PAML analysis of the carnivore TFRC gene.

a)Datasets consisted of the aligned sequences of Felis catus, Felis chaus, Otocolobus manul, Puma concolor, Lynx canadensis, Leopardus pardalis, Caracal caracal, Neofelis nebulosa, Prionailurus bengalensis, Panthera leo, Canis lupus familiaris, Canis latrans, Canis mesomelas, Vulpes vulpes, Neovison vison, Procyon lotor, and Ailuropoda melanoleuca, or the indicated subset of these. In some cases, the sequence from horse (Equus caballus) was used as an outgroup.b)Twice the difference in the natural logs of the likelihoods (2Δl) of the two models (M8a-M8) being compared. The p-value indicates the confidence with which the null model (M8a) can be rejected in favor of the model of positive selection (M8).c)dN/dS value of the class of codons evolving under positive selection in M8, and the percent of codons falling in that class.d)The tree length is the number of substitutions per site along all branches in the phylogeny. It is calculated as the sum of the branch lengths, and is a representation of total diversity in the dataset.e)Codons assigned to the class evolving under positive selection in M8 with a posterior probability >0.95 by naive empirical Bayes (NEB) analysis (** p>0.99). Coordinates correspond to the dog protein.