Quasispecies analysis of HCVp0 populations passaged in the absence or presence of ribavirin and guanosinea.

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.