Fig. 4.

Top row: The fraction of methylated sites in 10-Kbp windows across the genome is correlated across growth conditions. The three panels indicate the fraction of methylated DCM sites within a 10-Kbp window that we inferred as methylated for strain SC469. We observed strong positive correlations in methylation patterns in replicate cultures of minimal M9 glucose media, slightly weaker correlations between M9 media and 96-h stationary phase cultures, and almost no correlation between patterns in rich LB media and 96 h of stationary phase. Pearson partial correlations and corresponding P-values are indicated in each plot. Middle and bottom rows, respectively: Pairwise partial correlations in DAM and DCM methylation patterns between all growth environments accounting for genome coverage. Each panel shows all pairwise Pearson partial correlations between growth conditions in the fraction of methylated sites for all 10-Kbp windows in the genome, controlling for genome and WGA coverage in each of the growth conditions.