Molecular clock estimates and compatibility probabilities for the pol and env sequences.

Compatibility is expressed as the proportion of trees in the posterior sample that is compatible with the indicated transmission event after removal of 10% as burn-in. The mean evolutionary rate and highest posterior density (HPD) intervals are expressed as the number of nucleotide substitutions (10−3) per site per year. The coefficient of variation represents the scaled variance in evolutionary rate among lineages. The time to the most recent common ancestor (tMRCA) represents the time since the most recent sampling date (24/03/2006), and is expressed in years.1The percentage of sampled genealogies with an entirely compatible coalescent history (C) are listed for the transmission histories assuming A as the original source (AB) as well as B as the original source (BA).2DRMs = drug resistance mutations. See [18] for an overview of the removed positions.