Fig. 3: Clonality and population structure.

a, Composition of the eight most common species as determined by SC frequencies. For each species, the isolates were grouped by SC and the SCs were ranked by their frequencies as a proportion of the dataset (top 30 SCs shown). b, The number of unique SCs as isolates were sampled. Accumulation curves were produced by randomizing the order of the isolates and counting the SCs, and then repeating this 100 times (mean values plotted). The dashed grey line indicates the x = y line. c, Distribution of pairwise core genome distances for each species. The distances were estimated using PopPunk and the points were arranged in the x direction by density to show their distributions.