(A) Accuracy of the multiple alignments produced by different aligners on a set of nine simulated mammalian sequences of length ∼50 kb, as measured on the basis of the pairwise alignments induced by different pairs of species. The scores reported are the average of 50 simulation experiments. See the Methods section (Supplemental material) for an explanation of the R parameter. (B) Accuracy of the multiple alignments produced by different aligners on simulated human, mouse, and rat sequences of length ∼50 kb, as measured on the basis of the pairwise alignments induced by different pairs of species. The scores reported are the average of 50 simulation experiments.
