Fig. 3

Core genome comparison shows a cluster of strains with core genome sequences that are less than 100 SNPs different from each other (indicated as “Node A”). Strain P125109 was used as the reference genome sequence for the core genome comparison. All pairwise genome comparisons covered more than 97% of the reference genome sequence. Among the 60 sequences compared in the tree, there were 2452 aligned positions for which there was a sequence difference in one or more of the genome sequences of the strains