Figure 2. Comparison of the genomes of clone D and CFT073, and distribution of SNPs in clone D isolates.

The outer ring represents the genome of CFT073 [7] and the middle ring that of clone D. Both rings show insertions (red) and deletions (green) with respect to the other strain, with the distinction being determined by outgroup analysis, as described in the supporting information. Indels for which the distinction between insertion and deletion cannot be made are marked on both genomes (orange). The large indels (>10 kb) are numbered as in Table S3. The inner ring with the triangular pointers shows the SNPs found in the 14 clone D isolates. The SNPs are also numbered as in Table 2.