AlignACE 3.0 10/20/99
AlignACE2 -i TM/TM_fusions015_100.orf 
Parameter values:
 expect =      	10
 gcback =      	0.38
 minpass =     	200
 seed =        	944251398
 numcols =     	10
 undersample = 	1
 oversample = 	1

Input sequences:
#0	TM0524	209	conserved hypothetical protein
#1	TM0526	30	host factor I
#2	TM1243	43	phosphoribosylaminoimidazole-succinocarboxamide synthase

Motif 1
GATAGCTCACGAGAAAAACAAAGATCATAA	0	72	0
GGTGGCACTGGAGAAGCACAATCGGTTGAT	0	112	1
AAGACAAAGATAGAGGAACAGAAAGCGCTG	0	161	1
AGCGCTGAACGAGAAGCTCTTAGAGGTGAT	0	184	1
          **********
MAP Score: 2.67272

Motif 2
   ACTGAGGCCAAGAAGGCGGAAGCATTTCAGA	0	7	1
GAATTGAAGACAAAGATAGAGGAACAGAAAGCGC	0	155	1
GATAGAGGAACAGAAAGCGCTGAACGAGAAGCTC	0	169	1
ATTTTGAAATCACATCGAGGGGGGAG        	1	14	1
ATAGAATTTTCAAAAAGGGCGGGGAGGCGAGCGT	2	19	1
          ** * *  ******
MAP Score: 1.88768

Motif 3
TGAGGCCAAGAAGGCGGAAGCATTTCAGAG	0	12	1
AAATCACATCGAGGGGGGAG          	1	20	1
AATTTTCAAAAAGGGCGGGGAGGCGAGCGT	2	23	1
          **********
MAP Score: 0.824294