Similar regions between promoters of ruvA
>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>> sub GGGCGGCCTGAGCCAGCTTCCGAACCAATTCAGTCTTTTTTTCAAATTGATTTAGAAAGG hal ..............AGCAGCCGATC--ATCCAATCGTTTTTTCGATTGGATACGAAAAAG -300 -290 -280 -270 -260 -250 >>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>> sub CTGGAAAGCCATATGCAAAAAAATCTGCTGAAAGGCATTCCATTTCGGACAAAAGCGGAG hal TTGGAAAGTGGGCTTCACGATCAGTTGCGGTCCGGCATTCGGATTGGGACA......... -240 -230 -220 -210 -200 -190 >>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>> ]]] sub TTTGAGGATGTCATCGAACATATGAAGACATACAGCGGGTAGCGTCCGCTGATTGAAGAC hal ...............GGACAGCTGAACTTGTACGACGGGT.................... -180 -170 -160 -150 -140 -130 ]]]]]]]]]]]] ] sub ATGTATTCATGT-CTTTTTTTTCGTGAAAGAATGAGAGAGAAGCGAACATATGTTAACTT hal ...TTTTCACGTACTTTCTTCTCGTTATGCTACAATAAAGA--CGGACTTATTTT..... -120 -110 -100 -90 -80 -70 sub TTCTATAAGACTTTGGCTGTTTTTATGGTACAATGAAGAACAGTCAAAGAGGTGAATTTG hal ......................TTATGCTACAATAAAGA..................... -60 -50 -40 -30 -20 -10 sub C hal . -1 > : other CDS - : gaps within a similar region ] : terminator . : gaps between similar regions } : RNAs @ : known binding sites <,[,{ : opposite direction About alignment...