Figure 3.

a, b, c, d - Frequency of the estimated genetic diversity across the simulated genome. (a) True genetic diversity calculated by expected heterozygosity for the ungenotyped marker loci within the marker interval (H_exp_TRUE); (b) Estimated genetic diversity with IBD probabilities between marker haplotypes (GD_IBD); (c) Estimated genetic diversity with expected heterozygosity as an average for the two flanking markers (H_exp_AVG); (d) Estimated genetic diversity with expected heterozygosity for the two flanking markers as a two marker haplotype (H_exp_HAP2).