Fig. 2

Quality and equity metrics for the three groups of multiple sequence alignments created. a A cladogram representing a species tree of the primates used in this analysis [44]. For each species, the branch width represents the percentage of multiple sequence alignments produced (out of 331) that contain that ortholog. All species were represented in over 50% of the alignments. Only white-cheeked gibbon and black snub-nosed monkey were represented in fewer than 75% of the alignments. b The number of species/sequences represented in the final 331 multiple sequence alignments, illustrated for each of the three categories of genes. c Tree length is the sum of the branch lengths along the tree or, in other words, the average number of nucleotide substitutions per site in an alignment. The relative frequencies of lengths are plotted as a separate histogram for each category, and the average tree length of each category is indicated in the legend