accounts for nearly 80% of cases in Pakistan, with subtype 3a being most common, followed by genotypes 1 and 2 (Afridi et al., 2014 and Attaullah et al., 2011). A previous phylogeographic and phylodynamic analysis has suggested the origin of HCV genotype 3a in the Indian sub-continent about 300 years ago (Zehender et al., 2013). It was, however, based on a limited number of study sequences from Pakistan.