Expanded views of the rrn-comX genomic rearrangement site between strain SSI-1 and other GAS strains. (A) Comparison of rrn-comX region in strain SSI-1 and strains SF370, MGAS315, or MGAS8232. HP, hypothetical protein. Red arrowheads indicate the rearrangement break-point in strain SSI-1, and green lines and arrows indicate the orientation of the rearrangement in strain SSI-1 compared with strain SF370. Gray dotted lines indicate orthologous genes that are located in relatively identical positions. (B) Long-PCR analysis of rrn-comX rearrangement site. Long-PCR was performed with PCR primers 1718F and 952R, and analyzed by agarose gel electrophoresis. (C) Expanded views of the phage rearrangement site between strain SSI-1 and other GAS strains. The gene order and sequences of the rearrangement sites of strain SSI-1 are compared with those of strains SF370, MGAS315, and MGAS8232 with MUMmer and CLUSTALW programs. Arrows represent the relative orientation of the genes. HP, hypothetical protein. Red arrowheads: The rearrangement break-point in strain SSI-1. Gray and pink dotted lines indicate the orthologous genes that are located in relatively identical positions or in the inverted chromosomal regions, respectively.