Figure 4

A & B. Posterior Probability of site classes along the Rhox2 (A) and Rhox4 (B) coding aligments. Model M2 is used. Only probabilities of w2 are shown. Sites with a posterior probability higher than 0.95 are considered as having dN/dS ratios significantly greater than 1. C & D. Variation in ω across the Rhox2 (C) and Rhox4 (D) genes was modelled using Omegamap 17. We averaged over the number and position of the blocks using reversible-jump MCMC to obtain the posterior distribution of the omega. The dotted lines are the top and bottom 95% of the estimates of ω from 500,000 iterations. The black line is ω per codon smoothed over blocks of undefined size. Posterior probabilities of >0.95 (blue line) likely indicate significant ω or positive selection. The location of the largest ω values coincide with similar locations as shown in Figure 4A & B obtained from PAML analyses (see text).