Near-full genome sequences are presented in this report for the first time of unclassified HCV strains amplified using RT-PCR from plasma of patients living in Cyprus. One strain appears to be a unique genotype-1-like isolate, displaying closer phylogenetic relationship to genotype 1 strains than other genotypes. Two isolates representing an unclassified variant of genotype 4 were also amplified, cases of which have been found elsewhere in the world in patients of central African origin and could now be assigned provisionally as new subtype 4v. The near-full genome nucleotide sequences of unclassified HCV isolates provide reference sequences of variants unknown previously, and contribute to the publicly available HCV sequence data to be used for diagnosis or research. J. Med. Virol. 83:2119–2127, 2011. © 2011 Wiley Periodicals, Inc.