FIG. 6.

ML phylogram of the [patient + nurse 2] clade. ML BV are indicated above the branches. The branching pattern of the MP bootstrap consensus tree is identical to that shown here, and corresponding MP BV are indicated below the branches. The full V4 loop sequence is indicated for each sample. Duplication of an FNSTW motif (boxed) was observed only in JV32 and JV48 (patient plasma viral sequences) as well as in the unrelated reference sequence LAI. Horizontal brackets indicate amino acid positions sensitive to alignment parameters (see Materials and Methods) when all local control C2C4 sequences are included. These positions have been excluded from phylogeny inference analyses. Note that the position indicated by an asterisk adds support to the grouping of P with JV32 and JV48.