AlignACE 3.0 10/20/99
AlignACE2 -i TH/TH_fusions014_300.orf 
Parameter values:
 expect =      	10
 gcback =      	0.38
 minpass =     	200
 seed =        	944243341
 numcols =     	10
 undersample = 	1
 oversample = 	1

Input sequences:
#0	MTH151	75	methyl coenzyme M reductase system, component A2 homolog
#1	MTH155	228	rubredoxin
#2	MTH1350	108	flavoprotein AI

Motif 1
GGTCCTGCAGATATTATTTTTTTGAGATTAAT	1	32	1
ATCTGGACGTATATTATTCTTTGCTTCAGATC	1	62	1
ACGAACTTCTATATAATTTTTTCTGTTCCATG	2	53	0
       GCTATATCTTTATTACTCTCCTAAA	1	213	0
CTGAAGGACTATATTACTGTTTCAATACCATG	2	25	1
TTTGCTTCAGATCTTCTTTTTATCAGCAGGTA	1	81	1
CCCGGCATACATCTGATAATTTGTTTAATGGG	1	130	0
          AACTCTTTTTTAAGGACCTCCG	1	0	1
AGCACCATAGTTCTAATAGTTTTACTGACATA	0	23	0
          **** *** ***
MAP Score: 7.95487

Motif 2
TATACTAGAAGCACCATAGTTCTAATAGTTTT	0	32	0
GATTAATCTGGACGTATATTATTCTTTGCTTC	1	57	1
GGCTGCCATAGGAGCAGGGTACCTGCTGATAA	1	100	0
         TGGCCCATGTTATGTCTGAAGGA	2	1	1
TATGTCTGAAGGACTATATTACTGTTTCAATA	2	20	1
AATTTTTTCTGTTCCATGGTATTGAAACAGTA	2	39	0
ATCATCGAATGTACTATACTATACGAACTTCT	2	75	0
          *  *********
MAP Score: 3.29208

Motif 3
TATGTCAGTAAAACTATTAGAACTATGGTGCTTCTAGTAT	0	23	1
TGCTTCTAGTATATATTCATGGAGCCGGTGGCGA      	0	51	1
CCCATTAAACAAATTATCAGATGTATGCCGGGTCTCTCAA	1	130	1
GGGTCTCTCAACACTATAAAGCTTTCGCAGTGAATTTTAT	1	159	1
AATTTTATAGATAATTTTAAATTTTAGGAGAGTAATAAAG	1	191	1
CATGGAACAGAAAAAATTATATAGAAGTTCGTATAGTATA	2	53	1
AGAAGTTCGTATAGTATAGTACATTCGATGATATACGAAC	2	75	1
          * * *** * *  *  *  *
MAP Score: 3.24743