FIG. 5.

Heat maps of contrast alignment sequence-to-pattern matches for major subtrees within the de novo (optimized) PRTaseII hierarchy in Figure 3B and, for three of these, subLLR(z,h) plots. Rows and columns in each heat map correspond to patterns and nodes, respectively, as in Figure 4. Using the same color scheme as in Figure 3, the blocks above each map indicate to which subtree the node in that column belongs. The blue and red horizontal bars directly below each map correspond, respectively, to the foreground and background partitions for each contrast alignment; the short black bar corresponds to the rejected sequence node; the remaining nodes are assigned to the nonparticipating partition. (A) The heat map and plot associated with the subtree rooted at node 49. (B) Subtree 3 heat map. The subLLR(z,h) is >1,571 nats for each foreground node z. Note that background nodes for subtrees 2, 29, and 40, but not 48, share some pattern matches with the foreground. (C) Subtree 2 heat map and plot. (D) Subtree 40 heat map. The subLLR(z,h) is >2,352 nats for all foreground nodes. (E) Subtree 29 heat map and plot. Note that the subLLR(z,h) for both nodes 35 and 46 is slightly negative (plotted in red). (F) Subtree 48 heat map. The subLLR(z,h) is >444 nats for all foreground nodes.