Figure 2.

Panel A shows the chromosomal distribution of data set 1 single nucleotide polymorphisms (SNPs) as mapped to the Zebra Finch genome with an e-value <−10. Chromosome length is significantly correlated with the number of SNPs (R² = 0.961, P-value <0.0001). The red dot corresponds to the Z chromosome loci. Panel B shows linkage disequilibrium as measured by r² (Wakeley 2008) between pairs of SNPs found on the same RADseq locus. For eight randomly chosen individuals from each population, the LOESS smoothed r² value (solid lines) plus 95% SE confidence intervals (Wickham 2009) are shown for each SNP distance.