Similar regions between promoters of yodH

<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<< sub CTTTATTTAATTTGTCGAACTTGCTGTCTCCTGTGCTTGCTGATTTTTGGCCCAGGATAC hal ............................................................ ste ............................................................ -300 -290 -280 -270 -260 -250 <<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<< sub TGGAATTGCCCGTAATAAATAAAGTAAGCGCCGAAGCGACAACTGCAGTGATCAGCACAA hal ............................................................ ste .GCATTTGCGTATGATAAACCAAGT.......................TGAAAAACTAAA -240 -230 -220 -210 -200 -190 <<<<<<<<<<<<<<<<<<<<<<<<<<<< sub TAAAAAACAGTTTTAATTGCCGTTTCAATTAAACACCACCTTTTTCTTCTTACATTATTA hal .....AATATTTATATCTTTCGTTTTAATGAAGAAAGACCTTTTATATCTTTCGTTTTAA ste TAAAAAATCCTTTGTTTTGACCTT..................TTTGTTTTGACCTTGTTA -180 -170 -160 -150 -140 -130 sub TCATGGACGAATTCTTATTCGTCAACTCGGAGCAGAAATGAAAGAGAAACGCCCTTCTTT hal TGAAGAAAGACCTC.....................................CCCTTTTAC ste GGGTG--CGAAATGTGAGTCATAA.........AAAAACTAAATAAAAAATCCTTTGTTT -120 -110 -100 -90 -80 -70 sub TGCTTTTCATAAACCTATGTCTTTATACGACATAT-GATAAGGAAAAAGGAGGATTCGAT hal TGTCTGTCCTCACTATATGTAT....ACACCATATTGATAAGAAATTCTAAGCATTCGCT ste TG.....................................ATGGTAAAAAAAGGATT.... -60 -50 -40 -30 -20 -10 sub A hal A ste . -1 > : other CDS - : gaps within a similar region ] : terminator . : gaps between similar regions } : RNAs @ : known binding sites <,[,{ : opposite direction About alignment...