Similar regions between promoters of yhgD

>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>> sub ATAAGCAGCGTATCAAGGAGCTGCGTGAAGCACTTGCATCTGCGTATCCGGGTGTTTATA hal ..AAGGAGCGCATAAAG........................................... ste AAAAGCAGCGGAT............................................... -300 -290 -280 -270 -260 -250 >>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>> sub TGACAGGCGCTTCTTTCGAAGGTGTCGGCATTCCCGACTGCATTGATCAAGGAAAAGCTG hal ...........................GCCTTTCCCATTCCATTGCT............. ste .....GGCGCTTCT.........GTCGGTGCGGCCGCCCGCCGTTTGAAGCGAAAAGCAG -240 -230 -220 -210 -200 -190 >>> >>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>> ]]]]]]]]]]]]]]]]]]]] sub CCG-TGTCTGACGCGCTTACCTATTTATTCAGCTAAAACCTCCGCTTTATCGCGGAGGTT hal .........................TATTCATTCAAAATCTATTCTCCATC......... ste CGGATGGCTGACGGATTGACCAAATTGTTCATTTA......................GTA -180 -170 -160 -150 -140 -130 sub TTTTTGATGTGCAATGGCAATATTGTGTAAAAAATGATTGAATT-GAACAGCAGGTTATG hal ......AAGTAAATTGTGAACATTCGATGGCAAATG-TTGAATTAGGTCAACATTTTTTG ste TAATGGATACGGATTGACCAAATTGT.........................CATGTTGTT -120 -110 -100 -90 -80 -70 sub ATACATTTGCATATGTACTTAATGACTAAAATGTTCAAACGGTCAGTTTCGAGGTGAATA hal TATCATGTGTAAAGAGGAT---TGACCATTTTGTTCATTTGGTCATTTTTAAG....... ste TGATAGTATAATGGATACGGATTGACCAAATTGTTCATTTAGTCAGTTTGAAGG...... -60 -50 -40 -30 -20 -10 sub CA hal .. ste .. -1 > : other CDS - : gaps within a similar region ] : terminator . : gaps between similar regions } : RNAs @ : known binding sites <,[,{ : opposite direction About alignment...