Similar regions between promoters of cah

>>>>>>>>>>>>>>>>>>>>>>>>>>> >>>>>>>>>>>>>>>>>>>>>>>>>>>>>>> sub GGCTAACGGATTAGGTGTGACAATGGC--ACCGAATATGGTCAGAAGGGATAAAGATCCG hal .......GGAATCAATGCGGCGATGGCTTACCGAGACCGGTTAGA............... -300 -290 -280 -270 -260 -250 >>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>> sub GGTGTGATCTATTTATCGATTCAATCCGCGCCATCACGAACCCTCGTCTTTGTCTTTTTA hal ........................................................TTTA -240 -230 -220 -210 -200 -190 >>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>> sub AAGAACCGCTATGTCAGTCTGACGGCCCAGGCCTTTATGGAACTAAGCCGGGAAAGTCTT hal AAGAAACGGTTTTT............................................TT -180 -170 -160 -150 -140 -130 >>>>>>>>> >>>> >>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>> sub AAACAAACG---TTTG---ATGAAGGCTGTCTGGGAAACAAAGATGAAAATATTTAGAAA hal AAAGAAACGGTTTTTGTTCATTAAGGAAATCTAGTAATAAAAGATTAA.AAATCTAGTAA -120 -110 -100 -90 -80 -70 sub ACAAAGACGAAACGTGGTAGTATAGGAATACAAACTAAATCTTATAAAACAAAGGGGAAT hal TAAAAGATTAAGCG.GGAAATCTAGTAATAAAAGATTAAGC........CAAGGGGGAAT -60 -50 -40 -30 -20 -10 sub AATCGGAA hal CA...... -1 > : other CDS - : gaps within a similar region ] : terminator . : gaps between similar regions } : RNAs @ : known binding sites <,[,{ : opposite direction About alignment...