AlignACE 3.0 10/20/99
AlignACE2 -i BS/BS_fusions013_100.orf 
Parameter values:
 expect =      	10
 gcback =      	0.38
 minpass =     	200
 seed =        	944240930
 numcols =     	10
 undersample = 	1
 oversample = 	1

Input sequences:
#0	acoA	231	acetoin dehydrogenase E1 component (TPP-dependent alpha subunit)
#1	pdhC	114	pyruvate dehydrogenase (dihydrolipoamide acetyltransferase E2 subunit)
#2	odhA	227	2-oxoglutarate dehydrogenase (E1 subunit)
#3	bfmBB	22	branched-chain alpha-keto acid dehydrogenase E2 subunit (lipoamide acyltransferase)
#4	bfmBAA	73	branched-chain alpha-keto acid dehydrogenase E1 (2-oxoisovalerate dehydrogenase alpha subunit)
#5	yqiS	124	similar to phosphate butyryltransferase

Motif 1
ATACGTCGATCATTGTCAAAGGCCGGGTGATAT	0	30	1
CTTTTTTTTGCATGCTGTAAAACGAGACAAATG	0	68	1
AAAATTTAATCATTCGAAAAAACAAACGCCAAA	2	27	0
AGTAAAAAACCTTTATAAAAAACAAAAAATTTA	2	52	0
TTGTTCACAAAATAGTAAAAAACCTTTATAAAA	2	65	0
CAAAGCCATTCATTTTTAAAAGCATAAAGGAGG	4	43	1
ATGGAACTTGCATAATAAAAGGCGGAGTCGAAA	5	83	1
          ***  * ******
MAP Score: 6.38959

Motif 2
TACGTCGATCATTGTCAAAGGCCGGGTGATATCCGG	0	31	1
TGGTGAACCCTAAATAGAAGGAGGCGCACAAA    	0	209	1
TTGCTTAATCAAACTAGGAGGTCGAGAACT      	1	94	1
CTATTTTGTGAACAATCAAGGTAGAATCAAATTGCA	2	83	1
CAATCACTTGATTATTTAAGTTGGGGGTAATATTCA	2	200	1
TCATTTTTAAAAGCATAAAGGAGGGGCTTGA     	4	52	1
TGGAACTTGCATAATAAAAGGCGGAGTCGAAACAAG	5	84	1
GCGGAGTCGAAACAAGAAAGGTGGTAACAG      	5	104	1
          **  *  **** ** *
MAP Score: 5.98678

Motif 3
GCATGCTGTAAAACGAGACAAATGAATCAGTTTGA	0	77	1
ATAATGGTGAACCCTAAATAGAAGGAGGCGCACAA	0	205	1
CAAACTGCATAATCGAGAGGGAAGATGAACGTTTT	1	11	1
TTGAAAACAGATATATAATAGAGGGAAAACGTTCA	1	36	0
AAAATTGCTTAATCAAACTAGGAGGTCGAGAACT 	1	90	1
GAAAAAACAAACGCCAAAAAGCATAGGATTAAGGG	2	10	0
          AGACGTAAGGGAGGATACAATC   	3	0	1
TCATTTTTAAAAGCATAAAGGAGGGGCTTGA    	4	52	1
GTATGACAGCACCCTTAAGAGCTGGCATGGAACTT	5	57	1
TGGAACTTGCATAATAAAAGGCGGAGTCGAAACAA	5	84	1
GGCGGAGTCGAAACAAGAAAGGTGGTAACAG    	5	103	1
          *  * *** *** **
MAP Score: 5.27461

Motif 4
GCATGCTGTAAAACGAGACAAATGAATCAGT	0	77	1
GTTTGAGACAAAACGAGACACACGTCTCAAA	0	106	1
TCATCTTCACTTTGGAGACAGTTTGAGACGT	0	127	0
TGAACCCTAAATAGAAGGAGGCGCACAAA  	0	212	1
CAAACTGCATAATCGAGAGGGAAGATGAACG	1	11	1
AAACAGATATATAATAGAGGGAAAACGTTCA	1	36	0
TTGCTTAATCAAACTAGGAGGTCGAGAACT 	1	94	1
TTTTGTGAACAATCAAGGTAGAATCAAATTG	2	86	1
TCGAAAGTTATTTCAAGATAGTGAATCAATC	2	174	1
      AGCAATTGGAGAAGCTGCGCTTGCC	4	4	1
TTAAAAGCATAAAGGAGGGGCTTGA      	4	58	1
AACTTGCATAATAAAAGGCGGAGTCGAAACA	5	87	1
GGCGGAGTCGAAACAAGAAAGGTGGTAACAG	5	103	1
          ******** **
MAP Score: 5.06828

Motif 5
GGCCGGGTGATATCCGGTCTTTTTTTTGCATGCTG	0	50	1
TTTTGTCTCAAACTGATTCATTTGTCTCGTTTTAC	0	84	0
     CCCTTAATCCTATGCTTTTTGGCGTTTGTT	2	5	1
CGAATGATTAAATTTTTTGTTTTTTATAAAGGTTT	2	44	1
ATAGTGAATCAATCACTTGATTATTTAAGTTGGGG	2	191	1
GCAGATGGCAAAGCCATTCATTTTTAAAAGCATAA	4	35	1
        TCAAGCCCCTCCTTTATGCTTTTAAAA	4	56	0
          ** *   ** *****
MAP Score: 2.36879

Motif 6
AATGAATCAGTTTGAGACAAAACGAGACACACGTCTCAAACTGTCT	0	97	1
GGCACACTTCTTGCATTTATAATGGTGAACCCTAAATAGAAGGAGG	0	187	1
ATATATCTGTTTTCAATGCTTACGATGTAAACTTTAAAATTGCTTA	1	55	1
TGTCAAAATTATGTAATAAAAACGCTTCCAACGATATTTTACCACT	2	122	0
     AGCAATTGGAGAAGCTGCGCTTGCCGCAGATGGCAAAGCCA	4	5	1
CCTTTATGCTTTTAAAAATGAATGGCTTTGCCATCTGCGGCAAGCG	4	27	0
         TTTGCAGAATAAACGCAAACATCTGCACGAATGTTTC	5	1	1
GGCATGGAACTTGCATAATAAAAGGCGGAGTCGAAACAAGAAAGGT	5	80	1
          *** * *   ** *       *   *
MAP Score: 1.09578

Motif 7
          AAAGATTTCCAAGGAAATAAATAC	0	0	1
AAATACGTCGATCATTGTCAAAGGCCGGGTGATA	0	28	1
GCATGCTGTAAAACGAGACAAATGAATCAGTTTG	0	77	1
GTTTGAGACAAAACGAGACACACGTCTCAAACTG	0	106	1
ACACGTCTCAAACTGTCTCCAAAGTGAAGATGAG	0	125	1
AGACTGATTTTACGGGCTCAAAAGACTGGCACAC	0	160	1
TCTATTATATATCTGTTTTCAATGCTTACGATGT	1	49	1
TATGTAATAAAAACGCTTCCAACGATATTTTACC	2	125	0
          *** *  ***** *
MAP Score: 1.06499

Motif 8
TGCATGCTGTAAAACGAGACAAATGAATCA	0	76	1
CAAATGAATCAGTTTGAGACAAAACGAGAC	0	95	1
AGTTTGAGACAAAACGAGACACACGTCTCA	0	105	1
CTTTGGAGACAGTTTGAGACGTGTGTCTCG	0	119	0
CTCATCTTCACTTTGGAGACAGTTTGAGAC	0	129	0
CTCCAAAGTGAAGATGAGAAGACTGATTTT	0	141	1
AACCCTAAATAGAAGGAGGCGCACAAA   	0	214	1
TCAAACTAGGAGGTCGAGAACT        	1	102	1
AAAATTTAATCATTCGAAAAAACAAACGCC	2	30	0
GGTAAAATATCGTTGGAAGCGTTTTTATTA	2	125	1
TTTGACACAGCGTTCGAAAGTTATTTCAAG	2	161	1
       AGCAATTGGAGAAGCTGCGCTTG	4	3	1
ATAAAAGGCGGAGTCGAAACAAGAAAGGTG	5	97	1
GAAACAAGAAAGGTGGTAACAG        	5	112	1
          **********
MAP Score: 0.880073