Figure 3

Maximum likelihood tree of sequences identified in this study (indicated by black circles), published sequences with identical breakpoints (indicated by triangle) and reference strains inferred from full-length gagpol (A) and env (B) reading frames. For clarity purposes, the tree was midpoint rooted. The approximate likelihood ratio test (aLRT) values of ≥ 90% are indicated at nodes. The scale bar represents 0.05 nucleotide substitutions per site.