AlignACE 3.0 10/20/99
AlignACE2 -i CT/CT_operons034_300.orf 
Parameter values:
 expect =      	10
 gcback =      	0.38
 minpass =     	200
 seed =        	944243150
 numcols =     	10
 undersample = 	1
 oversample = 	1

Input sequences:
#0	groEL_1	37	HSP-60
#1	groES	171	10KDa Chaperonin
#2	pepF	300	Oligoendopeptidase
#3	groEL_2	76	HSP-60
#4	ybbC	197	hypothetical protein
#5	CT755	300	Mitochondrial HSP60 Chaperonin Homolog

Motif 1
     TGATGCGCTCCTTAAATCTTCTTCA	0	22	0
GCAAAGTCCTCGCTTTTTTGCAACTGGTTT	1	45	0
AAATGATCTTAGCTCTTTTATTGACTGTAA	2	112	0
ATCGAAACTACTCTCTTTGATCAAGAAACA	2	189	1
CTAAATCATCAGCTCCTTGGTTAGGATAGC	2	241	0
      GAATCTCTCCTTAGAGGAAGCTGT	2	286	0
GGTGCTGTTTCTTTTTTTTGTCATCCAAAG	4	18	0
TCTTTCACTAAGCTTTTTTATTTTAAGAGG	4	93	1
TCCTTTGGATCTCTCTTTGACAAGGGAAAC	4	173	0
         AATCTCCTTTGGATCTCTCTT	4	186	0
GAGTGAAAAGCGTTTCTTTAGAGGTTGAAT	5	14	0
TTTTTCCTGAAGCTTTTTTATATGAGTGAA	5	37	0
TTTCTGGGATCTTTTTTTTGTAAGCAGGAT	5	77	0
          **********
MAP Score: 14.0479

Motif 2
CATACAGCTTAATTCTCTTACAGTCAATAAAAGAGC	2	95	1
ATCTTGATCGAAACTACTCTCTTTGATCAAGAAACA	2	183	1
AGAAACAGCTAACTCTCTTCCCCTTACTGGCTATCC	2	212	1
ACACAAACATAAACAGCTTCCTCTAAGGAGAGATTC	2	274	1
CTTGTCAAACAACCATCTTTGGATAT          	3	0	0
GACAAGAATAAATCGCCTTTCTATATCCAAGACTGC	3	30	1
        AAAAATCCCTTTGGATGACAAAAAAAAG	4	2	1
CGGCGATAAGAATTTTCTTTCACTAAGCTTTTTTAT	4	78	1
ACCCTGTTGGAAACCTCTTAAAATAAAAAAGCTTAG	4	100	0
          AATCTCCTTTGGATCTCTCTTTGACA	4	181	0
ACCTCTAAAGAAACGCTTTTCACTCATATAAAAAAG	5	19	1
          ** *  *****  * *
MAP Score: 10.9431

Motif 3
AATAGCAGTTGATCATGCCAACTGCTAAACC	1	19	1
AAGGCTTGCCAATCACATCGATCAATAAAGC	2	52	1
AAGATCATTTGATCACAGAAAACTACAGGCA	2	132	1
GCTGTTTCTTGATCAAAGAGAGTAGTTTCGA	2	190	0
TGATGATTTAGCTGACACAAACATAAACAGC	2	260	1
CAAGACTGCAGCTGATAGAGGAATAGGAT  	3	57	1
AATCCCTTTGGATGACAAAAAAAAGAAACAG	4	13	1
GTATGGGCAGGATGATAGCGGCGATAAGAAT	4	60	1
GGTTGCTGTAGATCAAAAAAACAAAAATCAG	4	133	1
AACGCTTTTCACTCATATAAAAAAGCTTCAG	5	30	1
TTGTAAGCAGGATGAAGAAAAAATTTTTCCT	5	59	0
TCTTCATCCTGCTTACAAAAAAAAGATCCCA	5	72	1
ACAAAAAAAAGATCCCAGAAAATGCACACTG	5	86	1
ACCGCTTGGCGATGCCACCGGGAGATATCCG	5	150	0
TCGCCAGTTAGATCACAACGAGATTTAAGAA	5	232	0
          ******* ***
MAP Score: 9.4698

Motif 4
AACCAGTTGCAAAAAAGCGAGGACTTTGCT	1	46	1
CATAGAATATAAAAATACGAGGAGCTTAAA	1	150	1
CTTACAGTCAATAAAAGAGCTAAGATCATT	2	111	1
AGTCTTGGATATAGAAAGGCGATTTATTCT	3	34	0
TTTGGATGACAAAAAAAAGAAACAGCACCT	4	19	1
ACCTCTTAAAATAAAAAAGCTTAGTGAAAG	4	94	0
GCTGTAGATCAAAAAAACAAAAATCAGGAA	4	137	1
TTCAACCTCTAAAGAAACGCTTTTCACTCA	5	15	1
TTTCACTCATATAAAAAAGCTTCAGGAAAA	5	36	1
TCCTGCTTACAAAAAAAAGATCCCAGAAAA	5	78	1
          **********
MAP Score: 9.04124

Motif 5
      AAACTAAGAGAGTGAAGAAGATTTAAGGA	0	4	1
TTATTGACTGTAAGAGAATTAAGCTGTATGGATAT	2	90	0
TTACAGTCAATAAAAGAGCTAAGATCATTTGATCA	2	112	1
TCCCTTTGGATGACAAAAAAAAGAAACAGCACCTC	4	15	1
GGAAACCTCTTAAAATAAAAAAGCTTAGTGAAAGA	4	93	0
TTGCTGTAGATCAAAAAAACAAAAATCAGGAAGAT	4	135	1
CGCTTTTCACTCATATAAAAAAGCTTCAGGAAAAA	5	32	1
TTCATCCTGCTTACAAAAAAAAGATCCCAGAAAAT	5	74	1
          * * * **  *****
MAP Score: 8.44829

Motif 6
CTGCTAAACCAGTTGCAAAAAAGCGAGGACTT	1	40	1
TCCCTACGTTGGTAGCGGAACAAAGCCGGACC	1	109	1
GGCCTCATAGAATATAAAAATACGAGGAGCTT	1	145	1
AAGATCATTTGATCACAGAAAACTACAGGCAA	2	132	1
TACTCTCTTTGATCAAGAAACAGCTAACTCTC	2	197	1
GACTGCAGCTGATAGAGGAATAGGAT      	3	60	1
AATCCCTTTGGATGACAAAAAAAAGAAACAGC	4	13	1
AAAAAAGCTTAGTGAAAGAAAATTCTTATCGC	4	80	0
GGTTGCTGTAGATCAAAAAAACAAAAATCAGG	4	133	1
ATATAAAAAAGCTTCAGGAAAAATTTTTTCTT	5	44	1
TTGTAAGCAGGATGAAGAAAAAATTTTTCCTG	5	58	0
TCTTCATCCTGCTTACAAAAAAAAGATCCCAG	5	72	1
ACAAAAAAAAGATCCCAGAAAATGCACACTGT	5	86	1
          ***  *******
MAP Score: 8.2608

Motif 7
TAAATCTTCTTCACTCTCTTAGTTT      	0	4	0
TTGCTATCGTTCTTCCTCTGAACGTTCTATC	1	71	1
CCATACAGCTTAATTCTCTTACAGTCAATAA	2	94	1
CAGCTAACTCTCTTCCCCTTACTGGCTATCC	2	217	1
AACATAAACAGCTTCCTCTAAGGAGAGATTC	2	279	1
      ATCCTATTCCTCTATCAGCTGCAGT	3	61	0
ATAAGAATTTTCTTTCACTAAGCTTTTTTAT	4	83	1
AACCCTGTTGGAAACCTCTTAAAATAAAAAA	4	106	0
    ATCAATTCAACCTCTAAAGAAACGCTT	5	6	1
          ********* *
MAP Score: 5.38885