Similar regions between promoters of ypsA

>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>> sub CGCATATGATGGCGCCAATTGTCCATCCTACTCATTGCTGTGAACACCATACGTTTTCGA hal ............................................................ -300 -290 -280 -270 -260 -250 >>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>> >>>>>>>>>>>>>>> sub AGACTATCGTGCCGCACATTCACCCACAGCATACAACAAACGTA-AACCACCAGCATTTT hal ....TAGCTTCCCTCATACAGTATCTCAGCA-ACAACAAGTGTACAATCAGCAGTTTTAT -240 -230 -220 -210 -200 -190 >>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>> sub CAGCACGTTCACTACTTTCCACACACTTTCTCAAATGTTGACCCGGCTACGCATCAGCAT hal CAGC.CGTTCATAGCTTCCCTCATACAGTATCTCAGCAACAACAAGTGTACAATCAGCAG -180 -170 -160 -150 -140 -130 >>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>> sub TTTCAAGCAGGAAAACCTTGCTGCGACTACTAGTATGGAAAACGTGCAGCTTGATGGTGT hal TTTTA...............CAGCAACAACAAGT--GTACAATCAGCAGTTTTAT..... -120 -110 -100 -90 -80 -70 ]]]]]]]]]]]]]]]]]]]] sub AAACAATGCAGCACAACAAATGGGGCCCACGGGAGCCCCATTTTTTAAAGCAGGTGAAAT hal .......GCAGGCCCAGGCTTTGGTCCAATGGCAGGCCCA.................... -60 -50 -40 -30 -20 -10 sub G hal . -1 > : other CDS - : gaps within a similar region ] : terminator . : gaps between similar regions } : RNAs @ : known binding sites <,[,{ : opposite direction About alignment...