AlignACE 3.0 10/20/99
AlignACE2 -i CY/CY_fusions018_300.orf 
Parameter values:
 expect =      	10
 gcback =      	0.38
 minpass =     	200
 seed =        	944246722
 numcols =     	10
 undersample = 	1
 oversample = 	1

Input sequences:
#0	glcE	230	glycolate oxidase subunit  GlcE
#1	glcF	67	glycolate oxidase subunit, (Fe-S)protein
#2	hypothetical	146	hypothetical protein
#3	sdhB	293	succinate dehydrogenase iron- sulphur protein subunit
#4	ABC	163	ABC transporter
#5	sdhB	166	succinate dehydrogenase iron-sulfur protein
#6	hypothetical	163	hypothetical protein

Motif 1
CCTGTTCAACGGAAGGACGGTGGTAAAGGAGTCT	0	41	1
TATGCTATTGTCCAAGAATATGGGACCCTCAGTC	0	116	1
AACAAATTAAGGCAAGACTGAGGGTCCCATATTC	0	131	0
CGTTGTAATTGGAGATTTTGGGGGTTGCTATTTG	0	197	1
TTAAGTTAAGGGTAAGTTGACGGTTTCAGACTAG	1	19	1
TAGAAAAAAGTGTGATCATAGGGGACA       	1	50	1
TGACCCCGGCAGTAAGCTTAGGGGATCGACCTAT	2	111	1
CTTTCCATGGGTTAATGCCCAGGGGGCAGCGAAT	3	58	0
CTAATTTAGATTGGATTTTAGGGGCGATCGCCTT	3	106	1
CGATCGCCTTGGGAATTTTAGTGGCAGGCTTAGT	3	130	1
         AGGAAATACCCTGGGAAAAGCAATA	3	278	0
TCTGGATTAGGGCAGGAAAATGGTCCGGCCTTGG	4	58	0
CCGAGCCAAATGTGGGTCGATGGGCAATGGACTT	4	101	0
          GGAAATGTGATGGAATAAGGCTCT	4	149	0
         GGCTAATTTGCTGGGACTAATGGGG	5	1	1
ATTGATCTATGGAATTTTGCCGGGACCAGGAATA	5	71	1
TTCCTATTACGGAAGGGCCGGGGGCAATAATTTT	5	105	0
   GGTATGAGGAAATCAACAGGGCAAAAAAGGC	5	145	0
CAAATAAATAGTTAATTTAATGGGATAGTTG   	6	7	0
          ** *** * * ***
MAP Score: 17.6652

Motif 2
TGTAATTGGAGATTTTGGGGGTTGCTATTTG	0	200	1
GCCATTGATTAAGTTAAGGGTAAGTTGACGG	1	11	1
AAAAAAGTGTGATCATAGGGGACA       	1	53	1
CCCCGGCAGTAAGCTTAGGGGATCGACCTAT	2	114	1
ATTTAGATTGGATTTTAGGGGCGATCGCCTT	3	109	1
TCGCCTTGGGAATTTTAGTGGCAGGCTTAGT	3	133	1
AAATAGGCACAATTCTAGGGGGTTCTCGACA	3	195	1
AATTTGCTGGGACTAATGGGGATAAAATTTA	5	14	1
ATGGGGATAAAATTTAAGGGGGACATCCTCC	5	29	1
ATCAATGGGGAATTGTAGGAGGATGTCCCCC	5	46	0
AAATTCCATAGATCAATGGGGAATTGTAGGA	5	57	0
ATAAATAGTTAATTTAATGGGATAGTTG   	6	7	0
          **** ******
MAP Score: 17.1316

Motif 3
CAGGTCAAACTTTTTATCCCGTCCCTGAGAGGTCA 	0	9	0
AAAGGAGTCTCCCTTACCCCTAGACAAATTCTAGCA	0	65	1
ATGTTAGCATTGCTGACCCCGGCAGTAAGCTTAGGG	2	98	1
CCATGACTACTTTTCACCCAGTCCTAGAGCATA   	3	7	0
AAAGTAGTCATGGTTACCCATCCAAATCATTCGCTG	3	30	1
CCAAATCATTCGCTGCCCCCTGGGCATTAACCCATG	3	51	1
GCCCCCTGGGCATTAACCCATGGAAAGTATGGAAAA	3	65	1
ATTCCCAAGGCGATCGCCCCTAAAATCCAATCTAAA	3	110	0
CATTTTCCTGCCCTAATCCAGAGCAAAGGCAAAGTC	4	70	1
AAGGCAAAGTCCATTGCCCATCGACCCACATTTGGC	4	95	1
AATTGGAGAGCCTTATTCCATCACATTTCC      	4	143	1
ATTTTATCCCCATTAGTCCCAGCAAATTAGCC    	5	6	0
CATCCTCCTACAATTCCCCATTGATCTATGGAATTT	5	52	1
TAATTTTTATTCCTGGTCCCGGCAAAATTCCATAGA	5	76	0
GAATAAAAATTATTGCCCCCGGCCCTTCCGTAATAG	5	100	1
ATGGTTGACTCTTTTGCTCCTTGCTACCCTGCTTAT	6	76	0
TTCCTTCGACTAATCTTCCCTTGCTTACCAATTCTG	6	111	1
          *  *  ***** ** *
MAP Score: 14.6932

Motif 4
AAAGGAGTCTCCCTTACCCCTAGACAAATTCTAGC	0	65	1
CCTATGATCACACTTTTTTCTAGTCTGAAACCGTC	1	37	0
CCAAATCATTCGCTGCCCCCTGGGCATTAACCCAT	3	51	1
AGAATTGTGCCTATTTTCCCAAGTCTTTGACACCA	3	176	0
CCGCCCATATTGCTTTTCCCAGGGTATTTCCT   	3	271	1
AAGGCAAAGTCCATTGCCCATCGACCCACATTTGG	4	95	1
CATCCTCCTACAATTCCCCATTGATCTATGGAATT	5	52	1
GGGGCAATAATTTTTATTCCTGGTCCCGGCAAAAT	5	84	0
GGAATAAAAATTATTGCCCCCGGCCCTTCCGTAAT	5	99	1
AAGGTCGAGCCTTTTTTGCCCTGTTGATTTCCTCA	5	137	1
ATGGTTGACTCTTTTGCTCCTTGCTACCCTGCTTA	6	77	0
TTCCTTCGACTAATCTTCCCTTGCTTACCAATTCT	6	111	1
          *  ** ***** * *
MAP Score: 10.3165

Motif 5
CGTTGTAATTGGAGATTTTGGGGGTTGCTATTTGT	0	197	1
          GGTGCTAGCGGGGGATTTATGGACT	2	0	1
AATTTAGATTGGATTTTAGGGGCGATCGCCTTGGG	3	108	1
GATCGCCTTGGGAATTTTAGTGGCAGGCTTAGTGA	3	131	1
         AGGAAATACCCTGGGAAAAGCAATAT	3	277	0
CCTTTGCTCTGGATTAGGGCAGGAAAATGGTCCGG	4	64	0
          GGAAATGTGATGGAATAAGGCTCTC	4	148	0
TAATGGGGATAAAATTTAAGGGGGACATCCTCCTA	5	27	1
AGATCAATGGGGAATTGTAGGAGGATGTCCCCCTT	5	44	0
ATTGATCTATGGAATTTTGCCGGGACCAGGAATAA	5	71	1
   GGTATGAGGAAATCAACAGGGCAAAAAAGGCT	5	144	0
AAGCAAGGGAAGATTAGTCGAAGGAATGGTTGACT	6	102	0
          *** **   * ****
MAP Score: 6.5016

Motif 6
ACAGGTCAAACTTTTTATCCCGTCCCTGAGAGGT	0	12	0
AAGGGAGACTCCTTTACCACCGTCCTTCCGTTGA	0	46	0
TAAAGGAGTCTCCCTTACCCCTAGACAAATTCTA	0	64	1
AATGTTAGCATTGCTGACCCCGGCAGTAAGCTTA	2	97	1
ACCATGACTACTTTTCACCCAGTCCTAGAGCATA	3	10	0
TCCAAATCATTCGCTGCCCCCTGGGCATTAACCC	3	50	1
TGCCCCCTGGGCATTAACCCATGGAAAGTATGGA	3	64	1
AGAATTGTGCCTATTTTCCCAAGTCTTTGACACC	3	177	0
TCCGCCCATATTGCTTTTCCCAGGGTATTTCCT 	3	270	1
AATTTTATCCCCATTAGTCCCAGCAAATTAGCC 	5	9	0
ACATCCTCCTACAATTCCCCATTGATCTATGGAA	5	51	1
ATAATTTTTATTCCTGGTCCCGGCAAAATTCCAT	5	79	0
AGGAATAAAAATTATTGCCCCCGGCCCTTCCGTA	5	98	1
AAGGTCGAGCCTTTTTTGCCCTGTTGATTTCCTC	5	137	1
ATGGTTGACTCTTTTGCTCCTTGCTACCCTGCTT	6	78	0
ATTCCTTCGACTAATCTTCCCTTGCTTACCAATT	6	110	1
          ** **  **** **
MAP Score: 4.58445

Motif 7
     TGACCTCTCAGGGACGGGATAAAAAGTTTGACCTGT	0	5	1
CTAGAATTTGTCTAGGGGTAAGGGAGACTCCTTTACCACCG	0	58	0
   GGCCATTGATTAAGTTAAGGGTAAGTTGACGGTTTCAG	1	7	1
TAAGTTGACGGTTTCAGACTAGAAAAAAGTGTGATCATAGG	1	31	1
       TATGCTCTAGGACTGGGTGAAAAGTAGTCATGGT	3	3	1
GCTCAATGGTGTCAAAGACTTGGGAAAATAGGCACAATTCT	3	170	1
GGTCCGGCCTTGGTGGGTTTAGGTACACTGCAAAGAGATTT	4	30	0
CCTGCCCTAATCCAGAGCAAAGGCAAAGTCCATTGCCCATC	4	76	1
ATAATTTTTATTCCTGGTCCCGGCAAAATTCCATAGATCAA	5	72	0
TGATCAGAATTGGTAAGCAAGGGAAGATTAGTCGAAGGAAT	6	110	0
          *    **    ** *** * *
MAP Score: 1.23497