AlignACE 3.0 10/20/99
AlignACE2 -i CT/CT_operons027_300.orf 
Parameter values:
 expect =      	10
 gcback =      	0.38
 minpass =     	200
 seed =        	944242975
 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
GTTCTCCTAAAAACTACAAAGTCAAAAAGA	1	18	1
TCTAAAACTAAAATTACACAGAAACTAGTG	1	132	0
TTCGACACACAAAATCTAAAACTAAAATTA	1	146	0
ATTCCATCTAAACATCCCCATGGAAAGGAC	1	187	1
GATATCCTTGAAAATCTCAAGGATTGACAG	1	216	0
CGCCATGGTGAAACTCCCCAACTAGCAGAG	2	30	0
TCTTTTTAGGAAACTATAAAGAAGGGCGAA	2	125	0
CTGTTATAACAAGCTACACATGTGCGTTGG	2	178	1
ATCATTGCGGAAGCTCTCAATGATCCTAGC	2	211	0
          **********
MAP Score: 5.38014

Motif 2
TGTATACTTAACTCTGACTTTTAATCTTTTTTGCAATTTA	0	29	1
TTGCAATTTAATAAAGTCTTTTTTTGTTCTCTCTATTAAA	0	59	1
GTTCTCTCTATTAAAGATGCGTTTTGCTGTCGCAAAAGAC	0	84	1
AAGACGCTTCAGTAAGAGTGTTTTTAGTGTAAAAAAGTAC	0	119	1
AGTGTAAAAAAGTACGAAGGATTTTATTCTGCATAAGATC	0	144	1
TTTTTTTAATAAAGAGATGCATCTTATTACTTGTAGTGCA	1	88	0
GTTTCACTAGTTTCTGTGTAATTTTAGTTTTAGATTTTGT	1	128	1
GGGGATGTTTAGATGGAATATTTATAATGTTTCGACACAC	1	166	0
TCAGTTGGTTAGAGCGTCGGATTGTGGTTCCGAAGGTCGC	2	68	1
ATAGTTTCCTAAAAAGACTACTTCGATTCTTTTATTTTTC	2	138	1
AATAGCGCTTATATGGAGGTGTTAGCCTATCATTGCGGAA	2	229	0
          * *  ** *  ** *  * *
MAP Score: 4.93002

Motif 3
     CTTCCATCCTAAACATGGTCAATCA	0	185	0
TAATGATGTTCTCCTAAAAACTACAAAGTC	1	11	1
TGTAAATATTCACCTTAAAAAAGGCAAGAT	1	52	1
AGGACTGTCAATCCTTGAGATTTTCAAGGA	1	212	1
CCCCTCCGATATCCTTGAAAATCTCAAGGA	1	223	0
TCTTTATAGTTTCCTAAAAAGACTACTTCG	2	133	1
GAGTGCTAGGATCATTGAGAGCTTCCGCAA	2	207	1
          **********
MAP Score: 3.22169

Motif 4
TGACTTTTAATCTTTTTTGCAATTTAATAAAG	0	43	1
TTTAATAAAGTCTTTTTTTGTTCTCTCTATTA	0	65	1
TTTTGTTCTCTCTATTAAAGATGCGTTTTGCT	0	80	1
CACTAAAAACACTCTTACTGAAGCGTCTTTTG	0	116	0
TTTACACTACTCTTTTTGACTTTGTAGTTTTT	1	26	0
ATAAGATGCATCTCTTTATTAAAAAAAGTTTC	1	101	1
ATCGAAGTAGTCTTTTTAGGAAACTATAAAGA	2	133	0
CTACTTCGATTCTTTTATTTTTCCTGTTATAA	2	155	1
  AGTTCCTCTCTCTTATCTAACTGATAGGGA	2	280	0
          *******  ***
MAP Score: 1.24141