Table 1 Chromosomal distribution and proportion of polymorphic markers used for computing genetic diversity and relationships (46,046 SNPs) and for population structure, LD decay and association analyses (31,983 SNPs)
Chromosome | 46,046 SNPs | 31,983 SNPs | ||||
|---|---|---|---|---|---|---|
No. of markers | Proportion | Marker density (kb) | No. of markers | Proportion | Marker density (kb) | |
1 | 6513 | 14.14% | 47.1 | 4494 | 14.05% | 68.3 |
2 | 5120 | 11.12% | 47.8 | 3560 | 11.13% | 68.7 |
3 | 5692 | 12.36% | 41.4 | 3967 | 12.40% | 59.4 |
4 | 5513 | 11.97% | 44.8 | 3857 | 12.06% | 64.0 |
5 | 4678 | 10.16% | 47.9 | 3284 | 10.27% | 68.2 |
6 | 3684 | 8.00% | 47.2 | 2492 | 7.79% | 69.8 |
7 | 3956 | 8.59% | 46.1 | 2651 | 8.29% | 68.8 |
8 | 4110 | 8.93% | 44.1 | 2863 | 8.95% | 63.3 |
9 | 3545 | 7.70% | 45.1 | 2528 | 7.90% | 63.2 |
10 | 3235 | 7.03% | 46.7 | 2287 | 7.15% | 66.0 |
Average | 4604.6 | 10.00% | 45.7 | 3198.3 | 10.00% | 65.9 |