Table 2 Number of breed-unique variant effects stratified by variant type and level of impact
From: Development of a whole-exome sequencing kit to facilitate porcine biomedical research
| Â | Number of samples | Total SNVs | Unique SNVs | Unique SNV effects | High effects | Moderate effects | Low effects | Noncoding effects |
Duroc | 6 | 229,685 | 314 | 1036 | 1 | 123 | 159 | 753 |
Gottingen | 6 | 367,712 | 9052 | 32,369 | 30 | 2589 | 5151 | 24,599 |
Hanford | 5 | 280,763 | 1520 | 5782 | 0 | 572 | 875 | 4335 |
Large White | 6 | 320,205 | 27 | 84 | 0 | 2 | 22 | 60 |
Meishan | 7 | 406,823 | 10,406 | 37,716 | 28 | 2565 | 5823 | 29,300 |
Oncopig | 9 | 332,524 | 235 | 778 | 0 | 97 | 93 | 588 |
Ossabaw | 9 | 325,796 | 891 | 3322 | 3 | 277 | 488 | 2554 |
Pietrain | 5 | 259,234 | 532 | 1893 | 1 | 231 | 288 | 1373 |
Sinclair | 7 | 328,441 | 1164 | 4554 | 9 | 374 | 723 | 3448 |
WMS | 19 | 325,271 | 935 | 3442 | 12 | 375 | 591 | 2464 |
Yorkshire | 5 | 284,382 | 6 | 13 | 0 | 2 | 4 | 7 |
Yucatan | 9 | 250,322 | 1914 | 6826 | 4 | 782 | 972 | 5068 |
Mean | Â | 309,263 | 2250 | 8151 | 7 | 666 | 1266 | 6212 |
| Â | Number of samples | Total INDELs | Unique INDELs | Unique INDEL effects | High effects | Moderate effects | Low effects | Noncoding effects |
Duroc | 6 | 48,515 | 76 | 286 | 14 | 0 | 2 | 270 |
Gottingen | 6 | 61,006 | 904 | 3445 | 42 | 57 | 17 | 3329 |
Hanford | 5 | 50,885 | 155 | 586 | 13 | 12 | 2 | 559 |
Large White | 6 | 56,225 | 4 | 15 | 0 | 2 | 0 | 13 |
Meishan | 7 | 65,494 | 995 | 3782 | 46 | 37 | 10 | 3689 |
Oncopig | 9 | 59,037 | 23 | 103 | 1 | 0 | 2 | 100 |
Ossabaw | 9 | 57,836 | 85 | 306 | 7 | 6 | 0 | 293 |
Pietrain | 5 | 48,453 | 50 | 167 | 3 | 6 | 0 | 158 |
Sinclair | 7 | 57,206 | 111 | 437 | 4 | 3 | 1 | 429 |
WMS | 19 | 60,030 | 65 | 279 | 6 | 11 | 2 | 260 |
Yorkshire | 5 | 51,270 | 1 | 1 | 0 | 0 | 0 | 1 |
Yucatan | 9 | 48,803 | 216 | 801 | 11 | 27 | 3 | 760 |
Mean | Â | 55,397 | 224 | 851 | 12 | 13 | 3 | 822 |