Similar regions between promoters of yvdD

<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<< sub GCTCAGCGCGTGACGATTCTTTCTCATCCGGCCGGTCTCTGCCGATTTCATACGCCCTGA hal .........GTCACGATCTTAGCACATACTGTCCGACT...................... ste ............................................................ -300 -290 -280 -270 -260 -250 <<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<< sub CAGCCCGGGCCAGTTCTCCGGCTTCCTCCATTAAAAAGCCGACGCGAATAAAAGGTCCGT hal ............................................................ ste ............................................................ -240 -230 -220 -210 -200 -190 <<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<< sub ATTCTGTCCAGCCTCTTTTTTCGTAAAACTCTTTCATCCATTTTTCTGCATCAGCCAGCT hal ............CTTTTATATCGGATAACT-TAACACCCATGTTTGAAAATCAGCCATGT ste ...CTATCCGGTCTGTTTT...GTAAAGGTGTGTCATCAAT................... -180 -170 -160 -150 -140 -130 <<<< sub GCAACCTCATCACTCCTGCATTCTTTATGTATTTCATATTGATATTATCACATGAAGATG hal TCATTGTATTAACCCC..................CATTTTGATATTTT............ ste ...............CTGATTTCGCAAGGTTTTTCTAATTGAGA................ -120 -110 -100 -90 -80 -70 sub GGACAATATATAGTGTGTTTTTGAAT-GTTTAACACGATATATAGATGCGGAGATGACAA hal ...............TCTTTTTGATTCGCTTGTAACCATGTATA................ ste ........................AT-TGTTAAAATGATACCTAGAAG............ -60 -50 -40 -30 -20 -10 sub G hal . ste . -1 > : other CDS - : gaps within a similar region ] : terminator . : gaps between similar regions } : RNAs @ : known binding sites <,[,{ : opposite direction About alignment...