AlignACE 3.0 10/20/99
AlignACE2 -i TM/TM_fusions018_300.orf 
Parameter values:
 expect =      	10
 gcback =      	0.38
 minpass =     	200
 seed =        	944251439
 numcols =     	10
 undersample = 	1
 oversample = 	1

Input sequences:
#0	TM0666	163	serine acetyltransferase
#1	TM0882	135	O-acetylhomoserine sulfhydrylase
#2	TM1265	224	conserved hypothetical protein
#3	TM1266	140	hypothetical protein
#4	TM1270	50	cystathionine gamma-synthase
#5	TM1400	204	aspartate aminotransferase, putative

Motif 1
   TGAAATATCCCTCCTCCTGTGTTAATAT	0	7	1
GAAAGGTGAACCTCTTCACTTTTTTCACAAA	0	52	0
TGAAGAGGTTCACCTTTCTGTGATGAAAAGG	0	65	1
CCATATCCACCACCTCCAGATCGTTTGATTC	0	135	0
    AAGTATCACCTCCACATTTGAGATGGT	1	6	1
    TCTCTCCACCTCCCGTGATAAAATTTT	1	118	0
    AAGAGACACCTCCACATCAGGATTTTA	2	6	1
    AGTATGCACCTCCTCTGGAACGAATTA	2	207	0
CATATTATACCACCTTCTGAGAG        	3	2	0
TCAGGATTTTCCCCTCCACCTCAGGAGGTTT	3	55	0
TTCCATCCATCCCCTCCCCCGGTGTCAGGAT	3	79	0
TGGAAGTATACCCCTCTCCCGGCACGTGGAG	3	105	1
ACGAAAACCCCCTCTCCACGTGCCGGGAGAG	3	118	0
    GCCTATCCCCTCCCTGTTGAAATTTGT	5	6	1
ATATTCCCAACACCTCTCAAGATTATAGCAA	5	64	1
   GGAACTCCCCCTTTCCAGGATGGTGGTG	5	186	0
          ********* *
MAP Score: 40.0121

Motif 2
AAATATCCCTCCTCCTGTGTTAATATACTA	0	12	1
CTACACAAAGGCTTTTGTGAAAAAAGTGAA	0	39	1
AGAGGTTCACCTTTCTGTGATGAAAAGGTT	0	68	1
  TCTCTCCACCTCCCGTGATAAAATTTTC	1	117	0
TCCAGGTTTTCTTTGTGTGATTTCACATGG	2	50	1
GCCGACTCTTCGTTCTGAAAGAGAACGATT	2	98	1
TTCTATTTTCCGTTCTGTTATAGAACGATA	2	137	0
AAAAATCGTTCTTTTTGAGAACGTTTTGTG	2	174	1
TTTTTGAGAACGTTTTGTGCTATAATTCGT	2	185	1
TATTATACCACCTTCTGAGAG         	3	1	0
ATTTTTCTCACTTTCTGTTCATATTATACC	3	22	0
AAATCACAAACCTCCTGAGGTGGAGGGGAA	3	48	1
GAGTAGGCCTCCTGTTGTGATTGTGTACCG	4	30	0
CTATCCCCTCCCTGTTGAAATTTGTGTTTA	5	12	1
CTTTCTCGTTCCTTTTGATAAATATGCTTC	5	107	1
TATGCTTCATCCGTCTGTAAAAATTCTGGT	5	129	1
          **********
MAP Score: 16.3886

Motif 3
AAGCCTTTGTGTAGTATATTAACACAGGAG	0	23	0
AACAATTAGGTTGATATAATTCCATTGAAT	0	109	1
CATTTGAGATGGTGTAAAATATTTCTTACA	1	24	1
TCCACCTCCCGTGATAAAATTTTCTGATGT	1	111	0
AAACTAAGAAGTGGTAAAATCCTGATGTGG	2	21	0
AGAACGTTTTGTGCTATAATTCGTTCCAGA	2	191	1
CTCTCAGAAGGTGGTATAATATGAACAGAA	3	10	1
TGCCGGGAGAGGGGTATACTTCCATCCATC	3	99	0
ATCAATGGTCGTTGTATAATATTCCCAACA	5	46	1
AAAAATCTGTTTGCTATAATCTTGAGAGGT	5	75	0
AAAAATTCTGGTAGTATAATTAGTTAAAAA	5	147	1
          **********
MAP Score: 15.7292