Similar regions between promoters of spoIVB


                                                                      
          >>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>
sub       CTCTCTAAGCAGGAAAAGGTAGCGGAAATCGAGCGCAGTATTGCAGGTGTCGAAGTAACC
hal       ..........AAGAAAAGGTGGAAGAGATCGCGCGAATGATCGCTGGCGTTGAAATGACA
       -300      -290      -280      -270      -260      -250         


                                                                      
          >>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>     >>>>>>>>>>>>
sub       GACTTAACGAAACGCCATGCGAAAGAACTTTTAAAACAAGCGG-----ATCAAGTCAAAA
hal       GAGCTGACAAAGGAGCACGCAAAGGAGCTTCTGGACCTAGCGACAAGCATCAAATGTAAC
       -240      -230      -220      -210      -200           -190    


                                                                      
          >>>>>>>>>>>]]]]]]]]]]]]]]]] ]]]                             
sub       CAACTGGGTAAGCTGCGCGAGAAGCGC-AGCTTATTTTTTTCGTGCACATCCATTCGTTC
hal       CA--TTGAAAAGCTAACCAATAAAGGTTAGCTTTTTT.......................
            -180      -170      -160       -150      -140      -130   


                                                                      
                                                                      
sub       ATCAGTATATCCAATGTTTTTCTTCATATGACAGTTATAAATAAGCCGTCAGAAGGCAAA
hal       ................TTTTTCATCCCGAAACAGTTATAAACGTGAGCTCGAAAGGCAAC
             -120      -110      -100       -90       -80       -70   


                                                                      
                                                                      
sub       ATTAAATGATGTAGCAGCAAGTCATAAAGAAGGTGTGGGATAGGAGCGAGGAGAGTGAAG
hal       ATTA---GATATAG-AGCCAAACCAATCGGGTGTGTGGGCTAGGAGCTAGGAGAGTGAAG
              -60       -50       -40       -30       -20       -10   


                
                
sub       TAGTGA
hal       GA....
              -1


   >     : other CDS		-     : gaps within a similar region
   ]     : terminator		.     : gaps between similar regions
   }     : RNAs			@     : known binding sites
   <,[,{ : opposite direction

About alignment...