Fig 2.

(a) A diversity plot comparing mean pairwise nonsynonymous (dN) and synonymous (dS) diversity among subtype 1a sequences to mean pairwise distances between Bole1a and subtype 1a sequences using a sliding window size of 20 codons. For this comparison, the original data set of 390 full-genome sequences was the source of polyprotein reference sequences. (b) An alignment comparison of E1E2 using Bole1a as the reference sequence, the consensus (of 390 sequences), H77, and HCV-1 sequences, and a 1b (D90208) sequence. Vertical bars indicate positions with amino acid differences between that sequence and Bole1a, and the asterisk indicates the position of HVR1.