Similar regions between promoters of rocF

>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>> sub TCCGTGAGGGCGGGAAGATAGAAGATTTGAAATTTAAAACACCGCTGTACCCGGTGCTTC hal ............................................................ ste .....................AATATTCAAAATTT.....................CTTC -300 -290 -280 -270 -260 -250 >>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>> sub CGCTGATCGGCCTAACGTTAAATACGGTCGTGCTCATCAGTCTTGCATTTGATCCGGAGC hal .................................TCAGCAGTCAAGCA............. ste CGCT.................................CCGTCTTCCGCTTGGGGCGGGGC -240 -230 -220 -210 -200 -190 >>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>> sub AGCGTATCGCGCTGTATTGCGGCGTACCGTTTATGATCATTTGCTACATCATTTATCATG hal ..........................................................TG ste ...................................................TTTGTTATA -180 -170 -160 -150 -140 -130 >>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>> sub TCGTCATTAAAAAACGCCAGCAGGCAAATCGTCAGCTAGAGCTTTAAAAACGTTGTCCGC hal CAGCCATTAAAAAACGCCCTAAAGGAAATCGTTA.............AAACGTTCTCGGT ste TCGGTATAAATA.....CAGCTGGGAGAGCGCCTGCT......TTCAAAATTTTGTC... -120 -110 -100 -90 -80 -70 sub AAGTCATCTTTGTTATAACCCGCATAGGACATTATCTTAAATGTTGAGGTGGAATCACAG hal AGTCAATCTT................GAACTTTGACTTTACAGCTGAGGTGAA....... ste ...TCTTTTTTGTTATATC......................................... -60 -50 -40 -30 -20 -10 -1 > : other CDS - : gaps within a similar region ] : terminator . : gaps between similar regions } : RNAs @ : known binding sites <,[,{ : opposite direction About alignment...