FIG 3.

Prediction of recombination in the M. pneumoniae isolate chromosomes. Regions of variation in the genomes of the 35 clinical M. pneumoniae isolates and the type strain M129, which are predicted to have arisen by homologous recombination, are shown on the right. Red blocks indicate recombination predicted to have occurred on internal nodes, and blue indicates taxon-specific recombination. Isolates are ordered according to the phylogenetic tree displayed on the left. The track along the top of the figure displays the M129 chromosome and annotation, in which protein-coding sequences (CDS) are indicated in light blue.