highest LOD scores above 1.00 include 4, 16, 18, and 21 for both Illumina and Affymetrix SNPs; and chromosomes 3 and 9 for Affymetrix SNPs. The distributions of the highest linkage signals on the chromosomes are generally similar for both Illumina and Affymetrix, but different for microsatellites (Figure 2). The difference in chromosome positions for highest linkage signals for the two SNP marker sets on any chromosome ranged from 2 cM to 22 cM (Table 1).
