Table 1. Linkage disequilibrium (r 2) among SNP in real and simulated Belgian Blue cattle data.
| SNP distance (in Mb) | r2 From real data | r2 From simulated data |
|---|---|---|
| 0.00–0.05 | 0.368 | 0.374 |
| 0.05–0.10 | 0.180 | 0.223 |
| 0.10–0.25 | 0.115 | 0.166 |
| 0.25–0.50 | 0.086 | 0.127 |
| 0.50–1.00 | 0.073 | 0.114 |
| 1.00–1.50 | 0.065 | 0.094 |
| 1.50–2.00 | 0.059 | 0.081 |
| 2.00–2.50 | 0.055 | 0.073 |
| 2.50–3.00 | 0.052 | 0.067 |
| 3.00–3.50 | 0.048 | 0.061 |
| 3.50–4.00 | 0.046 | 0.057 |
| 4.00–4.50 | 0.044 | 0.054 |
| 4.50–5.00 | 0.042 | 0.050 |
Abbreviation: SNP, single-nucleotide polymorphism.
The real data are derived from 777 K SNP genotypes in 275 Belgian Blue sires and the simulated data are from the same 275 sires in the Pedigree. Note that r2 was only calculated when MAF was >10% in both real and simulated data, as recommended by Hudson (1985).