Similar regions between promoters of sspB
>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>> >>>>>> sub TTGAATGGGGAGACTTGTTTCCCGCCCGCGCTGACGAGCCTGCTCTTACAAAC-GAGATA hal ...........................................TCTCAAAAACAGAGATG ste .........................................................ATA -300 -290 -280 -270 -260 -250 >>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>]]]]]]]]]]]]]]]]]]]] sub CATGAACTGATGCTTTTTCATATTTATGACTAGCTTAGCCTAAACGGCTAAGCTTTTTTT hal GATGAGCT.....TTTTTCACCTTTGCGAAT............................. ste CATTCA-TGCTGCTTCCTCCTCT..................................... -240 -230 -220 -210 -200 -190 sub ATTTCTCAAGATTTACCACACAATTCTCCGCATGATTTTCCGGCCATTTTAACATAATAC hal ...TCTCATTAATTACCAGTTCGTTGTTTGCATGTTTTTC...CCATTTTACCGTA.... ste ......................ATTCTCACCATGCATAACAGGCAA.............C -180 -170 -160 -150 -140 -130 sub GTAGTAACAAGCCGGCAAAGCATTGGGTTACGCCGAGGCGGCAGTGACACCCGA-GAAGG hal .............................AAGCCGACGCGTCA---ACAAGCGAAGAAAT ste GAAGCCAAAAGCGGGTGGGCCGGTGGGTTCAGCCAAG....................... -120 -110 -100 -90 -80 -70 sub GTTCACAGATTGGTGCAACTCCAGTTAACCCAACCATACTAAA--TA---AAAAGGAGAT hal TTGAACAGTTCGTTGAAAC..........CGAATCATTCTATAGGTA---CAAAGGAGGT ste .........TTGGTGCAAATCCAACCACCCCAACCATCAAAAA--TTTTTAAGAGGAGAT -60 -50 -40 -30 -20 -10 sub TTTACAC hal GAGACAC ste ....... -1 > : other CDS - : gaps within a similar region ] : terminator . : gaps between similar regions } : RNAs @ : known binding sites <,[,{ : opposite direction About alignment...