Similar regions between promoters of spoVID

>>>>>>>>>> >>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>> sub CTGATTTGAA-GCTGTTCGCAAGCTATTATAAAGGGATGGCAAATGAAGGGGTATTCCTT hal CTCTTGTGAACGTTTTTCGCAAG.......AACTGAATTCCAGATGAGGAGGAAT..... ste CCGACTTGGA-GCTGTTTGCCGCCTATTATCGGGAAATGGCGAATGAAGGCATTTTCCTG -300 -290 -280 -270 -260 -250 >>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>> sub CCGCCATCACAATTCGAAGGTCTTTTCCTCTCAACGGCCCATACTGATGAAGATATTGAA hal .....................CTTTTAATCTAAAAAGCACAAATCCATAGGCATAT.... ste CCGCCGTCGCAATTTGAAGGGCTGTTTTTGTCGACGGCGCACAGTGATGATGATATTGAA -240 -230 -220 -210 -200 -190 >>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>> sub AACACAATCCAGGCAGCTGAGAAAGTATTTGCTGAGATCAGCCGCAGATAAGAGTGAAAA hal ..........AGCAAGGAGAGAAAG-ACAAGCTGTGTTCA.................... ste TATACGATTGCCGCTGCTGAGCGGGTGTTTGC........GCCGCCTATTATCGGGAAAT -180 -170 -160 -150 -140 -130 sub CCGGTATCAAGGACTCCTTGTGCCGGTTTTTTCGTGCTCTCCCACTCATATTTTCTCCAG hal .........................GTTTTTTTATTCTCTTGTGAACGT-TTTTCGCAAG ste GGCGAATGAAGGCATTTTCCTGCCG....................TCATACCGCCTCGTT -120 -110 -100 -90 -80 -70 sub TTCATACATACACCTT-TAGTGACATCTAAT---TTTAAGGATTAGATGAAAGGAGGATA hal TGACAATCTGCCCCTT-T.......................................... ste TCCGTTCATACAATGGATAATGTCATAGAAACCATTTGCCGAAGGGACGGAAGGAGGA.. -60 -50 -40 -30 -20 -10 sub TGAAC hal ..... ste ..... -1 > : other CDS - : gaps within a similar region ] : terminator . : gaps between similar regions } : RNAs @ : known binding sites <,[,{ : opposite direction About alignment...