Additional file 5.

Phylogenetic trees reconstructed from sequences obtained from patient P11 samples. Maximum likelihood tree reconstructed from full length NS5A region sequences obtained from samples of P11 (NR) plus reference sequence of genotype 1b HCV-J. The number of 1000 permuted trees supporting a clade indicated when that proportion was greater than 70%. The same quasispecies are colored in red. The clades selected for selective pressure analysis are indicated by a gray line (clade 1, ω = 0.5783 and clade 2, ω = 0.2685).

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Jardim et al. BMC Infectious Diseases 2013 13:61   doi:10.1186/1471-2334-13-61