Table 1 Basic statistics of the whole genome sequences generated by the HiSeq sequencer
Samples | Total bases (GB) | Average depth | Read 2 %Q30: 100–150 cycles | Aligned bases (GB) | Mapping ratio (%) | SNPs |
|---|---|---|---|---|---|---|
01 | 103 | 33.6 | 0.740 | 101 | 98 | 3,631,549 |
02 | 100 | 32.4 | 0.670 | 97.3 | 97 | 3,606,901 |
03 | 106 | 34.3 | 0.600 | 97.1 | 92 | 3,597,816 |
04 | 104 | 34.0 | 0.710 | 101 | 96 | 3,625,724 |
05 | 96 | 30.6 | 0.670 | 91.4 | 95 | 3,601,895 |
06 | 99 | 30.8 | 0.660 | 96.0 | 97 | 3,604,534 |
07 | 96 | 31.4 | 0.690 | 93.9 | 98 | 3,588,904 |
08 | 97 | 31.1 | 0.590 | 90.2 | 93 | 3,598,436 |
09 | 104 | 33.2 | 0.610 | 96.8 | 93 | 3,603,430 |
10 | 96 | 31.5 | 0.740 | 92.6 | 97 | 3,601,931 |
11 | 106 | 34.4 | 0.740 | 104 | 98 | 3,616,799 |
12 | 100 | 31.3 | 0.520 | 94.1 | 94 | 3,569,104 |
Mean | 101 | 32.4 | 0.662 | 96.3 | 95.7 | 3603919 |
%CV | 3.7 | 4.3 | 10 | 4.2 | 2.2 | 0.43 |