Additional file 4.
Figure S1. Robustness of dN/dS estimates to saturation in Diptera usp dataset. The accuracy of the estimate of the β distribution function was tested by re-performing the Codeml analysis (under model M7) on 50 simulated alignments, which were generated with Evolver in the PAML package using the global parameters established for the real usp Diptera dataset (number of sequences, sequence length, topology and branch lengths of the tree, β distribution function for dN/dS, Ts/Tv ratio, codon usage). Bold lines are the same as in Figure 2: Drosophilidae: red; Diptera: purple; Lepidoptera: orange; Tenebrionidae: green; Blattaria: blue. A thin pink line was added for each ones of the 50 re-analysis of the simulated alignments.
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Chaumot et al. BMC Evolutionary Biology 2012 12:199 doi:10.1186/1471-2148-12-199