FIG. 2.

Phylogenetic analysis of HCV envelope sequences (753 nt) from subjects with fast (FP1 to FP5) and slow (SP1 to SP10) progression of liver fibrosis. Asterisks indicate the three subjects found to have mixed infections (more than one clade). Sequences from visit 1 are indicated in red, and those from visit 2 (4 years later) are indicated in green. The phylogenetic model was HKY85 with invariant sites, and rate variation was modeled using a gamma distribution. An initial neighbor-joining tree was used in a heuristic search, with tree bisection-reconnection branch swapping performed 10 times.