Fig. 6.

Heatmap of pHMM match co-occurrences for each RdRp sequence. All classified group ref, nr/nt, and TSA RdRp ORFs were used (supplementary data set 1, Supplementary Material online). For each group on the y-axis (best match pHMM), the number of co-occurrences with each group on the x-axis (second best match pHMM) was determined, and the count was normalized by the maximum count for the group given on the y-axis. Thus 1.0 is the highest co-occurrence score, whereas 0.0 corresponds to pairs of pHMMs that were never matched by the same sequence.