AlignACE 3.0 10/20/99
AlignACE2 -i WIT_ctrl_PID053_100.orf 
Parameter values:
 expect =      	10
 gcback =      	0.38
 minpass =     	200
 seed =        	943391509
 numcols =     	10
 undersample = 	1
 oversample = 	1

Input sequences:
#0	tbpA	163	thiamin-binding periplasmic protein

Motif 1
GCCTCAAATCCCTTCGCCGGCGTTATCCGG	0	103	0
ATTTGAGGCTCCTTCTCAAGTCCTTTGCCA	0	124	1
ACACTAACGCCGTTCTCAACGGGGTGCCAC	0	34	1
CCTTCGCCGGCGTTATCCGGATCAGGTTCG	0	93	0
CTTCTCAAGTCCTTTGCCACTCTTTTTTGA	0	135	1
CACGCGTACGCGTGCGCTGAGAAAATACCC	0	61	1
TCAGCGCACGCGTACGCGTGGCACCCCGTT	0	51	0
GTAGTGATTTTGTTATCAACCAGCAA    	0	6	0
ATCCGGATCAGGTTCGACGGGTATTTTCTC	0	79	0
          **********
MAP Score: 6.08223

Motif 2
TCAGCGCACGCGTACGCGTGGCACCCCGTTGA	0	49	0
GGGTGCCACGCGTACGCGTGCGCTGAGAAAAT	0	55	1
GCCTCAAATCCCTTCGCCGGCGTTATCCGGAT	0	101	0
          *** **** ***
MAP Score: 1.87142

Motif 3
CTCAACGGGGTGCCACGCGTACGCGTGCGC	0	48	1
CCGGATCAGGTTCGACGGGTATTTTCTCAG	0	77	0
TCAAGTCCTTTGCCACTCTTTTTTGAGGTG	0	139	1
          **********
MAP Score: 1.5326

Motif 4
TTCTCAACGGGGTGCCACGCGTACGCGTGC	0	46	1
GGCGAAGGGATTTGAGGCTCCTTCTCAAGT	0	115	1
TCTCAAGTCCTTTGCCACTCTTTTTTGAGG	0	137	1
GCCACTCTTTTTTGAGGTGCAAA       	0	150	1
          **********
MAP Score: 1.45589

Motif 5
          TTGCTGGTTGATAACAAAATCACTACA	0	0	1
CGCGTACGCGTGGCACCCCGTTGAGAACGGCGTTAGT	0	36	0
GCGAAGGGATTTGAGGCTCCTTCTCAAGTCCTTTGCC	0	116	1
CTCAAGTCCTTTGCCACTCTTTTTTGAGGTGCAAA  	0	138	1
         TTTGCACCTCAAAAAAGAGTGGCAAAGG	0	145	0
          ****  *** **    *
MAP Score: 0.080828