Similar regions between promoters of opuCA

                                                                      
          <<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<                       
sub       CAGCATGTTCAATGATGTCGAGAGCGGTTTTTTTCACAGCTGATCATCCCTTCAAATGGC
hal       .....................................AGCTGATCTTC............
ste       CAACATTTTGACCGATG.....................GCCGATCATCC...........
       -300      -290      -280      -270      -260      -250         


                                                                      
                                                                      
sub       AATTGATGGTGTCAATATATCATATTTCTTCCTGGTGTTGAAAATAG-CTGAATGCAGAG
hal       ............................................................
ste       .............................TCCGGGTCTTGAGAAGAAACTGAA.......
       -240      -230      -220      -210      -200       -190        


                                                                      
                                                                      
sub       GAAGTGGGAGGTATCCGGAGTAATTGTAAGAACACCCTTTCCGTCTCGGTCATAACAATA
hal       ....................TAAATATAAGGATTCCGTTGCTG.......CAAAAAAAGA
ste       ...........................................TCCGGGTCTTGAGAAGA
        -180      -170      -160      -150      -140      -130        


                                                                      
                                                                      
sub       AATAATCTATAAATAACATATAATTTCAACACATTGTAAACTTTTTATTTTACAAAGTTC
hal       AAGAAGAAGTAAAT..............................................
ste       AA.........AAAAAAATATGATTTGGTCGTATTGAAA.....................
        -120      -110      -100       -90       -80       -70        


                                                                      
                                                                      
sub       AAACTATAATAAGGATTATACTTTTCAGAAAATTTAAAGGAAACCTGCGGAGGTGCACGG
hal       ...CTAAAATGACGATTAAAGTTT---GAAAATTT.........................
ste       .............................AACTTGGAAGGAAAACAGCCGCG........
         -60       -50       -40       -30       -20       -10        


           
           
sub       A
hal       .
ste       .
         -1


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

About alignment...