Additional file 10.
Structure of BH14680 in (A) Bartonella and (B) other Alpha-proteobacteria. Reference sequences are (A) B. henselae Houston-1 and (B) Brucella suis. Additional strains and species included in the analysis are detailed in (A) Table S4 and (B) Table S5 in the Additional file 11. In each panel, the top plot shows the prediction of subcellular location of the reference protein, as predicted by TMHMM. The segment is colored in blue, orange and green if it has a higher probability to be located outside the cell, in the membrane or inside the cell, respectively. In the bottom graph, the approximate mean of the posterior distribution for ω = Ka/Ks is plotted for each site (an estimation of the omega value, given the model, as calculated with the Bayes empirical Bayes in model 2a of PAML). Standard deviation is indicated with a grey line. The color corresponds to the most likely ω class attributed to each site (blue, ω < 1; green, ω = 1; red, ω > 1). The x-axis corresponds to the position along the reference protein.
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Guy et al. BMC Evolutionary Biology 2012 12:65 doi:10.1186/1471-2148-12-65