Table 2

Mean linkage disequilibrium among syntenic and nonsyntenic SNPs over different map distances
D’ r2
Distance NumPairs Average SD Min Max Average SD Min Max
< 10 Kb 1,814 0.763 0.312 0.001 1 0.329 0.325 0 1
10-20 Kb 4,218 0.694 0.322 0.001 1 0.256 0.282 0 1
20-40 Kb 13,963 0.601 0.329 0 1 0.191 0.240 0 1
40-60 Kb 16,364 0.543 0.323 0 1 0.152 0.207 0 1
60-100 Kb 32,426 0.487 0.312 0 1 0.120 0.175 0 1
100-200 Kb 80,273 0.422 0.288 0 1 0.086 0.133 0 1
200-500 Kb 239,021 0.364 0.261 0 1 0.061 0.098 0 1
500 Kb-1 Mb 395,047 0.328 0.243 0 1 0.049 0.078 0 0.987
1-2 Mb 781,115 0.301 0.228 0 1 0.040 0.066 0 0.898
2-5 Mb 2,288,329 0.255 0.203 0 1 0.028 0.048 0 0.953
5-10 Mb 3,644,862 0.203 0.170 0 1 0.017 0.030 0 0.747
10-20 Mb 6,661,473 0.158 0.140 0 1 0.009 0.016 0 0.661
20-50 Mb 15,118,487 0.120 0.114 0 1 0.005 0.008 0 0.530
> 50 Mb 13,103,982 0.106 0.106 0 1 0.003 0.006 0 0.229
Non-syntenic 2,257,088 0.107 0.106 0 1 0.004 0.006 0 0.169

Average values for D’ and r2 pooled over autosomes in different categories; minimum, maximum and standard deviation are shown in this table. The same parameters for non-syntenic SNP pairs are also displayed.

García-Gámez et al.

García-Gámez et al. BMC Genetics 2012 13:43   doi:10.1186/1471-2156-13-43

Open Data