AlignACE 3.0 10/20/99
AlignACE2 -i TH/TH_fusions013_100.orf 
Parameter values:
 expect =      	10
 gcback =      	0.38
 minpass =     	200
 seed =        	944243310
 numcols =     	10
 undersample = 	1
 oversample = 	1

Input sequences:
#0	MTH829	61	3-isopropylmalate dehydratase, LeuD subunit 
#1	MTH831	25	molybdenum cofactor biosynthesis MoaA homolog
#2	MTH1386	300	3-isopropylmalate dehydratase, LeuD subunit
#3	MTH1630	191	2-isopropylmalate synthase

Motif 1
GATGATGTTTTTCATGGACCAGATAGAACA	0	24	1
TATTAATCAAGTGAGGGACC          	2	0	0
CTTTAACCTTCTGATGTCCCCATATGTTCA	2	193	0
CACAGACTGCCCCATGGACCACTTGCTGGA	2	236	1
TGCTGGAACCTTTATGAACCCTTCAATTAT	2	259	1
        GGCTGATGGTCCTCAGATATTT	3	2	1
ACCATAACACGTAATGACCCACCATATTTC	3	67	1
          **********
MAP Score: 3.56617

Motif 2
ATGATGTTTTTCATGGACCAGATAGAACAC	0	25	1
ATTAATAATATCACGCCCCGTCTATAAAAG	2	23	1
GCTCTAATTTTCACAGACTGCCCCATGGAC	2	225	1
ACAGACTGCCCCATGGACCACTTGCTGGAA	2	237	1
ATGATAATGATCAGAGACTGCATCAGTGAA	3	37	0
TAACACGTAATGACCCACCATATTTCAGCC	3	71	1
CCACCATATTTCAGCCACCGGAATATGGAT	3	85	1
          **********
MAP Score: 1.90915

Motif 3
ATTAGAGCCTCTTTAACCTTCTGATGTCCCC	2	202	0
GTTAAAGAGGCTCTAATTTTCACAGACTGCC	2	216	1
GGACCACTTGCTGGAACCTTTATGAACCCTT	2	251	1
TTTATGAACCCTTCAATTATTCTGCTAAAGG	2	269	1
GCTGATGGTCCTCAGATATTTTCAAATTCAC	3	11	1
CTGATGCAGTCTCTGATCATTATCATACCAT	3	41	1
TGGATGCACTCTCAAACCTTTTATACTAATA	3	110	1
          *** *******
MAP Score: 1.25608