AlignACE 3.0 10/20/99
AlignACE2 -i WIT_ctrl_PID079_100.orf 
Parameter values:
 expect =      	10
 gcback =      	0.38
 minpass =     	200
 seed =        	943391696
 numcols =     	10
 undersample = 	1
 oversample = 	1

Input sequences:
#0	ackA	300	acetate kinase
#1	pta	74	phosphotransacetylase
#2	b2462	220	orf, hypothetical protein
#3	tdcC	21	anaerobically inducible L-threonine, L-serine permease
#4	tdcB	98	threonine dehydratase, catabolic
#5	tdcA	188	transcriptional activator of tdc operon

Motif 1
CTACTTAGGCCTTCAGGCTGCTAAAGGATACCTG	0	71	0
ATATTTCTTCCATCATGCAAAAAAAATTTGCAGT	0	182	1
TTATGATTAACATCATGCACTGCAAATTTTTTTT	0	200	0
ATGTCGGTGTCATCATGCGCTACGCTCTATGGCT	0	234	1
TACCCTGAATATTCAGGGTAAGCGTGAGAGTTAA	2	16	0
TACCCTGAATATTCAGGGTAAGCAGTTTAGCTGC	2	30	1
TTTTATTTATATTCATGCGTTGCATATGAAAGTT	2	137	1
TACATATTTAATTCAGGCGAAGAGGTTTTATA  	4	76	1
TTTTGACAAAAATCAGGGTTTATGCTGATTTTTA	5	13	1
TTTTGATACACTTCATGCCGTCAATGAGGTAATT	5	151	1
          ********    **
MAP Score: 12.4655

Motif 2
        TGTGCAAATTCACAACTCAGCG	0	2	1
GCCTAAGTAGTACATATTCATTGAGTCGTC	0	95	1
AGTCGTCAAATTCATATACATTATGCCATT	0	118	1
CTGCTTACCCTGAATATTCAGGGTAAGCGT	2	25	0
TATTATTTTATTTATATTCATGCGTTGCAT	2	132	1
TGCATAAACTTTCATATGCAACGCATGAAT	2	147	0
TACGGTTACCTACATATTTAATTCAGGCGA	4	66	1
CTTTAACTTGTTGATATTTAAAGGTATTTA	5	49	1
          **********
MAP Score: 4.54639

Motif 3
TGCAAATTCACAACTCAGCGGGACAACGTT	0	12	1
AAAGTTTATGCACCACAGCGAATATCTCTC	2	165	1
TGTAACCCGCCAAATCGGCGGTAACGAAAG	1	44	1
TTCACACCGCCAGCTCAGCTGGCGGTGCTG	1	11	1
TGGCGGGTTACAAAACAGCACCGCCAGCTG	1	26	0
TTAAAGTATAAAAATCAGCATAAACCCTGA	5	25	0
GAAAATTACGCAAAATGGCATAGACTCAAG	0	152	1
          **********
MAP Score: 3.78745

Motif 4
TGAGTCTATGCCATTTTGCGTAATTTTCAG	0	150	0
GATATTTCTTCCATCATGCAAAAAAAATTT	0	181	1
TTTATGATTAACATCATGCACTGCAAATTT	0	205	0
AATGTCGGTGTCATCATGCGCTACGCTCTA	0	233	1
CACCGCCAGCTGAGCTGGCGGTGTGAAA  	1	8	0
TCGTTACCGCCGATTTGGCGGGTTACAAAA	1	41	0
AGCTTATTACTGAGTTTGCGAATAATAAAA	2	77	1
          **********
MAP Score: 2.08692

Motif 5
TTTGAACGTTGTCCCGCTGAGTTGTGAATT	0	16	0
GGCTGCTAAAGGATACCTGATAGTGGGTAT	0	60	0
GGTATCCTTTAGCAGCCTGAAGGCCTAAGT	0	73	1
TACGCTCTATGGCTCCCTGACGTTTTTTTA	0	254	1
  TTTCACACCGCCAGCTCAGCTGGCGGTG	1	8	1
AACTCTCACGCTTACCCTGAATATTCAGGG	2	18	1
AGCTAAACTGCTTACCCTGAATATTCAGGG	2	32	0
TTTTATTATTCGCAAACTCAGTAATAAGCT	2	77	0
ATTCTTAGTGATCTACCTCACCTTTTAAAC	2	196	1
AACATAAATAATCCACCTGTCTGTCTTGCA	4	27	1
TAACCGTAACCGACACCTGCAAGACAGACA	4	44	0
TATAAAACCTCTTCGCCTGAATTAAATATG	4	78	0
AGGATATGTGCGACCACTCACAAATTAACT	5	111	0
          **********
MAP Score: 0.96462