Fig. 2

Whole genome alignment of the 15 sequenced strains using MAUVE. Regions colored in mauve are conserved across all strains. Differently colored blocks are conserved in some strains. Blocks that are lower are inverted relative to the other strains. Open boxes indicate the location of genes. tRNA genes are shaded in green and rRNA genes are shaded in red. Genes affected by the indicated variants are labeled. Numbers above intervals indicate locations relative to the M129 strain. a Alignment showing all 15 strains. b Close up of the type 2-specific insertion. M129 and FH are shown and are typical of the other type 1 and 2 strains, respectively. Lines indicate relative point of insertion. c Close up of the type 1-specific insertion. M129 and FH are shown and are typical of the other type 1 and 2 strains, respectively. Lines indicate relative point of insertion