Similar regions between promoters of ydhM

<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<< <<<<<<<<<<<<<<<<<<<<<<<<<< sub AATAAAAAAAATCCTGATTACAAAAAATGTCAT-AAACAAATTTTGTAATCAGGATTTTA hal ................AGTTCATATTATATCGTCAAACAACTCCTATTCTCATGATGTTA -300 -290 -280 -270 -260 -250 <<<<<<<< <<<<<<<<< <<<<<< sub CGGTTCCT--GGTAGACAC--CCTCAAACCATATTATTGAGGTTATACA---AGTGATAA hal GGATGCAAAAGATACAAACATCATTAAATAAAAGTATAGACATTTAAAATTAATTGATTA -240 -230 -220 -210 -200 -190 sub TAGCTATTTAATTGATTCGTTTCCGTTGATGAGTGTACCACATTATGAATGAATCTTCCA hal TAATTAT............................................AAACATCAT -180 -170 -160 -150 -140 -130 sub TAGAAAAATTTATAAAACGGTGAACCGGAAAAAAATATGATTATATTTATTTTATAAAAG hal TAAATAAAAGTATAGA-CATTTAAAATTAATTGATTATAATTATA.TCATTAAATAAAAG -120 -110 -100 -90 -80 -70 sub TATAGACATTTAAAATTAAATGACTATAATAATC----AATGTAAGCGTTT-TAATAACA hal TATAGACATTTAAAATTAATTGATTATAATTATAGGAGAGTGAAAGCGCTTATCATAAAA -60 -50 -40 -30 -20 sub GGGGGGATAGCAG hal AAGGAGCT..... -10 -1 > : other CDS - : gaps within a similar region ] : terminator . : gaps between similar regions } : RNAs @ : known binding sites <,[,{ : opposite direction About alignment...