AlignACE 3.0 10/20/99
AlignACE2 -i BS/BS_operons124_100.orf 
Parameter values:
 expect =      	10
 gcback =      	0.38
 minpass =     	200
 seed =        	944250070
 numcols =     	10
 undersample = 	1
 oversample = 	1

Input sequences:
#0	yetO	149	alternate gene name: yfnJ; similar to cytochrome P450 / NADPH-cytochrome P450 reductase
#1	cypA	300	cytochrome P450-like enzyme
#2	yvgQ	25	similar to sulfite reductase
#3	yvgR	170	similar to sulfite reductase

Motif 1
GTACAGCTTCTCAAGTATAGAAAAAACAGC	0	36	1
CCTTTCATGGTCATGATTATTCCGTTCTCC	0	82	0
ATATAATCGATCAAGTTTAATGTC      	1	4	0
AGATCAGTATTCATGATAAGGGCCAAAATG	1	203	0
ATTTTATATTTAAAGATTATCATAACCTTT	1	260	1
AAAACTCCTTTCAAGTCAAA          	2	0	0
CGGCTATGCTTCATGTAAATAGAAAAAAGA	3	27	0
TTAAGAATCCTAATGATAAAACGGCTATGC	3	48	0
ATAGTTATCATCATGTAAATATATTTTACT	3	77	1
          **********
MAP Score: 4.85293

Motif 2
GGAATAATCATGACCATGAAAGGGAAATGTAGTC	0	89	1
AGAAGGCATTTCATACGGAAAGGAATGGTTCG  	0	127	1
CTTCTATGCCGGCTCTTTTAAGGATTTGGAAAAT	1	75	0
TTTCGCCATTTTATCAGGGAAAGAGTTTAGGCAG	1	118	1
TTGAGATCAGTATTCATGATAAGGGCCAAAATGC	1	202	0
AAGATTATCATAACCTTTCAAAGATGGAGGTCGA	1	272	1
         TTTGACTTGAAAGGAGTTTTTCAAC	2	1	1
AAACGGCTATGCTTCATGTAAATAGAAAAAAGAG	3	26	0
TTAATAGTTATCATCATGTAAATATATTTTACTT	3	74	1
TTAAGCCTAGTATTCCGGTAAAGTTCAATTAGAT	3	106	1
          *  ** ** *****
MAP Score: 2.86986

Motif 3
TCATGATTATTCCGTTCTCCCAATTGACGC	0	72	0
TGACTACATTTCCCTTTCATGGTCATGATT	0	94	0
CCGTATGAAATGCCTTCTATTTGACTACAT	0	115	0
AATACTTCTATGCCGGCTCTTTTAAGGATT	1	83	0
AGGGCCAAAATGCCGTCCCCGCATTTTGAA	1	185	0
AGAGAAGGACTCCCTTCTCT          	3	0	0
AGAGAAGGGAGTCCTTCTCTTTTTTCTATT	3	10	1
ATGAAGCATAGCCGTTTTATCATTAGGATT	3	43	1
          **********
MAP Score: 2.80981

Motif 4
AAAAAACAGCGATCATGCGTCAATTGGGAGAACGG	0	56	1
CCATGAAAGGGAAATGTAGTCAAATAGAAGGCATT	0	102	1
CCTGCTGCTATATAATCGATCAAGTTTAATGTC  	1	8	0
GCAGGGGGGATAACATTAATCAAAATGGGGCTAAA	1	38	1
AATGGGGCTAAAAAATTTTCCAAATCCTTAAAAGA	1	61	1
CTTTCCCTGATAAAATGGCGAAACTCCTAATACTT	1	106	0
CAGTATTCATGATAAGGGCCAAAATGCCGTCCCCG	1	194	0
GATCTCAATGGATCATTTTACAAATCGTCCTGATT	1	228	1
GAAAGGTTATGATAATCTTTAAATATAAAATCAGG	1	256	0
TCTTAATAGTTATCATCATGTAAATATATTTTACT	3	72	1
TGCAATTTTCGATCAGTTTATAACTTTGTGAGGTG	3	139	1
          ******    *** *
MAP Score: 2.3772

Motif 5
TATCCCCCCTGCTGCTATATAATCGATCAAGTTT	1	16	0
TATAGCAGCAGGGGGGATAACATTAATCAAAATG	1	31	1
TAATCAAAATGGGGCTAAAAAATTTTCCAAATCC	1	54	1
CCTTAAAAGAGCCGGCATAGAAGTATTAGGAGTT	1	86	1
AGAAGTATTAGGAGTTTCGCCATTTTATCAGGGA	1	104	1
AAGAGTTTAGGCAGCAAAATGATTAATGACTGTC	1	138	1
ATTTCAAAATGCGGGGACGGCATTTTGGCCCTTA	1	183	1
ATGAAGCATAGCCGTTTTATCATTAGGATTCTTA	3	43	1
          ** ** * * ****
MAP Score: 2.2861