Figure 2: Manhattan plots for genomic location of SNPs highly associated with morphology. A) Shown are 67 SNPs associated with head shape across the four lakes of two ecomorphs of charr. B) Shown are 144 SNPs associated with body shape. SNPs associated with head or body shape are highlighted in blue; SNPs associated with both head shape and body shape are highlighted in orange (38 SNPs). Red asterisk indicate SNPs shared across all four ecomorph pairs for head shape (N=2) and body shape (N=9). SNPs on unanchored scaffolds are not pictured.

Figure 3