AlignACE 3.0 10/20/99
AlignACE2 -i CT/CT_operons018_100.orf 
Parameter values:
 expect =      	10
 gcback =      	0.38
 minpass =     	200
 seed =        	944242647
 numcols =     	10
 undersample = 	1
 oversample = 	1

Input sequences:
#0	CT330	208	hypothetical protein
#1	pykF	96	Pyruvate Kinase
#2	uvrA	22	Excinuclease ABC Subunit A
#3	proS	200	Prolyl tRNA Synthetase
#4	thrS	229	Threonyl tRNA Synthetase
#5	minD	300	chromosome partitioning ATPase-CHLTR plasmid protein homolog GP5D
#6	trpS	198	Tryptophanyl tRNA Synthetase
#7	uvrB	24	Exinuclease ABC Subunit B
#8	parB	135	Chromosome Partitioning Protein

Motif 1
ATTCATAAGGTCTATGATCTCTTCCAAACGTTTCAT	0	41	0
ACCAACCACGTCTTTAGAAGCTTCTCTTGCCTTGTA	0	79	1
TTTCGGATATTCTAGAAGATATTCTACTCACTAATA	1	55	1
CAGAGATTGATCTAGAAACACTCCTATGCTAAGATG	3	136	1
TGCGATCCGTTCTATAGAACAACCAAGCTTGTTGCT	4	29	1
GTAGGGCATCTCTTGAAAAAAACCCAGGTTGAAAAA	4	95	1
GTTATGGATCTCTATACAATCTCCTAAAAGAAGCTC	4	137	1
GGTCCAGGGCTCTAAAATCTCATCGAGTTAACTATA	5	17	1
          TCTATAATCCTTCCTAACAATCATCT	6	0	1
      AAAATCTTAACAACTATCCATTGT      	7	4	1
TTCGTTGTATTCTACAGACCGTCCCCAGAATACAAA	8	84	0
          **** *  *  *** *
MAP Score: 13.5348

Motif 2
GTCTTTAGAAGCTTCTCTTGCCTTGTATGA	0	88	1
TGCGGAGTGGGCATCTCTTGATTTGCATTA	8	33	1
CTATTGTAGGGCATCTCTTGAAAAAAACCC	4	90	1
       TACGCTTCTGTTGTCAAGAGAGA	8	3	1
GTTCGGAGGAGCTTCTTTTAGGAGATTGTA	4	151	0
ATAGTTGAAGGCTTCTTTCATTTCGGATAT	1	35	1
TGCCCACTCCGCATCTCTCTTGACAACAGA	8	16	0
ATAACTTGATGTTTCTTTTGTTTGTTTCTT	3	54	0
AGGAAGCCTCGCTCCTTTTTAGTTGCTTTA	5	250	0
GGCTTTAGGGGCTTATTTTTCGTAAAAATC	6	87	1
          **********
MAP Score: 12.7019

Motif 3
CGTCTTCAAAAGAGATTTTTTCCACGTTT    	0	6	0
CACGTATTAAACAGCTTTCCGACCAACGGAGCG	0	171	1
TTCGTGTGGAAGAGCATCTTAGCATAGGAGTGT	3	153	0
GTTTTTTTCAAGAGATGCCCTACAATAGATCCT	4	85	0
GTTAACTATACGATTTTTCTTCCCATGGTAGTT	5	43	1
CCCTAAAAATAGACTTTTCTACCGGAGGGATAC	5	112	1
ATTATTGGGTACAGTATCCCTCCGGTAGAAAAG	5	125	0
AGGTATCTGGAGAGCTTTCTTACTTTATTCATC	5	167	1
TAAAAAGGAGCGAGGCTTCCTCCCCTACAAGGG	5	259	1
GTAAAAATCCAGAGATGTCTTGCATCGATAAAT	6	108	1
AAGCAAGGAGCGAGGTTTTTTCCCAAACAGGGT	6	156	1
TTTTTCCCAAACAGGGTCCCGCCTCGTGAGTCA	6	172	1
ATGCAAATCAAGAGATGCCCACTCCGCATCTCT	8	28	0
          ****  **** **
MAP Score: 11.0052

Motif 4
ATTAATTTTAAGAAACAAACAAAAGAAACATCAAGT	3	45	1
ACATCAAGTTATTAAGAAATAAAGAATCTGAACTAG	3	72	1
TCCAATAAGAACAAAAAAATCACAGAGATTGATCTA	3	114	1
CTAGCTGTGCACTAAAAAAATAAGGATCTATTGTAG	4	63	1
GGGTTTTATAAAGGATAAAATGAGAATCTGAGTTCG	4	176	0
TACTGTACCCAATAATATAGAAAAGAGGTATCTGGA	5	142	1
GTTAAAGGAGATGAATAAAGTAAGAAAGCTCTCCAG	5	173	0
GCTTATGGACAAATCAATATAAAGGAATTAAAGCAA	5	222	1
AAAGGAATTAAAGCAACTAAAAAGGAGCGAGGCTTC	5	242	1
GATGTCTTGCATCGATAAATTAAGAATTAAAGAAAA	6	121	1
ATTAAGAATTAAAGAAAAAGCAAGGAGCGAGGTTTT	6	139	1
CGTCCCCAGAATACAAAAACTCAAGATACAAAATCT	8	65	0
          *   * ***  *****
MAP Score: 10.8236

Motif 5
ATCATAGACCTTATGAATCAACCAACCACGTCTTT	0	59	1
TGATCAGCCTCTTCATACAAGGCAAGAGAAGCTTC	0	95	0
TAAATTAATTTTAAGAAACAAACAAAAGAAACATC	3	42	1
CATCAAGTTATTAAGAAATAAAGAATCTGAACTAG	3	73	1
TAAGATGCTCTTCCACACGAAACAATATAAAGCAC	3	165	1
GCGATCCGTTCTATAGAACAACCAAGCTTGTTGCT	4	30	1
TTGTTGCTAGCTGTGCACTAAAAAAATAAGGATCT	4	57	1
TAGGGCATCTCTTGAAAAAAACCCAGGTTGAAAAA	4	96	1
TGTAGCGTTTCACGGAACTAAGCAAAAGGGTTTTA	4	204	0
TCGTCCATGCTTATGGACAAATCAATATAAAGGAA	5	214	1
GGGGCTTATTTTTCGTAAAAATCCAGAGATGTCTT	6	94	1
AAATTAAGAATTAAAGAAAAAGCAAGGAGCGAGGT	6	137	1
CGGGACCCTGTTTGGGAAAAAACCTCGCTCCTTGC	6	158	0
          **  * ** ** ***
MAP Score: 8.6956

Motif 6
      AAACGTGGAAAAAATCTCTTTTGAAGA	0	4	1
AAAAACAAAATTTGCAAAAACGCTTAAATTAAT	3	18	1
AGAATCTGAACTAGTTAAAATCCAATAAGAACA	3	94	1
AGAGATTGATCTAGAAACACTCCTATGCTAAGA	3	137	1
TAGTGCACAGCTAGCAACAAGCTTGGTTGTTCT	4	44	0
TAGGGCATCTCTTGAAAAAAACCCAGGTTGAAA	4	96	1
TGTTATGGATCTCTATACAATCTCCTAAAAGAA	4	136	1
TCATTTTATCCTTTATAAAACCCTTTTGCTTAG	4	189	1
GGGCTTATTTTTCGTAAAAATCCAGAGATGTCT	6	95	1
GGGACCCTGTTTGGGAAAAAACCTCGCTCCTTG	6	159	0
          ** * ***** **
MAP Score: 7.40946

Motif 7
CAAACGTTTCATAGCGTCTTCAAAAGAGATTTTTTCC	0	16	0
AAGACGCTATGAAACGTTTGGAAGAGATCATAGACCT	0	33	1
GAATCAACCAACCACGTCTTTAGAAGCTTCTCTTGCC	0	73	1
AGCTTCTCTTGCCTTGTATGAAGAGGCTGATCAATTA	0	97	1
AAGAAGTCGAAGCACGTATTAAACAGCTTTCCGACCA	0	159	1
GCTTTATATTGTTTCGTGTGGAAGAGCATCTTAGCAT	3	161	0
          GAACCGTGTCGCACGGATCTGCGATCC	4	0	1
         TGTAGCGTTTCACGGAACTAAGCAAAAG	4	211	0
CAGTAATCCTGTTCCGTTTACAAAAGACTTATCCCTA	5	80	1
          *   *** *  ** ***
MAP Score: 6.45991

Motif 8
GCGTCTTCAAAAGAGATTTTTTCCACGTTT          	0	0	0
ACGTCTTTAGAAGCTTCTCTTGCCTTGTATGAAGAGGCTG	0	86	1
CAAGAAGTCGAAGCACGTATTAAACAGCTTTCCGACCAAC	0	158	1
GTATAGTTGAAGGCTTCTTTCATTTCGGATATTCTAGAAG	1	33	1
CTAAAAAAATAAGGATCTATTGTAGGGCATCTCTTGAAAA	4	74	1
ACCCAGGTTGAAAAAAGTTTTGTTATGGATCTCTATACAA	4	116	1
CTGAGTTCGGAGGAGCTTCTTTTAGGAGATTGTATAGAGA	4	145	0
GGAACTAAGCAAAAGGGTTTTATAAAGGATAAAATGAGAA	4	186	0
CCTCCGGTAGAAAAGTCTATTTTTAGGGATAAGTCTTTTG	5	100	0
ATCTTTAGAAAGATGATTGTTAGGAAGGATTATAGA    	6	6	0
CCCCTGAATCAGACTATTTTTAAAAAGCAGGCTTTAGGGG	6	58	1
GATGCGGAGTGGGCATCTCTTGATTTGCATTATAAGATTT	8	31	1
          ***    * **     ****
MAP Score: 5.81754

Motif 9
CGGAAAGCTGTTTAATACGTGCTTCGACTTCTTG	0	158	0
GTTTCTTTTGTTTGTTTCTTAAAATTAATTTAAG	3	40	0
GTTCAGATTCTTTATTTCTTAATAACTTGATGTT	3	71	0
CAGATTCTCATTTTATCCTTTATAAAACCCTTTT	4	182	1
ACCCTTTTGCTTAGTTCCGTGAAACGCTACA   	4	208	1
TCTGGAGAGCTTTCTTACTTTATTCATCTCCTTT	5	172	1
TTTAGTTGCTTTAATTCCTTTATATTGATTTGTC	5	229	0
        TCTATAATCCTTCCTAACAATCATCT	6	2	1
TTTAGGGGCTTATTTTTCGTAAAAATCCAGAGAT	6	90	1
TTGCTTTTTCTTTAATTCTTAATTTATCGATGCA	6	128	0
          ***  * *** ***
MAP Score: 4.92621

Motif 10
          AAACGTGGAAAAAATCTCTTTTGAAGACGCTATGA	0	0	1
TTTAAAAACAAAATTTGCAAAAACGCTTAAATTAATTTTAAGAAA	3	15	1
CTAGAAACACTCCTATGCTAAGATGCTCTTCCACACGAAACAATA	3	147	1
GATTGTATAGAGATCCATAACAAAACTTTTTTCAACCTGGGTTTT	4	113	0
TCTCTATACAATCTCCTAAAAGAAGCTCCTCCGAACTCAGATTCT	4	145	1
TTCTCATTTTATCCTTTATAAAACCCTTTTGCTTAGTTCCGTGAA	4	186	1
GTAATCCTGTTCCGTTTACAAAAGACTTATCCCTAAAAATAGACT	5	82	1
    TCTATAATCCTTCCTAACAATCATCTTTCTAAAGATGATGT	6	6	1
GATGTTACATAGCCCCTGAATCAGACTATTTTTAAAAAGCAGGCT	6	46	1
TATTCTACAGACCGTCCCCAGAATACAAAAACTCAAGATACAAAA	8	68	0
          * *  *   *  *  **  * *  *
MAP Score: 1.81348