AlignACE 3.0 10/20/99
AlignACE2 -i BS/BS_fusions036_100.orf 
Parameter values:
 expect =      	10
 gcback =      	0.38
 minpass =     	200
 seed =        	944241909
 numcols =     	10
 undersample = 	1
 oversample = 	1

Input sequences:
#0	tenA	248	transcriptional regulator
#1	yqhI	300	similar to aminomethyltransferase
#2	yurR	300	similar to opine catabolism

Motif 1
GTCCTTCATAAGGGCTGAGATAAAAGTGTG	0	87	1
AGACCTGCGTAGGGAAGTGGAGCGGTATTT	0	148	1
TTTTCCTTGCGGGAAAGTGGTTTTTTTATT	0	209	1
TATTTTCAGAGGGGGAATGATTT       	0	235	1
AATGACAGCAAGGGGAGAGACCTGACCGAA	1	36	1
TTCAGGTGCCAGGACAGAGAACCTTCATTT	1	210	1
CATACAAAAAAGGACAGAGAAACACCTCAT	1	243	0
CCGTTGATAAAGGGGAGGAATTAG      	1	286	1
CAGACGCGATGCGGCAGTGGCAAAAGTCCA	2	90	0
GATATTCGATAGGAGAGTAAAGAGATTGGA	2	183	1
TTTCCACATTAGGGCAAAAGGTCGAAGGAA	2	227	1
          **********
MAP Score: 11.5612

Motif 2
AATACATATTGAATTGTTCTGCACCTCTATATTAACA	0	32	0
CAGCCCTTATGAAGGACACCCCTAGTGGTTAAACGAA	0	67	0
          AAATCATTCCCCCTCTGAAAATAAAAA	0	231	0
AGGTTTTCGGTCAGGTCTCTCCCCTTGCTGTCATTCG	1	34	0
TTGCCTGAGAGATTCACTCCGCAGTTTGCTCCTTCGG	1	84	0
CGTCGAGCAAGAGTTCTTTTGCCTGAGAGATTCACTC	1	102	0
CAACTCTGGAGAGTGTTTGTGCGGATGCGCAAACCAC	1	139	1
CCACCTTTGGGGACGTCTTTGCGTATGCAAAGTAAAC	1	172	1
TACATGAGGTGTTTCTCTGTCCTTTTTTGTATGTTTT	1	240	1
TTTGTATGTTTTTTAGCTGCGCCGTTGATAAAGGGGA	1	265	1
         CTAATTCCTCCCCTTTATCAACGGCGCA	1	282	0
CTTCTCCGTCTTGTGACTGCGCCTGTGCCTGATCCTG	2	10	1
TACCGCTGTTTTGGACTTTTGCCACTGCCGCATCGCG	2	79	1
TCATTTTCATGACGATTTTCGCTCATGGTATCATCCT	2	126	1
TCGTCCAATCTCTTTACTCTCCTATCGAATATCCTGT	2	179	0
AAAGAGATTGGACGAACTTCGCGGTTTTTCCACATTA	2	201	1
GCTTTCCTTCGACCTTTTGCCCTAATGTGGAAAAACC	2	223	0
          *  *  ******   **
MAP Score: 8.69464

Motif 3
CTTCCCTACGCAGGTCTGAACCTGTTCAAGTTATGAG	0	128	0
AGCGGTATTTGTGTTATTTTACTATGCCAATTCCAAA	0	168	1
TTGCGGGAAAGTGGTTTTTTTATTTTCAGAGGGGGAA	0	215	1
GGTTTTCGGTCAGGTCTCTCCCCTTGCTGTCATTCGC	1	33	0
GTCCCCAAAGGTGGTTTGCGCATCCGCACAAACACTC	1	149	0
CACCTTTGGGGACGTCTTTGCGTATGCAAAGTAAACT	1	173	1
CATTTTACATGAGGTGTTTCTCTGTCCTTTTTTGTAT	1	235	1
TGCATTACCGCTGTTTTGGACTTTTGCCACTGCCGCA	2	74	1
CGCATCGCGTCTGTTTTCTTCATTTTCATGACGATTT	2	107	1
GACGAACTTCGCGGTTTTTCCACATTAGGGCAAAAGG	2	211	1
          * *** *   * * ***
MAP Score: 7.89289

Motif 4
CTTCCCTACGCAGGTCTGAACCTGTTCAAGTTATGAGGGTC	0	124	0
CGTAGGGAAGTGGAGCGGTATTTGTGTTATTTTACTATGCC	0	155	1
CTTTTCCTTGCGGGAAAGTGGTTTTTTTATTTTCAGAGGGG	0	208	1
CCGAGGTTTTCGGTCAGGTCTCTCCCCTTGCTGTCATTCGC	1	33	0
CGACGCAACTCTGGAGAGTGTTTGTGCGGATGCGCAAACCA	1	134	1
GTCCTGGCACCTGAAAGTTTACTTTGCATACGCAAAGACGT	1	184	0
CTCATGTAAAATGAAGGTTCTCTGTCCTGGCACCTGAAAGT	1	207	0
TTCATTTTACATGAGGTGTTTCTCTGTCCTTTTTTGTATGT	1	233	1
CCTTTTTTGTATGTTTTTTAGCTGCGCCGTTGATAAAGGGG	1	260	1
     CTTCTCCGTCTTGTGACTGCGCCTGTGCCTGATCCT	2	5	1
GCGCCTGTGCCTGATCCTGATCTGTGTTCACGCTGACCACG	2	28	1
TGCATTACCGCTGTTTTGGACTTTTGCCACTGCCGCATCGC	2	74	1
TTTGCCACTGCCGCATCGCGTCTGTTTTCTTCATTTTCATG	2	96	1
          * *    *   ******   *
MAP Score: 6.31294

Motif 5
GGGAAGTGGAGCGGTATTTGTGTTATTTTACTA	0	159	1
TTGCGGGAAAGTGGTTTTTTTATTTTCAGAGGG	0	215	1
CCTGTATCCCGAGGTTTTCGGTCAGGTCTCTCC	1	49	0
GATTCACTCCGCAGTTTGCTCCTTCGGCGCCTG	1	78	0
GCAACTCTGGAGAGTGTTTGTGCGGATGCGCAA	1	138	1
GTCCCCAAAGGTGGTTTGCGCATCCGCACAAAC	1	153	0
CACCTTTGGGGACGTCTTTGCGTATGCAAAGTA	1	173	1
CATTTTACATGAGGTGTTTCTCTGTCCTTTTTT	1	235	1
CATTTTCATGACGATTTTCGCTCATGGTATCAT	2	127	1
GACGAACTTCGCGGTTTTTCCACATTAGGGCAA	2	211	1
TATAATAGAAAAGGTGTTTGCAT          	2	287	1
          * *** ***** *
MAP Score: 5.12588