Summary of mutational and recombination changes in the 3 V. cholerae genomes

*Excludes SNPs in regions thought to have undergone recombination, the ctx region, the integron and rrn operons. NS, non-synonymous, S, synonymous, NC: non coding.?The number in brackets is number of SNPs extrapolated to the whole genome, taking into account of the proportion of the genome having undergone recombination. We excluded the ctx, integron and rrn operons in the calculation of total genome size for this purpose. These were used for calculating branch lengths for fig 1B and divergence times.?The number in brackets is number of genes carrying at least 1 non-synonymous SNP.��The number in brackets is number of recombination regions that contain genes with ratio of synonymous to non-synonymous substitution rate less than 4.?The number in brackets is number of genes with ratio of synonymous to non-synonymous substitution rate less than 4.