Figure 3

Pairwise genome alignments and dot matrix plots comparing the genomes of B. pilosicoli strains 95/1000, B2904 and WesB. The Artemis Comparison Tool (ACT) was used to compare the three genome sequences against each other (A). Genome sequences were aligned from the predicted oriC and visualised in ACT with a cut-off set to blast scores >500. Red and blue bars indicate regions of similarity in the same orientation (red) and inverted (blue). Dot matrix plots of the genome sequences linearised at the oriC were generated using Freckle (B). The incomplete WesB strain genome was within one scaffold. The output displays a two-dimensional plot, whereby the dots represent matched regions between the genomes. The minimum size of matched sequences was set to 20 bp.