Conservation analysis of σ54 binding sites.

Heat-maps depicting the match to the σ54 consensus binding site for each (A) canonical and (B) non-canonical σ54 binding site across a range of bacterial species. Genera are listed across the top, binding site ID numbers, and fold above threshold (FAT) scores in parentheses are listed to the left of the heat-map. For σ54 binding sites in panel A, the gene immediately downstream of each binding site is indicated to the right of the heat-map. (C) Comparison of the level of σ54 binding, as indicated by FAT score (Tables 1 & 2), versus Motif Score (S5 Table) for E. coli only. Different classes of binding site are indicated by color.