Similar regions between promoters of gerM

>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>> sub CAGCCCGGGAAGTCAGCACAATTCTCTCTTATAAAGGGCTGCTGAACCAGTCTCCGATTG hal .................ATAATTCTTTTTTA............................G ste .........................................CTGCTTCATTCTCCGAAAC -300 -290 -280 -270 -260 -250 >>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>> >>>>>> sub CCCCGGATCATCAGTTCCTGACAACAGGGGCGCGTGATCAGTTTGCAAAAATC-GCAGAC hal CACCAGAACATCATTTTTACACAAC-GGGTGATGCGAAAAGCTTCAAGCGATTAGCAGAT ste AGCCGGTGCAGCAG.............................................. -240 -230 -220 -210 -200 -190 >>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>> >>>>>>>>>>>>>>>>>> sub GATTGGTTTGGCCATGAAGTCGGGCATGTGGAATGTATCT--CACTGCAAGAACCGATTA hal GTCTGGTTAG...................GAAATGAATGTTCCAGGGGTAGAAACGATTA ste ...........................................................A -180 -170 -160 -150 -140 -130 >>>>>>>> ]]]]]]]]]]]]]]]]]]]]] sub AAAGATAGTTTTCCCCCGCAACGGTATGTTGCGGGTTTTTTTCTGTTTTGCCGGAATTCT hal ...................................TTTTTTACGGCTTTTCCAAGATAGA ste GAAGGTGGTTTTCATCC.......TATCTTTCGGACTTTTT................... -120 -110 -100 -90 -80 -70 sub TCGGTCTATTTCCTAAAGAGGCTCGTATACATAATAGTACAAACATCCT-TAGGAGGGAA hal T-GGTCTAATTTGTGGGCAGGCTCGTATACATT-TAGTACAAACATGCT-GAGGAGGGAA ste ...GTCTATTTTGGAAAACGGCTCGTATACATAGTAGTACAAACTACGAGTAGGAGGGAA -60 -50 -40 -30 -20 -10 sub AAGT hal TAG. ste .... -1 > : other CDS - : gaps within a similar region ] : terminator . : gaps between similar regions } : RNAs @ : known binding sites <,[,{ : opposite direction About alignment...