Signatures of genome-wide phylogenetic discordance. (A) Results of sliding window-based approximately unbiased (AU) tests for each of the eight felid lineages (see Methods for details). Horizontal panels indicate genomic regions (vertical bars) that produced significantly better topologies than the species tree topology. Felid chromosomes are displayed in bars below the scale spanning the length of the feline genome. Abbreviations for lineages are as follows: (ALC) Asian leopard cat, (DOM) Domestic cat, (LYN) Lynx, (BAY) Bay cat, (PUM) Puma, (CAR) Caracal, (OCE) Ocelot, (PAN) Panthera. (B) Summary statistics for results in Figure 1A. The white bars represent the percentage of sliding windows supporting the species tree topology (black bars) with bootstrap support ≥ 70% (Hillis and Bull 1993). The gray bars indicate the proportion of nonspecies tree topologies identified by the AU test that were significantly better than the species tree (Fig. 1A).