AlignACE 3.0 10/20/99
AlignACE2 -i TH/TH_fusions017_300.orf 
Parameter values:
 expect =      	10
 gcback =      	0.38
 minpass =     	200
 seed =        	944243393
 numcols =     	10
 undersample = 	1
 oversample = 	1

Input sequences:
#0	MTH736	133	conserved protein
#1	MTH738	24	conserved protein
#2	MTH739	286	conserved protein
#3	MTH1107	107	oxaloacetate decarboxylase, alpha subunit 
#4	MTH1496	194	amidase
#5	MTH1917	189	biotin carboxylase

Motif 1
GGGTTGAATTCAATCAGCCCTGTATTTTGAGG	0	16	1
AGCATAAAAAGATACAGTGATATATTAATTAG	2	33	0
GAGGATAAAAGATACAGTGATGTCGGCACCGG	2	98	0
TTTATCCTCGGGGACAGCCATGGTGTCTGCGA	2	121	1
GACAGCCATGGTGTCTGCGATGCATTTAAATA	2	133	1
       CGTGACCCTCTCATGAGATCAATTA	3	92	0
ATGGACCGCCGGGACAGCCATGACAGTACTCA	4	87	0
CTCCACCCTCGAGGCAGTCATGGCAGCTATTA	4	129	1
TGGGGGATATGGATGAGCCCTGAGATGCTGC 	5	9	0
TTGAGTTACAGTAACTGCCATGTGGATGACAT	5	100	0
          **  ********
MAP Score: 12.9319

Motif 2
CAGGGCTGATTGAATTCAACCCTAAAAA    	0	6	0
AATTAATATATCACTGTATCTTTTTATGCTTT	2	35	1
GGTGCCGACATCACTGTATCTTTTATCCTCGG	2	100	1
CACGACTATTTAAATGCATCGCAGACACCATG	2	139	0
AATAATATAATAAATTCATATCAAACCACTTG	2	251	1
GACTTATATCTCACTTCAACTTGAAATATAAG	4	171	1
CTATCTACTATCAATGCAAACCCGGTTACCGT	5	60	1
CACATGGCAGTTACTGTAACTCAAGTGGTATG	5	108	1
TATAGTATATTGAATGAACCTCTTTTTAAGCA	5	138	0
         CTAACTGCACCTTGAAGTTTTAA	5	176	0
          * ****** ***
MAP Score: 9.6102

Motif 3
 TTAGGTACTGAAGGCTTTGCTGGA        	1	2	0
TTGTTATCCTGAGGGCATTGTTATGCAATTATG	2	65	1
TGATGTCGGCACCGGCATAATTGCATAACAATG	2	80	0
TTATGCCGGTGCCGACATCACTGTATCTTTTAT	2	93	1
ATGCATCGCAGACACCATGGCTGTCCCCGAGGA	2	125	0
GTTGTTTTCTGCAGACAATACTGCAAGCTAAAA	2	193	1
ACGGATGAGTACTGTCATGGCTGTCCCGGCGGT	4	82	1
AACCTTAATAGCTGCCATGACTGCCTCGAGGGT	4	133	0
          ** * *** ****
MAP Score: 9.2669

Motif 4
TCAGCCCTGTATTTTGAGGGTATTGAGAAT	0	29	1
TAGAAGTATGACTTTGAGGGATTTCA    	2	6	0
ATGCTTTGTTATCCTGAGGGCATTGTTATG	2	60	1
TGTATCTTTTATCCTCGGGGACAGCCATGG	2	114	1
CATATCAAACCACTTGTGGGGTAATAGTT 	2	267	1
CGGAAACTCCACCCTCGAGGCAGTCATGGC	4	123	1
      GCAGCATCTCAGGGCTCATCCATA	5	4	1
AGAAGGAGGTATCTTGGGGGATATGGATGA	5	25	0
TATCTGTTAAAACTTCAAGGTGCAGTTAG 	5	170	1
          **********
MAP Score: 8.32892

Motif 5
TGAATTCAATCAGCCCTGTATTTTGAGGGTATTGAGA	0	20	1
CATTGTTATGCAATTATGCCGGTGCCGACATCACTGT	2	80	1
TCCTCGGGGACAGCCATGGTGTCTGCGATGCATTTAA	2	125	1
ATTAATACATCTGCTGTGTATTTAAGGAAGTTCCTAC	3	38	1
AAGGAAGTTCCTACTATGTATATAAAGAATCTAATTG	3	61	1
CGGATGAGTACTGTCATGGCTGTCCCGGCGGTCCATG	4	83	1
ACCTTAATAGCTGCCATGACTGCCTCGAGGGTGGAGT	4	128	0
GTTACAGTAACTGCCATGTGGATGACATGGGGACTTA	5	91	0
          ***** **  * *   *
MAP Score: 5.6936

Motif 6
       TTTTTAGGGTTGAATTCAATCAGCCCTG	0	3	1
TTGAATTCAATCAGCCCTGTATTTTGAGGGTATTG	0	19	1
GTATTGAGAATTCTGGATGAATTTTACCTGAACCG	0	48	1
AGCCATGGTGTCTGCGATGCATTTAAATAGTCGTG	2	136	1
AAAAAAAGGTTTAAATATGACTTTAGAATAATAAT	2	222	1
CCACAAGTGGTTTGATATGAATTTATTATATTATT	2	251	0
AATTAATACATCTGCTGTGTATTTAAGGAAGTTCC	3	37	1
TTTATTAGTGTTGGAAATGAAATTAAAACCACGGA	4	52	1
CATGACTGCCTCGAGGGTGGAGTTTCCGGTCCATG	4	116	0
  CCTTATATTTCAAGTTGAAGTGAGATATAAGTC	4	171	0
CTTACGGTAACCGGGTTTGCATTGATAGTAGATAG	5	60	0
CCCCATGTCATCCACATGGCAGTTACTGTAACTCA	5	96	1
     CTAACTGCACCTTGAAGTTTTAACAGATAT	5	169	0
          ** *   ** *****
MAP Score: 5.13548

Motif 7
ATTCAATCAGCCCTGTATTTTGAGGGTATT	0	23	1
ATTAATATATCACTGTATCTTTTTATGCTT	2	36	1
GTGCCGACATCACTGTATCTTTTATCCTCG	2	101	1
ACTTATATCTCACTTCAACTTGAAATATAA	4	172	1
ACATGGCAGTTACTGTAACTCAAGTGGTAT	5	109	1
          **********
MAP Score: 2.28842

Motif 8
       TTTTTAGGGTTGAATTCAATCAGCC	0	3	1
CCCTCAAAATACAGGGCTGATTGAATTCAACC	0	17	0
TATTGAGAATTCTGGATGAATTTTACCTGAAC	0	49	1
CCTGAACCGGTCAAGATTAAGTTTTTATAAGA	0	74	1
          TCAGGGTCAATCTACCAATCTT	4	0	1
ATGGCAGCTATTAAGGTTGATCAGACTTATAT	4	148	1
 CCTTATATTTCAAGTTGAAGTGAGATATAAG	4	173	0
  GCAGCATCTCAGGGCTCATCCATATCCCCC	5	8	1
CTATCTACTATCAATGCAAACCCGGTTACCGT	5	60	1
TGTTAAAACTTCAAGGTGCAGTTAG       	5	174	1
          ******* ** *
MAP Score: 0.153517