Summary of patients, sequence data sets and recombination analysis results.

The “source” column represents the study (HCV-monoinfection, HCV/HIV-coinfection) in which samples were obtained originally. For the HCV-monoinfection study, samples were obtained from 78 patients and the numbers indicated in the “amplified samples” column yielded successful amplificates before (HCV0) and after (HCVT) antiviral treatment. For the HCV/HIV study, the two groups correspond to patients without any treatment (HCV0-0) or having been treated for HIV infection (HCV0-T). SD indicates standard deviation of the number of sequences obtained from each sample and “Freq.” denotes the frequency of samples in which at least one recombination event has been detected.