From: VarGoats project: a dataset of 1159 whole-genome sequences to dissect Capra hircus global diversity
CHI | InDel number | SNP number | Number of effects | Downstream | Exon | Intergenic | Intron | Splice acceptor | Splice donor | Splice region | Transcript | Upstream | UTR 3ʹ | UTR 5ʹ | Missense | Nonsense | Silent |
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
1 | 818,757 | 4,445,377 | 12,032,012 | 458,743 | 66648 | 2,869,811 | 4,038,272 | 79 | 90 | 4866 | 4,076,351 | 453,685 | 51524 | 11943 | 21817 | 172 | 34232 |
2 | 681,619 | 3,704,710 | 11,025,471 | 500,555 | 86105 | 2,218,485 | 3,767,113 | 74 | 80 | 7110 | 3,886,499 | 493,018 | 53529 | 12903 | 27607 | 155 | 47266 |
3 | 582,990 | 3,219,852 | 9,723,073 | 683,259 | 99623 | 1,904,576 | 3,067,833 | 97 | 147 | 7253 | 3,210,217 | 676,123 | 57845 | 16100 | 34728 | 321 | 49798 |
4 | 612,055 | 3,356,824 | 10,217,296 | 402,190 | 63972 | 1,869,682 | 3,685,704 | 72 | 113 | 4137 | 3,747,652 | 394,011 | 40808 | 8955 | 21883 | 229 | 32329 |
5 | 589,455 | 3,254,170 | 10,416,604 | 608,369 | 90816 | 1,884,801 | 3,521,587 | 87 | 117 | 6961 | 3,628,991 | 604,367 | 56456 | 14052 | 28723 | 298 | 47717 |
6 | 628,940 | 3,423,894 | 9,712,976 | 356,081 | 49936 | 2,216,046 | 3,311,482 | 49 | 89 | 3940 | 3,376,966 | 352,520 | 36787 | 9080 | 16818 | 109 | 24491 |
7 | 534,662 | 2,892,084 | 9,828,378 | 636,813 | 159888 | 1,819,601 | 3,156,821 | 133 | 111 | 10127 | 3,347,312 | 631,783 | 51708 | 14081 | 63405 | 447 | 83894 |
8 | 558,356 | 3,063,425 | 9, 133,856 | 382,194 | 59762 | 1,965,117 | 3,107,183 | 63 | 69 | 4452 | 3,189,032 | 374,406 | 42124 | 9454 | 20793 | 209 | 30688 |
9 | 461,502 | 2,494,211 | 7,674,249 | 270,908 | 48106 | 1,572,204 | 2,714,425 | 138 | 46 | 3556 | 2,769,209 | 265,609 | 24246 | 5802 | 15956 | 125 | 23479 |
10 | 493,652 | 2,698,185 | 9,192,746 | 476,511 | 71317 | 1,511,953 | 3,242,782 | 52 | 96 | 5079 | 3,352,743 | 472,321 | 47467 | 12425 | 24247 | 221 | 37332 |
11 | 515,256 | 2,831,023 | 9,890,955 | 553,577 | 92208 | 1,724,793 | 3,395,147 | 92 | 136 | 7371 | 3,508,281 | 543,462 | 52415 | 13473 | 27137 | 241 | 51761 |
12 | 491,274 | 2,667,175 | 5,825,552 | 193,632 | 34358 | 1,765,985 | 1,782,658 | 33 | 48 | 2654 | 1,831,608 | 190,567 | 19095 | 4914 | 12736 | 158 | 17266 |
13 | 389,692 | 2,171,122 | 7,859,635 | 394,282 | 60365 | 1,203,702 | 2,832,529 | 77 | 91 | 4557 | 2,919,170 | 390,791 | 43851 | 10220 | 19308 | 201 | 32517 |
14 | 486,379 | 2,667,881 | 7,004,865 | 265,510 | 38581 | 1,771,173 | 2,298,648 | 41 | 52 | 3041 | 2,326,532 | 265,584 | 27828 | 7875 | 11194 | 96 | 19368 |
15 | 419,873 | 2,348,100 | 6,935,036 | 479,502 | 71589 | 1,493,439 | 2,136,669 | 53 | 84 | 4060 | 2,229,600 | 472,382 | 38348 | 9310 | 25431 | 347 | 33595 |
16 | 394,016 | 2,171,945 | 6,453,431 | 342,598 | 55559 | 1,256,466 | 2,169,250 | 56 | 60 | 4402 | 2,234,817 | 339,736 | 40836 | 9651 | 18793 | 155 | 29062 |
17 | 365,130 | 1,965,116 | 5,032,075 | 269,775 | 45016 | 1,219,875 | 1,562,271 | 38 | 91 | 3551 | 1,631,168 | 265,631 | 26028 | 8631 | 13371 | 108 | 24014 |
18 | 328,462 | 1,847,282 | 5,375,176 | 640,087 | 97496 | 1,052,854 | 1,380,659 | 112 | 152 | 6698 | 1,501,048 | 636,762 | 40352 | 18956 | 35046 | 523 | 45254 |
19 | 303,457 | 1,657,902 | 6,819,329 | 622,933 | 100340 | 808,006 | 2,215,917 | 76 | 65 | 7868 | 2,374,994 | 615,022 | 58429 | 15679 | 33492 | 286 | 57841 |
20 | 375,188 | 2,088,922 | 4,276,376 | 152,982 | 22276 | 1,434,583 | 1,232,290 | 25 | 25 | 1684 | 1,260,516 | 152,063 | 16729 | 3203 | 7060 | 39 | 11033 |
21 | 346,701 | 1,955,870 | 5,590,244 | 336,130 | 53444 | 1,238,872 | 1,791,260 | 100 | 118 | 3630 | 1,805,530 | 327,239 | 26317 | 7604 | 16845 | 199 | 24557 |
22 | 291,852 | 1,579,747 | 7,603,338 | 316,589 | 53838 | 756,258 | 3,024,571 | 51 | 52 | 4586 | 3,093,398 | 309,797 | 34524 | 9674 | 15493 | 103 | 29721 |
23 | 261,537 | 1,461,938 | 5,452,237 | 421,685 | 68240 | 852,094 | 1,785,250 | 47 | 91 | 4651 | 1,878,809 | 402,412 | 28019 | 10939 | 24936 | 313 | 34341 |
24 | 321,051 | 1,769,342 | 5,080,572 | 172,939 | 27021 | 1,192,978 | 1,727,081 | 12 | 27 | 2061 | 1,766,194 | 166,665 | 21637 | 3957 | 8023 | 62 | 14178 |
25 | 205,425 | 1,182,353 | 4,215,848 | 386,841 | 64350 | 533,065 | 1,350,422 | 47 | 88 | 4715 | 1,456,023 | 375,692 | 33162 | 11443 | 19585 | 144 | 32896 |
26 | 262,405 | 1,481,440 | 5,195,116 | 225,962 | 34955 | 839,548 | 1,896,442 | 41 | 74 | 2605 | 1,943,238 | 222,634 | 23591 | 6026 | 11600 | 139 | 16083 |
27 | 232,467 | 1,278,104 | 3,190,769 | 130,257 | 20512 | 844,522 | 1,003,995 | 32 | 31 | 1512 | 1,037,321 | 132,486 | 15547 | 4554 | 6764 | 43 | 10924 |
28 | 228,740 | 1,306,693 | 5,179,451 | 191,839 | 29690 | 693,876 | 2,002,455 | 47 | 27 | 2308 | 2,040,071 | 191,412 | 22278 | 5448 | 9736 | 66 | 14952 |
29 | 257,510 | 1,508,568 | 6,275,068 | 344,027 | 54609 | 844,994 | 2,303,306 | 65 | 78 | 3832 | 2,360,477 | 333,712 | 22868 | 7100 | 17940 | 133 | 28259 |
MT others | 1,169,447 | 5,781,172 | 9,317,433 | 534,885 | 76267 | 4,875,855 | 1,611,366 | 133 | 149 | 4586 | 1,648,637 | 520,101 | 33765 | 11689 | 22371 | 370 | 31779 |
Total | 13,607,850 | 74,274,427 | 221,529,167 | 11,751,655 | 1,896,887 | 46,235,214 | 73,115,388 | 2022 | 2497 | 137,853 | 75,432,404 | 11,571,993 | 1,088,113 | 295,141 | 632,838 | 6012 | 970,627 |