Table 4.
The average, minimum, and maximum number of SNPs genotyped in individuals in the DH samples for each sequencing coverage level and filtering depth.
| No. of SNPs genotyped in individuals |
||||
|---|---|---|---|---|
| Skim level | Minimum read depth | Average | Minimum | Maximum |
| 0.25x | 5 | 24,144 | 666 | 47,800 |
| 4 | 56,014 | 1,531 | 104,674 | |
| 3 | 82,229 | 2,030 | 154,165 | |
| 2 | 243,102 | 13,850 | 404,436 | |
| 1 | 426,370 | 31,188 | 700,290 | |
| 0.5x | 5 | 62,917 | 1,216 | 128,273 |
| 4 | 127,748 | 2,957 | 241,270 | |
| 3 | 189,495 | 4,062 | 360,101 | |
| 2 | 460,405 | 26,899 | 740,728 | |
| 1 | 755,794 | 60,435 | 1,192,737 | |
| 1x | 5 | 173,476 | 2,294 | 358,718 |
| 4 | 299,618 | 5,920 | 553,618 | |
| 3 | 429,318 | 8,738 | 787,243 | |
| 2 | 836,761 | 53,316 | 1,292,317 | |
| 1 | 1,254,796 | 117,965 | 1,860,615 | |
| 2x | 5 | 511,008 | 6,083 | 983,954 |
| 4 | 736,420 | 14,846 | 1,281,324 | |
| 3 | 969,265 | 23,991 | 1,611,694 | |
| 2 | 1,489,570 | 118,138 | 2,144,288 | |