AlignACE 3.0 10/20/99
AlignACE2 -i WIT_ctrl_PID044_100.orf 
Parameter values:
 expect =      	10
 gcback =      	0.38
 minpass =     	200
 seed =        	943391400
 numcols =     	10
 undersample = 	1
 oversample = 	1

Input sequences:
#0	dnaK	300	chaperone Hsp70; DNA biosynthesis; autoregulated heat shock proteins
#1	dnaJ	88	chaperone with DnaK; heat shock protein
#2	yfhE	95	orf, hypothetical protein
#3	b2529	27	orf, hypothetical protein
#4	yfhO	87	putative aminotransferase
#5	b2531	300	orf, hypothetical protein
#6	grpE	122	phage lambda replication; host DNA synthesis; heat shock protein; protein repair

Motif 1
TTCGCGATATGGCAGGACAAGACGTAAAATTGACA	0	86	0
GGGTTTGTTTTACCTGATTCGCCGTTATCGCGGCG	2	49	1
CATTCTCAGGGCTGCGATCCGCCGCGATAACGGCG	2	68	0
         AGGTCGGATAAGGCGTTCACGCCGCA	5	1	1
AGGCAACGGCTGTCGGATGCGGCGTGAACGCCTTA	5	18	0
CGACAGCCGTTGCCTGATGCGACGCGTAATGCGTC	5	38	1
GTACACTGTAGGCCTGATAAGACGCATTACGCGTC	5	58	0
CAGAACCCCAGGGCGGATATGGCGTTCACGCCGCA	5	92	1
TTGTACCTGTTGTCGGATGCGGCGTGAACGCCATA	5	109	0
TACTCGGGAATGTCAGACTTGACCCTGCTATGCAA	5	216	1
          ** * ***  * ***
MAP Score: 26.3681

Motif 2
TTTTGATGAATGCCTTGGCTGCGATTCATTCTT	0	36	1
CCCTTGATGACGTGGTTTACGACCCCATTTAGT	0	158	1
AGTAGTCAACCGCAGTGAGTGAGTCTGCAAAAA	0	188	1
CCGATAACCCCACCGTGGTCGCCTGCGCGTGGG	2	18	1
TTACCTGATTCGCCGTTATCGCGGCGGATCGCA	2	58	1
GCGGCGTGAACGCCTTATCCGACCT        	5	2	0
AAGGCGTTCACGCCGCATCCGACAGCCGTTGCC	5	19	1
CCTGATAAGACGCATTACGCGTCGCATCAGGCA	5	48	0
GCGGCGTGAACGCCATATCCGCCCTGGGGTTCT	5	93	0
ATGGCGTTCACGCCGCATCCGACAACAGGTACA	5	110	1
GGGTCAAGTCTGACATTCCCGAGTAAATTGGTC	5	208	0
CCATAATAAGCGAAGTTAGCGAGATGAATGCGA	6	80	1
          ******   ****
MAP Score: 13.8228

Motif 3
TTACGTCTTGTCCTGCCATATCGCGAAATTTCTGC	0	94	1
TTTTTGCATCTCCCCCTTGATGACGTGGTTTACGA	0	145	1
TTTTACCTGATTCGCCGTTATCGCGGCGGATCGCA	2	56	1
 TAAAAAGAATTCAGAATCAGGCCGGAGTGCTAAA	4	9	1
GAGTGCTAAATACTCCGTAAACACGGTCGTACATC	4	34	1
GGCTGTCGGATGCGGCGTGAACGCCTTATCCGACC	5	11	0
TGTTGTCGGATGCGGCGTGAACGCCATATCCGCCC	5	102	0
   GTCTTACTTCACCTCAAACTCGCCCCTGCCCG	5	278	0
GTCATCAATCTTCGCAACAAGGACCTCGGAAAA  	6	8	0
CCGCGTTTTTTTCGCATTCATCTCGCTAACTTCGC	6	89	0
          * * ** * *** **
MAP Score: 13.484

Motif 4
ACTAAATGGGGTCGTAAACCACGTCATCAAGGGGGAGAT	0	152	0
ACCCCATTTAGTAGTCAACCGCAGTGAGTGAGTCTGCAA	0	179	1
CCTATTACAGACTCACAACCACATGATGACCGAATATAT	0	256	1
   TGCGCATACCGATAACCCCACCGTGGTCGCCTGCGC	2	7	1
AACCCCACGCGCAGGCGACCACGGTGGGGTTATCGGTAT	2	15	0
CGAATCAGGTAAAACAAACCCCACGCGCAGGCGACCACG	2	31	0
TGTCGGATGCGGCGTGAACGCCTTATCCGACCT      	5	4	0
GGCCTACAGTGTACAGAACCCCAGGGCGGATATGGCGTT	5	79	1
TGTCGGATGCGGCGTGAACGCCATATCCGCCCTGGGGTT	5	95	0
TCCGACAACAGGTACAAACGCCACGATAAAAAAATGGCA	5	127	1
CACTTTTACAATAAAAAACCCCGGGCAGGGGCGAGTTTG	5	257	1
          *  *  ******     **
MAP Score: 7.53337

Motif 5
CCCTTGATGACGTGGTTTACGACCCCATTTAGT	0	158	1
CCGATAACCCCACCGTGGTCGCCTGCGCGTGGG	2	18	1
TTACCTGATTCGCCGTTATCGCGGCGGATCGCA	2	58	1
CTGTCGGATGCGGCGTGAACGCCTTATCCGACC	5	11	0
TTGTCGGATGCGGCGTGAACGCCATATCCGCCC	5	102	0
          ** ****  ****
MAP Score: 6.84563

Motif 6
GTTGAAACCAGACGTTTCGCCCCTATTACAGACTCACAACCAC	0	235	1
AAGGGGAATTTCCTCTCCGCCCGTGCATTCATCTAGGGGCAAT	1	46	1
  TGCGCATACCGATAACCCCACCGTGGTCGCCTGCGCGTGGG	2	8	1
ACCTGATTCGCCGTTATCGCGGCGGATCGCAGCCCTGAGAATG	2	60	1
GTCGGATAAGGCGTTCACGCCGCATCCGACAGCCGTTGCCTGA	5	12	1
ACAGCCGTTGCCTGATGCGACGCGTAATGCGTCTTATCAGGCC	5	40	1
GGCGGATATGGCGTTCACGCCGCATCCGACAACAGGTACAAAC	5	103	1
CCGACAACAGGTACAAACGCCACGATAAAAAAATGGCACTGAA	5	128	1
ACCCTGCTATGCAATACCCCCACTTTTACAATAAAAAACCCCG	5	237	1
          **     **** *      ** *
MAP Score: 6.00421

Motif 7
AGGCATTCATCAAAAAATTGTAATAAAAAG	0	21	0
TCTTTATATGAATAAAATTGCTGTCAATTT	0	65	1
CAGGACAAGACGTAAAATTGACAGCAATTT	0	79	0
CGCAAAAGCACAAAAAATTTTTGCATCTCC	0	128	1
AGTGAGTCTGCAAAAAAATGAAATTGGGCA	0	205	1
AACGCCACGATAAAAAAATGGCACTGAAGG	5	143	1
          **********
MAP Score: 2.6361

Motif 8
CATATAAAGAATGAATCGCAGCCAAGGCATTCATCAAAAAATTG	0	31	0
TTTTTGCAGACTCACTCACTGCGGTTGACTACTAAATGGGGTCG	0	177	0
CGGAGAGGAAATTCCCCTTCGCCCGTGTCAGTATAATTACCCGT	1	21	0
CGAAGGGGAATTTCCTCTCCGCCCGTGCATTCATCTAGGGGCAA	1	44	1
CCCCACGCGCAGGCGACCACGGTGGGGTTATCGGTATGCGCA  	2	8	0
TTACCTGATTCGCCGTTATCGCGGCGGATCGCAGCCCTGAGAAT	2	58	1
TCGGATAAGGCGTTCACGCCGCATCCGACAGCCGTTGCCTGATG	5	13	1
GCGGCGTGAACGCCATATCCGCCCTGGGGTTCTGTACACTGTAG	5	82	0
GCGGATATGGCGTTCACGCCGCATCCGACAACAGGTACAAACGC	5	104	1
          **    * ****    *    * *
MAP Score: 0.375567