Similar regions between promoters of ylbD

>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>> sub GATTATACGCATCTTGGTGTCGGAGTAGACCGGAAATATTACACCCAAAACTTTATTAAG hal ...........TCTTGCTTGGCGAGAAGCCCATCAACGATAGACGATAAA........AG ste GAGTTCACCCGCTTGGGCGTTGGCGTCTACGCCGATTACTATACGCAAAACTTCTTTACG -300 -290 -280 -270 -260 -250 >>>>>>>>> ]]]]]]]]]]]]]]]]]]]]]]]]]]]]]]] sub CGATGGTAATGAAAGCCGCGGACGAATGGTTCCCGGCTTTTTCTATTTCCATACA--AGC hal GGTTGGAAAGGAAAG...................GGCATTTCCCTATTCTATAAATAAGA ste C................GTGGACGAAAGG...........TTCACATTCCGTTCC--AGC -240 -230 -220 -210 -200 -190 sub TGGTCTGAATGAATGTGCTGATAGCTTACAGATAAGGCCGTTTCCCATCCCTTCAGTCAG hal GGGTTGGAAAGGAAAGGTAGATGTCTT....AAACGTCCTTTTCCTCTTCATTC...... ste TTGCCGG..TGGATGCGATATGATATGACAGATAGG........................ -180 -170 -160 -150 -140 -130 sub GCTTTTTCACCAGTGTATAGGGATATCGCTAAAAATTCATTTGGGAATGAATATAGGCGA hal ..........................CGATAAAACGTCCTTT.................. ste ..........................CTCTAAAAATT....................... -120 -110 -100 -90 -80 -70 sub ACACAATGCCCGACAAAACGATACATTGTAGTAGGTAACGATTTTCGGAGGGGGTGAGGA hal ............AAAAAACGCTCCATTTT............................... ste ............................................................ -60 -50 -40 -30 -20 -10 sub TT hal .. ste .. -1 > : other CDS - : gaps within a similar region ] : terminator . : gaps between similar regions } : RNAs @ : known binding sites <,[,{ : opposite direction About alignment...