Table 1.
Statistics of sequencing and read mapping for each chicken
| Chickena | Line | Raw reads | After QC (Ratio, %) | Mapped reads (Ratio, %) | Q20 Reads (Ratio, %) | Effective depth (X)b | Q20 Coverageb (%) |
|---|---|---|---|---|---|---|---|
| RES1 | 63 | 205,596,588 | 187,877,511(91.3) | 186,810,961(99.4) | 176,987,396(94.2) | 16.8 | 94.8 |
| RES2 | 63 | 234,886,526 | 207,580,222(88.4) | 206,152,608(99.3) | 193,530,549(93.2) | 18.4 | 95.0 |
| RES3 | 63 | 286,301,462 | 256,953,147(89.8) | 255,430,372(99.4) | 241,909,593(94.1) | 23.5 | 95.0 |
| SUS1 | 72 | 233,281,700 | 213,717,896(91.6) | 212,018,941(99.2) | 195,175,544(91.3) | 18.6 | 95.4 |
| SUS2 | 72 | 222,031,616 | 204,055,933(91.9) | 202,806,267(99.4) | 190,921,220(93.6) | 18.2 | 95.3 |
| SUS3 | 72 | 236,881,356 | 220,680,041(93.2) | 219,476,108(99.5) | 207,828,724(94.2) | 19.8 | 94.9 |
a RES resistant, SUS susceptible; b Calculated based on Q20 reads