Fig. 2.

SNP genotypes in 3 male morphs in ruff across the inverted region. a) Genotypes for each SNP for the inversion region +500 kb outside each breakpoint (top panel): dark blue, homozygous for independent reference allele; light blue, heterozygous for a reference and alternate allele; and yellow, homozygous for an alternate allele. b) Number of shared SNPs between satellite and independent chromosomes for each gene within the inverted regions. These were identified as SNPs homozygous among satellites (S/I). Such shared SNPs are not expected to be present unless there is genetic exchange between the 2 haplotypes.