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An Evolutionary Model-Based Algorithm for Accurate Phylogenetic Breakpoint Mapping and Subtype Prediction in HIV-1

Figure 9

An instance when a sequence assigned to subtype A by REGA is deduced to be an A-B-A mosaic by SCUEAL.

Similarity plots based on the reduced REGA alignments (only A and B subtype reference sequences) confirm that the same mosaic structure is supported using if a small enough window is selected for a sliding window analysis.

Figure 9

doi: https://doi.org/10.1371/journal.pcbi.1000581.g009