Improving pairwise comparison of protein sequences with domain co-occurrence
Fig 11
HMM/HMM comparison of new domain families vs. Pfam-B domain families.
Each point is associated with one of our HMMs and corresponds to the best alignment found between this HMM and all Pfam-B HMMs. The x-axis shows the overlap ratio of the local alignment between the two HMMs; the y-axis indicates the negative log. of the alignment p-value; blue line corresponds to y = −log(10−10); while the red line corresponds to x = 0.8.