Fig. 2
From: Estimating statistical significance of local protein profile-profile alignments
Distance between distributions against goodness of fit for different values of s and r. Each point represents the average over all distributions obtained for different pair values of profile attributes. Vertical bars represent one standard deviation. Gray and black colors show the results obtained with and without considering the compositional similarity between profiles, respectively. (a): Results obtained using S=1012 seed profiles. (b): Results for three different seed profiles (S=1) used to generate M=1000 source MSAs with s=9 and r=0.03. In this case, the results obtained with and without considering compositional similarity coincide