promoter site / location on the B. cereus ATCC 14579 genome / strand / sequence of predicted promoter sites / HMMER E-scorea / gene downstream of promoter / spacing of promoter site to start codon of downstream gene (nt)
p0001 / 985242..985269 / + / ATGTTTAAAACATGAGAAAAGGGGTACT / 6.3 x 10-6 / bc1005 / 20
p0002 / 991152..991179 / - / ATGTTTAACATTTTTTTAAACGGGTATG / 1.1 x 10-5 / bc1009 / 40
p0003 / 983500..983527 / - / ATGTTTAAAACTTATAATTTTGTGTATG / 1.3 x 10-5 / bc1001 / 37
p0004 / 983598..983625 / + / ATGTTTAAAACTAATTTTTATGGGTAAT / 1.4 x 10-5 / bc1002 / 33
p0005 / 983468..983495 / - / ATGTATAAACATTATTTTTAGGGGGATC / 3.0 x 10-5 / bc1001 / 5
p0006 / 3102754..3102782 / - / AGGTTTAACATCTTTAAAATAGGTGTATT / 4.3 x 10-5 / bc3132 / 48
p0007 / 839292..839319 / - / ATGTTTACGTCCTAATAAAAAGGGTATC / 4.7 x 10-5 / bc0863 / 47
p0008 / 982039..982067 / + / ATGTTTAACATTTCGAAAATAGGTGTACT / 6.4 x 10-5 / bc0998 / 45
p0009 / 4582092..4582119 / - / ATGAATAAACTTGTCGATAATGGGTACG / 9.3 x 10-5 / bc4641 / 10
p0010 / 991212..991239 / + / ACGTTTAGAAAAGGTTAGGAAGGGTATA / 1.9 x 10-4 / bc1010 / 285
p0011 / 584508..584535 / + / ATGTATACGACTTATTAAAATGTGAACG / 2.0 x 10-4 / bc0594 / 2
p0012 / 3727517..3727544 / - / ATGATTAATAATTATTAATAGGAGGATT / 3.8 x 10-4 / bc3762 / 24
p0013 / 3194712..3194739 / - / AAGTTTCAATTTATTTTAGAAGGGTATT / 4.8 x 10-4 / bc3212 / 173
p0014 / 4478184..4478211 / + / ATGAATACATATTACGAAGAGGGGTAAC / 5.2 x 10-4 / bc4532 / 4
p0015 / 3958912..3958939 / - / ATGTAAACAACTTGTTTTAAATGGTATA / 5.9 x 10-4 / bc3981 / 242
p0016 / 4634161..4634188 / - / ATGTTAAGATTAATTGAAAAGGGGGATG / 6.2 x 10-4 / bc4695 / 4
p0017 / 5239540..5239567 / - / TTGATTAAAACTAGATAAAAGGGTTACA / 6.2 x 10-4 / bc5332 / 114
p0018 / 2862306..2862333 / - / ATTTTTAATTTTGATTAAAATGCGTATA / 7.1 x 10-4 / bc2906 / 66
p0019 / 5374546..5374574 / - / ATGTTTAATATATCTTTAAATATGGTATT / 7.9 x 10-4 / bc5449 / 99
p0020 / 775961..775988 / + / ATTTTGAAAATTTAAATACAGGTGTATT / 8.1 x 10-4 / bc0791 / 228
p0021 / 1238321..1238348 / + / ATATTTAAAAATGAATTTGAAGTGTTCG / 9.7 x 10-4 / bc1262 / 65
p0022 / 3802832..3802859 / - / AGGTATAAACACCTTTATAAAAGGTATA / 9.9 x 10-4 / bc3824 / 27
p0023 / 212455..212482 / - / ATTTTTACACATATTTTAAAGGGGCATA / 1.0 x 10-3 / bc0237 / 7

Table S3. HMMER-search for B-dependent promoter sites in the genome of B. cereus ATCC 14579

aThe E-score is a measure of fit of the promoter site to the Hidden Markov Model (HMM): the lower the E-score, the better the fit of the promoter site to the HMM.