The visualization of the estimated site-specific substitution rates in the 2D toy protein simulations.

<p>The heatmaps are based on two randomly selected alignments, one for each configuration. The substitution rates in the heatmaps are arranged according to the toy 2D protein structure. (A, B) the true substitution rates in the first and second configurations, respectively; (C, D) the substitution rates estimated by GP4Rate in the first and second configurations, respectively; (E, F) the substitution rates estimated by Rate4Site in the first and second configurations, respectively.