AlignACE 3.0 10/20/99
AlignACE2 -i CY/CY_fusions009_100.orf 
Parameter values:
 expect =      	10
 gcback =      	0.38
 minpass =     	200
 seed =        	944246346
 numcols =     	10
 undersample = 	1
 oversample = 	1

Input sequences:
#0	trpE	121	anthranilate synthetase alpha-subunit
#1	trpD	300	anthranilate phosphoribosyltransferase
#2	hypothetical	145	hypothetical protein
#3	hypothetical	69	hypothetical protein
#4	trpF	100	5-phosphoribosyl anthranilate isomerase
#5	guaA	300	GMP synthetase
#6	trpG	135	anthranilate synthase component II
#7	trpC	300	indole-3-glycerol phosphate synthase

Motif 1
TTAACTAACGGGCGAATTTGTTAAAGGCAC	0	55	1
GCTTAAAAAGGGGGACTTTCGACGTTGATT	1	16	0
GTTATTTACCTGGAAATTGGAAATTCTGTC	1	207	1
CCCATCAGCGGGGGATTTTCC         	3	1	0
CCCCCGCTGATGGGATTGTGGCAAAATGCT	3	17	1
        TTTGCGATTGTTGAGCCTATTT	4	2	1
AATAAACAGATGGAAATGTTCTAAATTTTA	4	44	0
CAAATTTCCTGGGGATTTTAGGTTGAATAG	4	76	0
        AGGGCAAATTTCCTGGGGATTT	4	88	0
CACCTCTCCAGGGAATTCTTGAGAAGGATT	5	76	1
GAAGGATTTCTGCAATTTTCCGCCCCCATC	5	98	1
AATAACCCACGGCAAATCTGCGCTAAGATG	5	124	0
GGTAGAATACGGGGATTGTTGACGACCATG	5	172	1
AGGTGTGCCTGGGGATTCGCCCTCACCTCC	5	253	1
TCAGTATTTAGGCGAATTGGGGCAGAAATA	6	93	1
CTTCGGCTACGGCGTATTTCTGCCCCAATT	6	107	0
TTTACTCTGTTGGGATTTTGAGCGA     	7	5	0
TGGATTCACGGGGAAATTTTTTCACTTTTG	7	137	1
GTCAATGCAAGGGATATTTTTGCGGCTAAG	7	271	0
          **********
MAP Score: 17.5476

Motif 2
AAAATCCCCAGGAAATTTGCCCT         	4	87	1
TATTGTTGCTGCTTTTTTGCCCCTGGTTCCT 	2	9	0
TTACGAAAAAGTACTTTTGCGCATTGTACTCA	7	94	0
CCATCTTAGCGCAGATTTGCCGTGGGTTATTC	5	123	1
CGGCTACGGCGTATTTCTGCCCCAATTCGCCT	6	102	0
AAGGATTTCTGCAATTTTCCGCCCCCATCTTA	5	99	1
AGGTGTGCCTGGGGATTCGCCCTCACCTCCAG	5	253	1
TCGAACCCCCGTTGAGTTGCCCCAAAACAGAT	5	15	1
AGTGCCTTTAACAAATTCGCCCGTTAGTTAAA	0	54	0
TCAAAAGTGAAAAAATTTCCCCGTGAATCCAC	7	136	0
GCGAGGCTAGGTATTTATCCCCCCAAATCTCC	1	60	0
TTAAAAAGGGGGACTTTCGACGTTGATTCTAC	1	12	0
GGAATCGTTAATTTTGTTGCCCAAGCTCCTCC	7	201	0
ATTGGAATGAGCTAATTTCACCTCTTAGCCGC	7	248	1
TAGAATACGGGGATTGTTGACGACCATGGCCT	5	174	1
AATGCAAGGGATATTTTTGCGGCTAAGAGGTG	7	266	0
TTACTCTGTTGGGATTTTGAGCGA        	7	2	0
          GGAAAATCCCCCGCTGATGGGA	3	0	1
AATAGTGGGAGGACTGATCCCGTTTAAAACTC	2	37	1
          * * ********
MAP Score: 14.5261

Motif 3
CAACGTCGAAAGTCCCCCTTTTTAAGCCGGAGCTTTAGTG	1	19	1
CTAGGTATTTATCCCCCCAAATCTCCTCACTAAAGCTCCG	1	46	0
GGACGGGGATAGACCCAAAATTATCTGCTCGTCTTAGAAA	1	105	0
TTTTGGGTCTATCCCCGTCCCTTTGACCGGGTAATGATTT	1	125	1
AAATTCTGTCATTCCCACGGGAAAGGCCGCCCTAACCCCG	1	227	1
AGGCCGCCCTAACCCCGTAAAATAAGGGGCAATTAGTTTT	1	250	1
ACAACAATTGCTTCCCTAGCATTTTGCCACAATCCCATCA	3	24	0
TTCAACCTAAAATCCCCAGGAAATTTGCCCT         	4	79	1
  GGGATTCGAACCCCCGTTGAGTTGCCCCAAAACAGATT	5	8	1
CTTCTCAAGAATTCCCTGGAGAGGTGGCAGAGCGGTTGAA	5	62	0
AGCCCAGAATAACCCACGGCAAATCTGCGCTAAGATGGGG	5	121	0
GTCGTCAACAATCCCCGTATTCTACCCCAATACCTGAAGC	5	158	0
GCCGTCAGTTAGACCCAGAAACGACACCACGAATCTAGTC	5	207	1
GGTGAGGGCGAATCCCCAGGCACACCTCAGAGAGACTAGA	5	240	0
ATTCGCCCTCACCTCCAGTATAAATTCCTGACTGCCGATC	5	267	1
 TCGCTCAAAATCCCAACAGAGTAAAGCGCACCAAATGGT	7	9	1
TGCGCATTGTACTCACCAGCTTGACAGCCCTGATTGTCTT	7	69	0
          * ****  *    *  ** *
MAP Score: 12.3977

Motif 4
        CCGTAGAATCAACGTCGAAAGTCCC	1	2	1
GAATCAACGTCGAAAGTCCCCCTTTTTAAGCCG	1	15	1
          GGAAAATCCCCCGCTGATGGGAT	3	0	1
ACTATTCAACCTAAAATCCCCAGGAAATTTGCC	4	75	1
AAATCCTTCTCAAGAATTCCCTGGAGAGGTGGC	5	74	0
CTGAAGCCCAGAATAACCCACGGCAAATCTGCG	5	132	0
CCATGGTCGTCAACAATCCCCGTATTCTACCCC	5	170	0
TGGAGGTGAGGGCGAATCCCCAGGCACACCTCA	5	251	0
TTATCTATGACCAGAATCAACTGGAATGCTCCT	6	33	0
AAAATTTCCCCGTGAATCCACTGTGGAGTGATT	7	124	0
          * * ******* *
MAP Score: 11.6826

Motif 5
TTTAACTAACGGGCGAATTTGTTAAAGGCACTAC	0	54	1
GGCTTAAAAAGGGGGACTTTCGACGTTGATTCTA	1	13	0
AGCTTTAGTGAGGAGATTTGGGGGGATAAATACC	1	49	1
GCCCTAACCCCGTAAAATAAGGGGCAATTAGTTT	1	255	1
 AGGAACCAGGGGCAAAAAAGCAGCAACAATAGT	2	9	1
GGGGATTTTAGGTTGAATAGTGAATAAACAGATG	4	62	0
         AGGGCAAATTTCCTGGGGATTTTAG	4	85	0
GTGGCAGAGCGGTTGAATGCGGCAGACTCGAAAT	5	45	0
CCACCTCTCCAGGGAATTCTTGAGAAGGATTTCT	5	75	1
GAATAACCCACGGCAAATCTGCGCTAAGATGGGG	5	121	0
GATTTGCCGTGGGTTATTCTGGGCTTCAGGTATT	5	136	1
CAGGTATTGGGGTAGAATACGGGGATTGTTGACG	5	162	1
CTGGAGGTGAGGGCGAATCCCCAGGCACACCTCA	5	251	0
GCTCCTTTACGGTCAAATGTGGACGGGGA     	6	5	0
GGAGCATTCCAGTTGATTCTGGTCATAGATAACT	6	34	1
TTCAGTATTTAGGCGAATTGGGGCAGAAATACGC	6	92	1
ATCACTCCACAGTGGATTCACGGGGAAATTTTTT	7	125	1
GCGGCTAAGAGGTGAAATTAGCTCATTCCAATTT	7	246	0
GTCAATGCAAGGGATATTTTTGCGGCTAAGAGGT	7	267	0
          *** ****  ** *
MAP Score: 11.6638

Motif 6
        TTCCTGGCTCTACTTGCTTGCGGAA	0	2	1
AGGTATTTATCCCCCCAAATCTCCTCACTAAAG	1	51	0
AAATACCTAGCCTCGCACTTTTCAAACACTTTC	1	76	1
ACGGGAAAGGCCGCCCTAACCCCGTAAAATAAG	1	243	1
CGGGATCAGTCCTCCCACTATTGTTGCTGCTTT	2	26	0
    GGAAAATCCCCCGCTGATGGGATTGTGGC	3	6	1
ATTCAACCGCTCTGCCACCTCTCCAGGGAATTC	5	61	1
CTGCAATTTTCCGCCCCCATCTTAGCGCAGATT	5	107	1
GGGCGAATCCCCAGGCACACCTCAGAGAGACTA	5	242	0
GCCTGGGGATTCGCCCTCACCTCCAGTATAAAT	5	259	1
       TCCCCGTCCACATTTGACCGTAAAGG	6	3	1
ACGGCGTATTTCTGCCCCAATTCGCCTAAATAC	6	96	0
          ** *** ** ***
MAP Score: 9.67133

Motif 7
CAACGTCGAAAGTCCCCCTTTTTAAGCCGGAGCTTTAGTGA	1	19	1
CTAGGTATTTATCCCCCCAAATCTCCTCACTAAAGCTCCGG	1	45	0
TTAGGGCGGCCTTTCCCGTGGGAATGACAGAATTTCCAATT	1	221	0
ACGGGATCAGTCCTCCCACTATTGTTGCTGCTTTTTTGCCC	2	19	0
GTGGGAGGACTGATCCCGTTTAAAACTCAGACCTGATTCAG	2	41	1
     GGAAAATCCCCCGCTGATGGGATTGTGGCAAAATGC	3	5	1
TTCAACCTAAAATCCCCAGGAAATTTGCCCT          	4	79	1
  GGGATTCGAACCCCCGTTGAGTTGCCCCAAAACAGATTT	5	8	1
CTTCTCAAGAATTCCCTGGAGAGGTGGCAGAGCGGTTGAAT	5	61	0
CTGCAATTTTCCGCCCCCATCTTAGCGCAGATTTGCCGTGG	5	107	1
CCAATACCTGAAGCCCAGAATAACCCACGGCAAATCTGCGC	5	131	0
TGGTCGTCAACAATCCCCGTATTCTACCCCAATACCTGAAG	5	159	0
GGTGAGGGCGAATCCCCAGGCACACCTCAGAGAGACTAGAT	5	239	0
ATTCGCCCTCACCTCCAGTATAAATTCCTGACTGCCGATCG	5	267	1
AAGTGAAAAAATTTCCCCGTGAATCCACTGTGGAGTGATTA	7	123	0
          *  *****   *     * **
MAP Score: 9.43801

Motif 8
GCTAGGTATTTATCCCCCCAAATCTCCTCACTAAAG	1	51	0
GCTGAAATCATTACCCGGTCAAAGGGACGGGGATAG	1	133	0
ATGACTGTTATTTACCTGGAAATTGGAAATTCTGTC	1	201	1
AAATTCTGTCATTCCCACGGGAAAGGCCGCCCTAAC	1	227	1
     GGAAAATCCCCCGCTGATGGGATTGTGGCAA	3	5	1
TCAACCTAAAATCCCCAGGAAATTTGCCCT      	4	80	1
  GGGATTCGAACCCCCGTTGAGTTGCCCCAAAACA	5	8	1
CTTCTCAAGAATTCCCTGGAGAGGTGGCAGAGCGGT	5	66	0
CACCAAATGGTAGCCCAGACAAAGGCAGAACAAGAC	7	38	1
          ** *** *  **  **
MAP Score: 7.06339

Motif 9
TCAACGTCGAAAGTCCCCCTTTTTAAGCCGGAGCTTTAG	1	18	1
AAATACCTAGCCTCGCACTTTTCAAACACTTTCTAAGAC	1	76	1
AATTTTGGGTCTATCCCCGTCCCTTTGACCGGGTAATGA	1	123	1
GTTAGGGCGGCCTTTCCCGTGGGAATGACAGAATTTCCA	1	224	0
AGTGGGAGGACTGATCCCGTTTAAAACTCAGACCTGATT	2	40	1
       GGAAAATCCCCCGCTGATGGGATTGTGGCAAA	3	3	1
ATTCAACCTAAAATCCCCAGGAAATTTGCCCT       	4	78	1
    GGGATTCGAACCCCCGTTGAGTTGCCCCAAAACAG	5	6	1
CTGCAATTTTCCGCCCCCATCTTAGCGCAGATTTGCCGT	5	107	1
TGGTCGTCAACAATCCCCGTATTCTACCCCAATACCTGA	5	161	0
AGGTGAGGGCGAATCCCCAGGCACACCTCAGAGAGACTA	5	242	0
       TCCCCGTCCACATTTGACCGTAAAGGAGCATT	6	3	1
TTTTCGTAATCACTCCACAGTGGATTCACGGGGAAATTT	7	117	1
TTGTTGCCCAAGCTCCTCCGGCCAGCCACTCTAACTAGT	7	181	0
GGAATGAGCTAATTTCACCTCTTAGCCGCAAAAATATCC	7	251	1
          *  ***** *   *  * *
MAP Score: 5.20426

Motif 10
TCTGCCAATTGTGCAAGTTCCGCAAGCAAGTAG	0	19	0
TCGCCCGTTAGTTAAACTTCTGCCAATTGTGCA	0	37	0
TAGAATCAACGTCGAAAGTCCCCCTTTTTAAGC	1	13	1
TATTTATCCCCCCAAATCTCCTCACTAAAGCTC	1	48	0
TCACTATTCAACCTAAAATCCCCAGGAAATTTG	4	73	1
GGCCATGGTCGTCAACAATCCCCGTATTCTACC	5	172	0
GCCCCAATTCGCCTAAATACTGAACGAGGTTGT	6	83	0
ATACGCCGTAGCCGAAGATCTGAAG        	6	120	1
        TCGCTCAAAATCCCAACAGAGTAAA	7	2	1
TAATTTTGTTGCCCAAGCTCCTCCGGCCAGCCA	7	192	0
          *** **  *****
MAP Score: 2.29568