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)
MM.MeSA.1	34,180,330	18,452,099 (54.0%)	16,800,280 (49.2%)	1,199,651 (3.5%)	5,057 (0.0%)	32,975,622 (96.5%)
MM.MeSA.2	31,639,579	17,992,432 (56.9%)	16,707,899 (52.8%)	766,469 (2.4%)	4,686 (0.0%)	30,868,424 (97.6%)
MM.MeSA.3	39,372,923	21,369,734 (54.3%)	20,276,209 (51.5%)	574,044 (1.5%)	6,013 (0.0%)	38,792,866 (98.5%)
MM.NT.1	40,007,254	25,155,094 (62.9%)	22,920,626 (57.3%)	1,450,893 (3.6%)	5,848 (0.0%)	38,550,513 (96.4%)
MM.NT.2	38,149,686	20,208,870 (53.0%)	18,479,007 (48.4%)	1,238,629 (3.2%)	5,726 (0.0%)	36,905,331 (96.7%)
MM.NT.3	39,810,457	22,027,097 (55.3%)	19,444,982 (48.8%)	1,993,966 (5.0%)	5,725 (0.0%)	37,810,766 (95.0%)
RG.AVIR.1	39,999,009	23,394,452 (58.5%)	21,976,095 (54.9%)	673,512 (1.7%)	6,134 (0.0%)	39,319,363 (98.3%)
RG.AVIR.2	40,086,700	20,988,088 (52.4%)	19,736,317 (49.2%)	841,951 (2.1%)	5,990 (0.0%)	39,238,759 (97.9%)
RG.AVIR.3	38,069,102	21,560,524 (56.6%)	20,539,257 (54.0%)	572,504 (1.5%)	5,697 (0.0%)	37,490,901 (98.5%)
RG.MOCK.1	41,477,375	24,062,458 (58.0%)	22,822,502 (55.0%)	612,720 (1.5%)	6,332 (0.0%)	40,858,323 (98.5%)
RG.MOCK.2	41,068,071	23,380,945 (56.9%)	22,030,325 (53.6%)	758,894 (1.8%)	6,251 (0.0%)	40,302,926 (98.1%)
RG.MOCK.3	39,578,271	23,757,974 (60.0%)	22,196,435 (56.1%)	956,100 (2.4%)	5,997 (0.0%)	38,616,174 (97.6%)
RG.MeSA.1	37,946,023	19,465,554 (51.3%)	17,977,427 (47.4%)	1,026,712 (2.7%)	5,629 (0.0%)	36,913,682 (97.3%)
RG.MeSA.2	38,554,859	21,351,700 (55.4%)	18,858,942 (48.9%)	1,808,926 (4.7%)	5,601 (0.0%)	36,740,332 (95.3%)
RG.MeSA.3	40,095,317	20,919,389 (52.2%)	18,641,441 (46.5%)	1,517,013 (3.8%)	5,747 (0.0%)	38,572,557 (96.2%)
RG.NT.1	37,427,106	20,090,886 (53.7%)	18,655,411 (49.8%)	958,057 (2.6%)	5,577 (0.0%)	36,463,472 (97.4%)
RG.NT.2	39,266,168	21,806,137 (55.5%)	19,928,703 (50.8%)	1,466,272 (3.7%)	5,786 (0.0%)	37,794,110 (96.3%)
RG.NT.3	39,939,782	21,419,758 (53.6%)	20,021,822 (50.1%)	931,588 (2.3%)	5,887 (0.0%)	39,002,307 (97.7%)
RG.VIR.1	38,167,552	20,640,966 (54.1%)	19,315,515 (50.6%)	945,003 (2.5%)	5,783 (0.0%)	37,216,766 (97.5%)
RG.VIR.2	39,647,148	26,935,878 (67.9%)	23,881,931 (60.2%)	2,180,514 (5.5%)	5,789 (0.0%)	37,460,845 (94.5%)
RG.VIR.3	38,260,313	21,171,490 (55.3%)	19,693,856 (51.5%)	1,004,630 (2.6%)	5,758 (0.0%)	37,249,925 (97.4%)