Table 3.
Number of SNP used for the evaluation of imputation accuracy on six chromosomes
| Chr | Chromosome-length [Mb] | Number of high-density SNP in the reference population | Average distance between two high-density SNP [bp] | Number of medium-density SNP in the validation population | Average distance between two medium-density SNP [bp] |
|---|---|---|---|---|---|
| 1 |
158.32 |
39 167 |
4042 |
2568 |
61 587 |
| 5 |
121.18 |
29 050 |
4171 |
1621 |
74 740 |
| 10 |
104.30 |
26 695 |
3906 |
1646 |
62 724 |
| 15 |
85.27 |
21 425 |
3978 |
1280 |
65 850 |
| 20 |
71.98 |
19 111 |
3764 |
1183 |
60 530 |
| 25 | 42.85 | 11 725 | 3648 | 744 | 57 533 |
Number of high-density SNP passing stringent quality parameters for the six evaluated chromosomes. The medium-density SNP are a subset of the bovineHD BeadChip collection that are interrogated with the BovineSNP50 BeadChip (version 2). SNP positions were determined based on the UMD3.1 assembly of the bovine genome.