Table 2.

Alignment statistics for seven data aligned with BWA MEM

Samples	Paired reads in sequencing	Properly paired	Read 1	Read 2	Mapped reads	Unmapped reads	Read-pair optical duplicates	Duplication percentage
100	68,707,848	67,621,688	34,353,924	34,353,924	68,767,520	65,069	424,113	0.150270
101	63,257,546	61,244,026	31,628,773	31,628,773	63,328,202	61,270	401,670	0.151691
102	53,829,452	52,945,158	26,914,726	26,914,726	53,969,040	49,300	315,834	0.141146
103	66,354,504	64,700,696	33,177,252	33,177,252	66,417,218	64,207	445,562	0.159041
200	65,665,024	63,758,102	32,832,512	32,832,512	65,809,832	249,151	19,714	0.144086
201	70,450,022	68,075,954	35,225,011	35,225,011	70,636,251	249,453	21,555	0.274010
202	64,102,632	63,080,570	32,051,316	32,051,316	64,296,060	222,177	27,934	0.057078