FIGURE 4.

Z‐transformed F _ST estimates for comparisons between Arizona and Texas samples. The reads were mapped to the chicken genome, and the windows (100 kb width with 50 kb steps) were arranged according to chicken autosomal (1–33) or sex (Z, W) chromosomes. Scaffolds that were not part of the major chicken chromosomes were binned together as unplaced. We found windows within each chromosome that had high (>5 SD) levels of differentiation, and many of those windows contained genes with known function (red arrows). These data illustrate the heterogeneous landscape of genomic differentiation in Montezuma quail