Table 3.
List of misplaced SNPs in the genome assembly Btau 4.2 in comparison to the improved assembly UMD 3.1.1.
| Btau 4.2 | UMD 3.1.1 | ||||||
|---|---|---|---|---|---|---|---|
| rsID | Synonym | Chr | Index Chr | Position bp | Chr | Index Chr | Position bp |
| 41646101 | BTA-49243 | 1 | 370 | 24,597,406 | 1 | 368 | 24,338,769 |
| 43237745 | ARS-BFGL-NGS-101533 | 1 | 781 | 51,186,654 | 1 | 788 | 51,033,230 |
| NA | BTA-45006 | 2 | 179 | 10,760,381 | 4 | 1,915 | 33,987,225 |
| 109129646 | ARS-BFGL-NGS-31620 | 3 | 1,048 | 77,548,374 | 2 | 1,739 | 118,217,699 |
| 41661711 | BTA-94835 | 3 | 1,049 | 77,635,918 | 2 | 1,738 | 118,130,312 |
| 41665543 | BTA-98418 | 3 | 1,050 | 77,712,209 | 2 | 1,737 | 118,054,344 |
| 109560518 | ARS-BFGL-NGS-16314 | 3 | 1,970 | 127,186,019 | 22 | 1,024 | 61,258,859 |
| 43504210 | ARS-BFGL-NGS-105794 | 3 | 1,971 | 127,245,912 | 22 | 1,023 | 61,199,665 |
| 110389139 | ARS-BFGL-NGS-92218 | 3 | 1,972 | 127,272,424 | 22 | 1,022 | 61,172,869 |
| 109112664 | ARS-BFGL-NGS-67185 | 3 | 1,973 | 127,296,240 | 22 | 1,021 | 61,149,265 |
| 29018845 | rs29018845 | 3 | 1,974 | 127,346,352 | 22 | 1,020 | 61,099,118 |
| 43505889 | BTB-00297874 | 3 | 1,975 | 127,377,195 | 22 | 1,019 | 61,069,286 |
| 110104891 | ARS-BFGL-NGS-4905 | 3 | 1,976 | 127,407,117 | 22 | 1,018 | 61,040,701 |
| 110739182 | ARS-BFGL-NGS-25064 | 3 | 1,977 | 127,432,016 | 22 | 1,017 | 61,015,806 |
| 41586006 | BTA-55057 | 3 | 1,978 | 127,462,142 | 22 | 1,016 | 60,985,682 |
| 109051741 | ARS-BFGL-NGS-30266 | 3 | 1,979 | 127,516,161 | 22 | 1,015 | 60,930,725 |
| 110904383 | ARS-BFGL-NGS-33950 | 3 | 1,980 | 127,552,306 | 22 | 1,014 | 60,897,444 |
| 29011651 | BTA-03895 | 3 | 1,981 | 127,572,719 | 22 | 1,013 | 60,877,108 |
| 43506988 | ARS-BFGL-NGS-90519 | 3 | 1,982 | 127,599,954 | 22 | 1,012 | 60,850,524 |
| 110144486 | ARS-BFGL-NGS-70541 | 3 | 1,983 | 127,660,653 | 22 | 1,011 | 60,785,491 |
| 111007440 | ARS-BFGL-NGS-58676 | 3 | 1,984 | 127,710,668 | 22 | 1,010 | 60,736,089 |
| 109871231 | ARS-BFGL-NGS-114675 | 3 | 1,985 | 127,759,149 | 22 | 1,009 | 60,691,260 |
| 110218851 | ARS-BFGL-NGS-42322 | 3 | 1,986 | 127,790,957 | 22 | 1,008 | 60,659,773 |
| 110564524 | BTA-74753 | 5 | 178 | 10,108,998 | 5 | 1,330 | 103,472,289 |
| 110171642 | ARS-BFGL-NGS-1422 | 5 | 179 | 10,175,658 | 5 | 1,331 | 103,539,042 |
| 110040410 | ARS-BFGL-NGS-101402 | 5 | 180 | 10,211,997 | 5 | 1,332 | 103,583,249 |
| 109446437 | ARS-BFGL-NGS-30033 | 5 | 181 | 10,288,674 | 5 | 1,333 | 103,659,884 |
| 41592968 | BTA-74776 | 5 | 182 | 10,456,513 | 5 | 1,334 | 103,821,233 |
| 109366282 | ARS-BFGL-NGS-678 | 5 | 183 | 10,495,942 | 5 | 1,335 | 103,860,658 |
| 109046936 | ARS-BFGL-NGS-18320 | 5 | 184 | 10,545,228 | 5 | 1,336 | 103,911,258 |
| 109283161 | BTA-143449 | 5 | 185 | 10,590,963 | 5 | 1,337 | 103,957,794 |
| 109955767 | ARS-BFGL-NGS-118997 | 5 | 186 | 10,669,337 | 5 | 1,338 | 104,038,847 |
| 110253084 | ARS-BFGL-NGS-52457 | 5 | 187 | 10,744,828 | 5 | 1,339 | 104,116,518 |
| 41654485 | BTA-74821 | 5 | 188 | 10,769,105 | 5 | 1,340 | 104,140,809 |
| 110872738 | ARS-BFGL-NGS-26592 | 5 | 189 | 10,815,342 | 5 | 1,341 | 104,188,186 |
| 110035083 | ARS-USMARC-201 | 5 | 190 | 10,857,544 | 5 | 1,342 | 104,230,386 |
| 4.5010507.4 43521798 | BTB-00316147 | 7 | 989 | 61,935,287 | 17 | 229 | 12,137,554 |
| 43696553 | ARS-BFGL-NGS-69516 | 12 | 760 | 53,996,667 | 12 | 755 | 53,756,393 |
| 4.5010507.4 42103498 | ARS-BFGL-NGS-77278 | 19 | 544 | 34,916,761 | 26 | 753 | 46,541,332 |
| 41255607 | BTB-00780480 | 20 | 606 | 38,986,288 | 20 | 602 | 36,757,600 |
The misplaced SNPs confirmed by UMD 3.1.1 (based on discrepancy in SNP position or chromosome) are marked gray.