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Table 2 Mean linkage disequilibrium among syntenic SNPs over different map distances, pooled over all autosomes.

From: Extent of genome-wide linkage disequilibrium in Australian Holstein-Friesian cattle based on a high-density SNP panel

Distance N Mean D' SD (D') Median D' Mean r2 SD (r2) Median r2 25th percentile r2 Min no SNP required to cover genome
0–1 kb 3856 0.99 0.09 1.00 0.767 0.335 0.989 0.496 3,000,000
1–10 kb 1475 0.95 0.16 1.00 0.592 0.374 0.619 0.205 300,000
10–20 kb 546 0.87 0.24 1.00 0.402 0.352 0.280 0.082 150,000
20–40 kb 1089 0.80 0.28 0.97 0.309 0.311 0.186 0.057 75,000
40–60 kb 829 0.66 0.33 0.71 0.196 0.235 0.114 0.027 50,000
60–100 kb 1529 0.61 0.34 0.64 0.153 0.210 0.066 0.015 30,000
100–200 kb 3899 0.54 0.33 0.52 0.108 0.156 0.047 0.013 15,000
200–500 kb 11202 0.46 0.31 0.41 0.073 0.106 0.034 0.009 6,000
0.5–1 Mb 18082 0.41 0.29 0.36 0.057 0.083 0.026 0.006 3,000
1–2 Mb 36272 0.38 0.28 0.33 0.049 0.076 0.022 0.005 1,500
2–5 Mb 103940 0.34 0.26 0.27 0.036 0.056 0.016 0.004 750
5–10 Mb 163439 0.27 0.23 0.21 0.024 0.038 0.010 0.002 300
10–20 Mb 285318 0.21 0.19 0.15 0.013 0.022 0.006 0.001 150
20–50 575734 0.14 0.14 0.10 0.006 0.010 0.002 0.001 60
> 50 Mb 359680 0.11 0.12 0.08 0.003 0.007 0.001 0.000 NA
Non-syntenic 365400 0.11 0.11 0.07 0.003 0.005 0.002 0.000