AlignACE 3.0 10/20/99
AlignACE2 -i BS/BS_fusions034_100.orf 
Parameter values:
 expect =      	10
 gcback =      	0.38
 minpass =     	200
 seed =        	944241820
 numcols =     	10
 undersample = 	1
 oversample = 	1

Input sequences:
#0	yetO	149	alternate gene name: yfnJ; similar to cytochrome P450 / NADPH-cytochrome P450 reductase
#1	yflM	199	similar to nitric-oxide synthase
#2	yrhI	222	similar to transcriptional regulator (TetR/AcrR family)
#3	yvgR	170	similar to sulfite reductase

Motif 1
GGCATTTCATACGGAAAGGAATGGTTCG  	0	131	1
ATGTAGTCAAATAGAAGGCATTTCATACGG	0	115	1
AATCATGACCATGAAAGGGAAATGTAGTCA	0	94	1
          AGAGAAGGGAGTCCTTCTCT	3	0	1
CTTCTCAAGTATAGAAAAAACAGCGATCAT	0	42	1
CTTCATGTAAATAGAAAAAAGAGAAGGACT	3	19	0
AAACGATACAATGAAAAGCATGAAGTGATG	1	82	1
TTCTTTGTGAACAAAAGGAATGAATATTCA	2	170	1
TAAACTTATAACAGAAGAAAGAACAAAGAG	2	118	1
GTTTGTTGGAAGAAAAAGAAATACTCTGGA	1	123	1
ATAAGTTTATATGAAAAAAACTTTTTTTAA	2	97	0
CGATTCGTTTACGGAATGAATATTCATTCC	2	186	0
CTGGAAAACAATAAAAAACACCCGCGTGGT	1	17	0
TATAAAGTATATGCAAAAAATAAAAAATTA	2	67	0
TATCAGGAATTGGGAAAGGAGGAGGAA   	1	182	1
TTCCTTTTGTTCACAAAGAATGTCTGCCCT	2	160	0
          **********
MAP Score: 13.4183

Motif 2
ACCACGCGGGTGTTTTTTATTGTTTTCCAG	1	17	1
GCATGATCGCTGTTTTTTCTATACTTGAGA	0	44	0
TTAAAAAAAGTTTTTTTCATATAAACTTAT	2	97	1
GGAGTCCTTCTCTTTTTTCTATTTACATGA	3	17	1
ATCACCTCTTTGTTCTTTCTTCTGTTATAA	2	123	0
TGAAAAAAACTTTTTTTAATATAAAGTATA	2	86	0
CCAGAGTATTTCTTTTTCTTCCAACAAACT	1	122	0
CATCACTTCATGCTTTTCATTGTATCGTTT	1	82	0
TTTGGGTATATTTTCTTAATTTTTTATTTT	2	51	1
TTTTCTTAATTTTTTATTTTTTGCATATAC	2	61	1
GCAAGACAAATGATTTTTCTGCAACTTCCT	1	45	0
          **********
MAP Score: 7.1222

Motif 3
AATCATGACCATGAAAGGGAAATGTAGTCAA	0	94	1
GGCATTTCATACGGAAAGGAATGGTTCG   	0	131	1
AGTTTGTTGGAAGAAAAAGAAATACTCTGGA	1	122	1
AATACTCTGGAACGAAGCGAAAGCGTTTATT	1	142	1
TATCAGGAATTGGGAAAGGAGGAGGAA    	1	182	1
ATTCTTTGTGAACAAAAGGAATGAATATTCA	2	169	1
          AGAGAAGGGAGTCCTTCTCTT	3	0	1
ATGTAAATAGAAAAAAGAGAAGGACTCCCTT	3	14	0
          * *********
MAP Score: 5.03292

Motif 4
TCCAGAGTATTTCTTTTTCTTCCAACAAACTCTCCCCTTCACAT	1	109	0
AGGATTTGGGTATATTTTCTTAATTTTTTATTTTTTGCATATAC	2	47	1
TTTTTTGCATATACTTTATATTAAAAAAAGTTTTTTTCATATAA	2	77	1
TGAATATTCATTCCTTTTGTTCACAAAGAATGTCTGCCCTGTCT	2	156	0
CATGAAGCATAGCCGTTTTATCATTAGGATTCTTAATAGTTATC	3	42	1
TTAAGTAAAATATATTTACATGATGATAACTATTAAGAATCCTA	3	66	0
ATCATGTAAATATATTTTACTTAAGCCTAGTATTCCGGTAAAGT	3	86	1
AGTATTCCGGTAAAGTTCAATTAGATGCAATTTTCGATCAGTTT	3	114	1
          *   ***   * *     * * **
MAP Score: 1.8062

Motif 5
CAAGTATAGAAAAAACAGCGATCATGCGTCAATTGGGAGAA	0	47	1
ATTGGGAGAACGGAATAATCATGACCATGAAAGGGAAATGT	0	78	1
CTTCCTGGAAAACAATAAAAAACACCCGCGTGGTGCGGGTG	1	10	0
TGTCTTGCCGCTTAAAAACGATACAATGAAAAGCATGAAGT	1	67	1
AGTTTGTTGGAAGAAAAAGAAATACTCTGGAACGAAGCGAA	1	122	1
TATGCAAAAAATAAAAAATTAAGAAAATATACCCAAATCCT	2	47	0
TTATAACAGAAGAAAGAACAAAGAGGTGATATCAGACAGGG	2	123	1
ATTCTTTGTGAACAAAAGGAATGAATATTCATTCCGTAAAC	2	169	1
CATTAGGATTCTTAATAGTTATCATCATGTAAATATATTTT	3	63	1
          *  ** **  ** *   *  *
MAP Score: 0.898031

Motif 6
TTATTCGCGTATTGTACAGCTTCTCAAGTATAGAA	0	23	1
ATGACCATGAAAGGGAAATGTAGTCAAATAGAAGG	0	98	1
AGTGATGTGAAGGGGAGAGTTTGTTGGAAGAAAAA	1	105	1
TATTAGGATTTGGGTATATTTTCTTAATTTTTTAT	2	43	1
GATATCAGACAGGGCAGACATTCTTTGTGAACAAA	2	150	1
      AGAGAAGGGAGTCCTTCTCTTTTTTCTAT	3	4	1
          * ** * *  *****
MAP Score: 0.371883