Fig. 4

Estimates of substitution rate. Coalescent analyses were implemented using the BEAST package (v1.7.5) [31] as described in the text. This was carried out both on the entire data and the Type C isolates alone, using a variety of population models as shown. The mean value represents the mean estimated substitution rate from three independent runs. The confidence intervals represent the maximum and minimum higher posterior densities obtained. As a comparison, the estimated rates are shown alongside a predicted substitution rate of M. tuberculosis in the context of transmission [49]