Quasispecies analysis of HCVp0 populations passaged in the absence or presence of ribavirin and guanosine^a.

aThe populations analyzed correspond to the infections at an initial MOI of 0.1 to 0.2 TCID50/cell described in Fig. 5a. About 25% to 50% of clones analyzed did not contain the full length sequence expected from the primers used; when the alignment of the sequenced region was correct such clones were entered in the calculation. The HCV genome residue numbering corresponds to the JFH-1 genome (accession number #AB047639). The NS5A-coding region (nucleotides 6269 to 7666) was analyzed. bThe parenthesis indicates the number of clones analyzed, followed by the number of haplotypes (number of different RNA sequences); some clones did not contain the full length sequence; when the alignment of the sequenced region was correct such clones were entered in the calculation. cMutation frequency and nucleotide diversity are defined in Table 1 legend and Materials and Methods. Mutation types are summarized in Fig. 4d and their position in the HCV genome and deduced amino acid substitutions are given in Table S6.