Fig. 5

Depiction of the bias on concatenation caused by introgression. Top left phylogeny (black) represents the proposed species phylogeny from morphological [35] and mitochondrial [54] data, with a red dotted line representing significant introgression detected by D-statistic tests. Resulting topologies of non-introgressed (blue) and introgressed (red) loci are shown on top. Below represents the binned loci (solid bars) and corresponding mutations (arrows above loci) that are colored according to the topology supported. Introgressed loci carry more mutations supporting the introgressed topology (red arrows) due to the long divergence between C. platyrhynchus and C. discobolus / C. virescens. As binning increases, every binned locus that contains both introgressed and non-introgressed loci will reflect the introgressed topology, resulting in more binned loci supporting the introgressed topology as binning increases. Phylogenies to the left of the loci represent the topology supported by ASTRAL for each level of binning with colors corresponding to above