Intragenic σ54 ChIP-seq peaks.

a Unique ID; IS = Inside a gene in the Sense orientation, IA = Inside a gene in the Antisense orientation; each peak is assigned a unique number for cross-referencing with other datasets

b Underlined text indicates that a σ54 has been identified in the homologous position in Salmonella Typhimurium [14]

c Genome coordinate (U00096.2) of ChIP-seq peak center

d FAT = Fold Above Threshold score (indication of ChIP-seq occupancy)

e Associated motif identified using MEME; consensus positions indicated in bold

f Genome coordinate (U00096.2) of motif center

g Genomic orientation of associated motif

h Overlapping gene

i Genomic orientation of overlapping gene

j Closest, appropriately oriented, downstream gene (from the predicted transcription start site, 19 bp downstream of the motif center), excluding the gene that the binding site is within

k Distance from the predicted transcription start site (19 bp downstream of the motif center) to the start of the closest, appropriately oriented, downstream gene (bp)

l Position Specific Scoring Matrix (PSSM) score (indication of similarity to the consensus site; see Methods)

Intragenic σ54 ChIP-seq peaks.