aThe viral populations analyzed are those described in Figure 1 and Methods.
bdn/ds is the ratio of nonsynonymous mutations (corrected per nonsynonymous site) to synonymous mutation (corrected per synonymous site), calculated as described in Methods [85, 86]. Values correspond to calculations using nucleotide sequences from molecular clones (as described in Table 1).
cdn/ds calculated as in b, applied to consensus nucleotide sequences, compared with the corresponding parental clone (given in parenthesis).
dThis value was calculated with biological clones derived from MARLS, using the L (leader) protease-and capsid-coding regions.