AlignACE 3.0 10/20/99
AlignACE2 -i TM/TM_fusions020_100.orf 
Parameter values:
 expect =      	10
 gcback =      	0.38
 minpass =     	200
 seed =        	944251478
 numcols =     	10
 undersample = 	1
 oversample = 	1

Input sequences:
#0	TM0290	217	citrate synthase
#1	TM0548	162	acetolactate synthase, large subunit

Motif 1
TTAAATCTTTTTTGAAATGAAAAGCATTAAAA	0	72	1
AATGAAAAGCATTAAAATGCCAGCCTGTGCCA	0	87	1
ACTGGAACGATTAAAAATGAAGGAGGGCTTTG	0	166	0
CATTTTTATCATGAAAATGTAAAATTTAGGAT	1	13	0
CATTTTCATGATAAAAATGCTACTTCTAACAA	1	26	1
TATCACTCACTTTAAAATGTCAAGTTGTTGAA	1	67	0
CGGGGGGTTTTTAGGAATGGTATATCACTCAC	1	89	0
          *********  *
MAP Score: 8.26022

Motif 2
CATGCAGTACTGTTTAACTTTACCTTCAAGTTTG	0	117	1
AGGAGGGCTTTGGGAAATTTTACCATACAAACTT	0	144	0
CCCTCCTTCATTTTTAATCGTTCCAGTGTATAGT	0	171	1
ACCTCCGTGTTGTATAACTATACACTGGAACGAT	0	187	0
      CTTATCCTAAATTTTACATTTTCATGAT	1	4	1
TTAAAGTGAGTGATATACCATTCCTAAAAACCCC	1	84	1
CCCCCGTGATTTATTTATTATTCCAGGTCTGGTA	1	115	1
TCTCGGAGATTGAATGATTATACCAGACCTGGAA	1	135	0
          **  * *** ****
MAP Score: 7.55923

Motif 3
ATTAAGCAAGGGGAGGGGTTGAA       	0	3	0
AATTTTTCTGCGAAAGTGTTAAATCTTTTT	0	54	1
GGAGGGCTTTGGGAAATTTTACCATACAAA	0	147	0
TAAAAATGAAGGAGGGCTTTGGGAAATTTT	0	157	0
TTATACAACACGGAGGTGTTATT       	0	204	1
AATAAATCACGGGGGGTTTTTAGGAATGGT	1	100	0
          **********
MAP Score: 5.34844

Motif 4
ATGAAAAGCATTAAAATGCCAGCCTGTGCCA	0	88	1
GCAGTACTGTTTAACTTTACCTTCAAGTTTG	0	120	1
GTTTGTATGGTAAAATTTCCCAAAGCCCTCC	0	146	1
CCTTCATTTTTAATCGTTCCAGTGTATAGTT	0	175	1
   CTTATCCTAAATTTTACATTTTCATGAT	1	7	1
ATTTTCATGATAAAAATGCTACTTCTAACAA	1	27	1
ATCACTCACTTTAAAATGTCAAGTTGTTGAA	1	67	0
CGTGATTTATTTATTATTCCAGGTCTGGTAT	1	119	1
AGGTCTGGTATAATCATTCAATCTCCGAGAG	1	139	1
          **** ******
MAP Score: 3.42247