Similar regions between promoters of ytxC

>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>> sub AGCTATGCGGCAGGCCTTTCCAATGTCAAAGCGCTGCCGTATTTTGCCGCAACGGCTGTG hal ....AAGCGGAGGATCTTACGAAGATGAAAG............................. ste .................................CTGCCGTAGTCGGC............. -300 -290 -280 -270 -260 -250 >>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>> sub GGAATCATCCCTGGGACGATTGCGCTTAATGTGCTGGGTGCGAGCTTTTTGGCTGGCAAT hal ............................ACGGGCGGGATGCTATGTTTTT.......... ste ........................................CGATCCTTTTGGGGCACCCT -240 -230 -220 -210 -200 -190 >>>>>>>>>>>>>>>>>>>>>>>> >>>>>>>>>>>>>>>> >>>>>>>>>>>>>>>>>> sub CTGCCCGCTTTCTTTATGGTGCTC-GCTTTGTATATCGTGT-TTATCTCATTGCCGTTCA hal ......................................TGT-TTTTCTAA.......... ste CTCCTCGAACAATGAACGCCGCTAAGCTTTGTATATTGTTTCTTATTTAATTG....... -180 -170 -160 -150 -140 -130 >>>>>>>>>>>>>>>>>>>>>>> >>>>>>>>>>>>>>>>>>>>> sub TCTTCAGAAAGAAAATGCAAAAC-TTGTTCCAAGAATCAAATTAAGATTTGCCAATGACC hal ....CGGCAAGAAAAGACGAAA........................ATTCGCTAAAGAAC ste .......AAACAAAACACAACATATTGTTTC............................. -120 -110 -100 -90 -80 -70 sub TTTACGTCTATTTTAAAAACATCCCCCATATACTTGTAACAGATGCCGTAAGGGGGGACA hal GGCAAGAAAAGACGAAAAACAATCATCATGT............................. ste .......................CCCCATATA.................AAGGGGGGACA -60 -50 -40 -30 -20 -10 sub AAC hal ... ste ... -1 > : other CDS - : gaps within a similar region ] : terminator . : gaps between similar regions } : RNAs @ : known binding sites <,[,{ : opposite direction About alignment...