AlignACE 3.0 10/20/99
AlignACE2 -i CT/CT_operons027_100.orf 
Parameter values:
 expect =      	10
 gcback =      	0.38
 minpass =     	200
 seed =        	944242961
 numcols =     	10
 undersample = 	1
 oversample = 	1

Input sequences:
#0	gatC	200	Glu-tRNA Gln Amidotransferase (C subunit)
#1	trxB	244	Thioredoxin Reductase
#2	ftsK	300	Cell Division Protein FtsK

Motif 1
AACGCATCTTTAATAGAGAGAACAAAAAAA	0	77	0
AAAAGACGCTTCAGTAAGAGTGTTTTTAGT	0	117	1
AACTACAAAGTCAAAAAGAGTAGTGTAAAT	1	29	1
AAACTTTTTTTAATAAAGAGATGCATCTTA	1	102	0
AGTGCTAGGATCATTGAGAGCTTCCGCAAT	2	208	1
ATCAGTTAGATAAGAGAGAGGAACT     	2	285	1
          **********
MAP Score: 7.83165

Motif 2
TTAAATTGCAAAAAAGATTAAAAGTCAGAG	0	40	0
GAGAGAACAAAAAAAGACTTTATTAAATTG	0	62	0
GTTTTTAGTGTAAAAAAGTACGAAGGATTT	0	138	1
CTACAAAGTCAAAAAGAGTAGTGTAAATAT	1	31	1
TCTCTTTATTAAAAAAAGTTTCACTAGTTT	1	111	1
ATAGTTTCCTAAAAAGACTACTTCGATTCT	2	138	1
          **********
MAP Score: 5.77399

Motif 3
TGACTTTTAATCTTTTTTGCAATTTAATAAAGTCTTTTTTT	0	43	1
ATAAAGTCTTTTTTTGTTCTCTCTATTAAAGATGCGTTTTG	0	69	1
CTATTAAAGATGCGTTTTGCTGTCGCAAAAGACGCTTCAGT	0	91	1
AAATCCTTCGTACTTTTTTACACTAAAAACACTCTTACTGA	0	127	0
          TTAATGATGTTCTCCTAAAAACTACAAAGTC	1	0	1
AAGAGTAGTGTAAATATTCACCTTAAAAAAGGCAAGATTTC	1	44	1
AGTAATAAGATGCATCTCTTTATTAAAAAAAGTTTCACTAG	1	97	1
ATTTTAGTTTTAGATTTTGTGTGTCGAAACATTATAAATAT	1	148	1
TCGTTCGCCCTTCTTTATAGTTTCCTAAAAAGACTACTTCG	2	122	1
CTTCGATTCTTTTATTTTTCCTGTTATAACAAGCTACACAT	2	158	1
          *   * **     *  *****
MAP Score: 1.95011

Motif 4
    GACGTTTCTCCAACGTAGATGTATACTTAACT	0	6	1
TTTTTTGTTCTCTCTATTAAAGATGCGTTTTGCTGT	0	78	1
GTCGCAAAAGACGCTTCAGTAAGAGTGTTTTTAGTG	0	112	1
GTGTAAATATTCACCTTAAAAAAGGCAAGATTTCCC	1	51	1
CATCTAAACATCCCCATGGAAAGGACTGTCAATCCT	1	191	1
TTGGGGAGTTTCACCATGGCGAACGTAGCTCAGTTG	2	39	1
TGATCCTAGCACTCCAACGCACATGTGTAGCTTGTT	2	185	0
TGATAGGCTAACACCTCCATATAAGCGCTATTTCTG	2	237	1
          ** ***  * * * **
MAP Score: 1.89968

Motif 5
AGAATAAAATCCTTCGTACTTTTTTACACT	0	144	0
GCAGAGCGTGCAGGCGCTCTACGTTG    	2	6	0
AACCAACTGAGCTACGTTCGCCATGGTGAA	2	48	0
GAACCACAATCCGACGCTCTAACCAACTGA	2	68	0
GATTGTGGTTCCGAAGGTCGCGGGTTCGAA	2	87	1
GGTTCGAACCCCGTCGTTCGCCCTTCTTTA	2	109	1
CCTATCATTGCGGAAGCTCTCAATGATCCT	2	214	0
          **********
MAP Score: 1.1729