Fig 5. Location of interstrain synonymous and nonsynonymous polymorphisms within nucleotide alignments of pil.

Nucleotide alignments of pil from Mc (n = 71) and Gc (n = 148) were analyzed for synonymous (Mc, panel a, Gc, panel c) and nonsynonymous polymorphisms (Mc, panel b, Gc, panel d). The graph demonstrates the diversity values (Theta) present amongst sequences based on the location in the nucleotide alignment. The nucleotide diversity occurring between species is demonstrated below the figures. The lines along the top indicate the conserved regions (black line), and the variable regions (dark gray boxes). The pil genes of Mc display slightly different synonymous polymorphisms near the 5′ end of the nucleotide alignment, however, the majority of pil genes within Mc and Gc possess similar locations containing synonymous and nonsynonymous polymorphisms.