Fig. 4

Population statistics calculated across the autosomes (green) and the Z-chromosome (blue) for all three datasets (All individuals, R-strain, and C-strain). (A) Nucleotide diversity (π) and (B) Tajima’s D were calculated in 5 kb sliding windows. (C) Linkage Disequilibrium (LD) was calculated for all SNP pairs separated by 10,000 bp. This is past the LD decay asymptote, but LD remains high in the combined dataset