386,159 (100.0%)
WT.E.1	13,576,170	1,872,076 (13.8%)	1,938,261 (14.3%)	12,219 (0.1%)	0 (0.0%)	13,563,951 (99.9%)
WT.E.2	10,624,782	1,310,142 (12.3%)	1,358,834 (12.8%)	9,162 (0.1%)	5 (0.0%)	10,615,615 (99.9%)
WT.E.3	12,710,815	1,661,578 (13.1%)	1,709,366 (13.4%)	20,359 (0.2%)	3 (0.0%)	12,690,453 (99.8%)
WT.d.1	22,330,732	2,419,203 (10.8%)	2,379,414 (10.7%)	26,848 (0.1%)	599 (0.0%)	22,303,285 (99.9%)
WT.d.2	24,179,404	2,121,240 (8.8%)	2,102,648 (8.7%)	15,027 (0.1%)	644 (0.0%)	24,163,733 (99.9%)
WT.d.3	22,941,318	2,234,668 (9.7%)	2,199,855 (9.6%)	27,788 (0.1%)	587 (0.0%)	22,912,943 (99.9%)
WT.g.1	22,637,185	2,030,722 (9.0%)	2,013,311 (8.9%)	12,860 (0.1%)	628 (0.0%)	22,623,697 (99.9%)
WT.g.2	25,305,447	2,729,011 (10.8%)	2,688,571 (10.6%)	26,746 (0.1%)	676 (0.0%)	25,278,025 (99.9%)
WT.g.3	24,989,600	2,380,949 (9.5%)	2,348,838 (9.4%)	24,286 (0.1%)	631 (0.0%)	24,964,683 (99.9%)
bes1.D.2.1	21,044,225	1,715,819 (8.2%)	1,853,955 (8.8%)	7 (0.0%)	3 (0.0%)	21,044,215 (100.0%)
bes1.D.2.2	21,299,290	1,559,070 (7.3%)	1,703,783 (8.0%)	3 (0.0%)	4 (0.0%)	21,299,283 (100.0%)
bes1.D.2.3	23,903,977	1,816,968 (7.6%)	1,950,540 (8.2%)	2 (0.0%)	2 (0.0%)	23,903,973 (100.0%)
bes1.D.4.1	34,230,406	2,267,935 (6.6%)	2,457,532 (7.2%)	10 (0.0%)	3 (0.0%)	34,230,393 (100.0%)
bes1.D.4.2	39,611,905	2,746,724 (6.9%)	2,952,320 (7.5%)	17 (0.0%)	3 (0.0%)	39,611,885 (100.0%)
bes1.D.4.3	33,766,707	2,163,993 (6.4%)	2,330,180 (6.9%)	10 (0.0%)	1 (0.0%)	33,766,696 (100.0%)
bes1.D.E.1	11,561,622	1,617,582 (14.0%)	1,658,059 (14.3%)	10,115 (0.1%)	11 (0.0%)	11,551,496 (99.9%)
bes1.D.E.2	14,346,749	1,414,016 (9.9%)	1,475,426 (10.3%)	10,141 (0.1%)	3 (0.0%)	14,336,605 (99.9%)
bes1.D.E.3	14,290,595	1,775,816 (12.4%)	1,834,151 (12.8%)	13,107 (0.1%)	4 (0.0%)	14,277,484 (99.9%)