AlignACE 3.0 10/20/99
AlignACE2 -i WIT_ctrl_PID051_100.orf 
Parameter values:
 expect =      	10
 gcback =      	0.38
 minpass =     	200
 seed =        	943391454
 numcols =     	10
 undersample = 	1
 oversample = 	1

Input sequences:
#0	tig	300	trigger factor; a molecular chaperone involved in cell division
#1	clpP	245	ATP-dependent proteolytic subunit of clpA-clpP serine protease, heat shock protein F21.5
#2	clpX	125	ATP-dependent specificity component of clpP serine protease, chaperone
#3	lon	187	DNA-binding, ATP-dependent protease La; heat shock K-protein

Motif 1
CTTATCCAGGGCGGCACAACGCTGTAAGCG	2	37	1
GATAAGTATAGCGGCACAGTTGCGCCTCTG	2	13	0
CGGCATTATAGCGGCATCACTTTTATGAGT	0	139	0
GTCGTCGTGTGCGGCACAAAGAACAAAGAA	2	92	1
TTCGGTGTTAGCGTAACAACAAAAGATTGT	1	113	1
     TTTACGCAGCATAACGCGCTAAATT	1	5	1
TATGGGTACGGCATCACCATATTTCAAGCA	1	145	0
TGTTGGCTTCGCGGAACCGGGATGTTCTTA	0	224	0
CAAATAGGACGCGGCATTATAGCGGCATCA	0	150	0
GCACAAAGGCCCGTCACCGCCAGGTGGTGG	1	36	1
CATATTTCAAGCATAACAATCTTTTGTTGT	1	128	0
ACGCGACAGCGCGCAATAACCGTTCTCGAC	0	111	1
TAGATGGCGTGAAGCACAGTCGTGTCATCT	3	131	1
TTCCCTGTTACCAGAATCATCCCGAAAGCA	0	182	0
          **********
MAP Score: 15.2005

Motif 2
ACATGTACGTCAGTATATGGGGATGTTTCCCCCACATT	3	90	0
TTTGTTTTGTCTGGATTTTGCGCTTTTTGCCCAGCATT	0	40	1
CCGTCACCGCCAGGTGGTGGGCTTTTTTTTGTCATGAA	1	46	1
AGGTTACAATCGGTACAGCAGGTTTTTTCAATTTTATC	1	205	1
AATTAGTTAACCAAAAAGGGGGGATTTTATCTCCCCTT	3	26	1
TTGTTGGCTTCGCGGAACCGGGATGTTCTTATAATCAA	0	217	0
ACGGTTATTGCGCGCTGTCGCGTATTTTTTCACAATTC	0	96	0
TAAGAGTTGACCGAGCACTGTGATTTTTTGAGGTAACA	0	270	1
CGGGATGATTCTGGTAACAGGGAATGTGATTGATTATA	0	188	1
TTATGAAAAACGGCCTGCGGGCCGTTTTGTTTTGTCTG	0	15	1
GTTACGCTAACACCGAAAGAGGCTTTTCGCACGGTTCC	1	92	0
TATTTTTTCACAATTCCCGGGCAATTTTCGTCTGAATG	0	74	0
ACTCTTACCCCGCAAGCACAGGTTGTTGGCTTCGCGGA	0	239	0
CACCACCTGGCGGTGACGGGCCTTTGTGCGAATTTAGC	1	27	0
CAGGCGCAAGCCGCTTACAGCGTTGTGCCGCCCTGGAT	2	40	0
          * *      *** *****
MAP Score: 11.1563

Motif 3
TTATGAAAAACGGCCTGCGGGCCGTTTTGTTTTG	0	15	1
CTGGATTTTGCGCTTTTTGCCCAGCATTCAGACG	0	50	1
AGCATTCAGACGAAAATTGCCCGGGAATTGTGAA	0	72	1
GAGTCGAGAACGGTTATTGCGCGCTGTCGCGTAT	0	109	0
TTATAAGAACATCCCGGTTCCGCGAAGCCAACAA	0	221	1
AGCCAACAACCTGTGCTTGCGGGGTAAGAGTTGA	0	246	1
ACCTCAAAAAATCACAGTGCTCGGTCAACTCTTA	0	270	0
GCGAATTTAGCGCGTTATGCTGCGTAAA      	1	4	0
CTGGCGGTGACGGGCCTTTGTGCGAATTTAGCGC	1	25	0
GGCCCGTCACCGCCAGGTGGTGGGCTTTTTTTTG	1	43	1
CACCGAAAGAGGCTTTTCGCACGGTTCCATGCAA	1	86	0
TAAGTATAGCGGCACAGTTGCGCCTCTGGCA   	2	7	0
AGCCGCTTACAGCGTTGTGCCGCCCTGGATAAGT	2	36	0
CAACGCTGTAAGCGGCTTGCGCCTGAGAATGGCA	2	53	1
TGGCATTTGCGTCGTCGTGTGCGGCACAAAGAAC	2	82	1
TTAATTTTTCCTCTATTCTCGGCGTTGAATGTGG	3	63	1
TCAGTATATGGGGATGTTTCCCCCACATTCAACG	3	85	0
          ***   **** ***
MAP Score: 6.7595

Motif 4
TTGTTTTGTCTGGATTTTGCGCTTTTTGCCC	0	41	1
GAAAATTGCCCGGGAATTGTGAAAAAATACG	0	83	1
GAGTCGAGAACGGTTATTGCGCGCTGTCGCG	0	112	0
AAATAGGACGCGGCATTATAGCGGCATCACT	0	148	0
CCTGTGCTTGCGGGGTAAGAGTTGACCGAGC	0	255	1
GGCCTTTGTGCGAATTTAGCGCGTTATGCTG	1	16	0
AAGCCTCTTTCGGTGTTAGCGTAACAACAAA	1	105	1
GGCGGCACAACGCTGTAAGCGGCTTGCGCCT	2	46	1
CGCCTGAGAATGGCATTTGCGTCGTCGTGTG	2	72	1
GCATTTGCGTCGTCGTGTGCGGCACAAAGAA	2	84	1
CATTCAACGCCGAGAATAGAGGAAAAATTAA	3	63	0
          *** *******
MAP Score: 6.64109

Motif 5
TTTGTTCTTTGTGCCGCACACGACGACGCAAATG	2	85	0
GTCAACTCTTACCCCGCAAGCACAGGTTGTTGGC	0	247	0
TGCGCTTTTTGCCCAGCATTCAGACGAAAATTGC	0	58	1
GGGCGGCACAACGCTGTAAGCGGCTTGCGCCTGA	2	45	1
GCAGCATAACGCGCTAAATTCGCACAAAGGCCCG	1	15	1
TTTCAATTTTATCCAGGAGACGGAA         	1	230	1
AAATATGGTGATGCCGTACCCATAACACAGGGAC	1	151	1
TTCGCACAAAGGCCCGTCACCGCCAGGTGGTGGG	1	33	1
ACGCGACAGCGCGCAATAACCGTTCTCGACTCAT	0	111	1
TGGGCAAAAAGCGCAAAATCCAGACAAAACAAAA	0	39	0
GCGTTGTGCCGCCCTGGATAAGTATAGCGGCACA	2	25	0
TACCAGAATCATCCCGAAAGCATTCAAATAGGAC	0	170	0
AAAACAAAACGGCCCGCAGGCCGTTTTTCATAAA	0	14	0
TTTTGTTGTTACGCTAACACCGAAAGAGGCTTTT	1	103	0
GGGGATGTTTCCCCCACATTCAACGCCGAGAATA	3	76	0
          ****** *  ** *
MAP Score: 5.49186

Motif 6
ACGGCCCGCAGGCCGTTTTTCATAAAATCT	0	10	0
AACGGCCTGCGGGCCGTTTTGTTTTGTCTG	0	23	1
GAATGCTTTCGGGATGATTCTGGTAACAGG	0	179	1
TCGCGGAACCGGGATGTTCTTATAATCAAT	0	216	0
ACCGAGCACTGTGATTTTTTGAGGTAACAA	0	279	1
GCCAGGTGGTGGGCTTTTTTTTGTCATGAA	1	54	1
CAATCGGTACAGCAGGTTTTTTCAATTTTA	1	211	1
TAACCAAAAAGGGGGGATTTTATCTCCCCT	3	33	1
TCAGTATATGGGGATGTTTCCCCCACATTC	3	89	0
          **********
MAP Score: 3.80923

Motif 7
TGTTTTGTCTGGATTTTGCGCTTTTTGCCCAGCATTCAGAC	0	42	1
TGAAAAAATACGCGACAGCGCGCAATAACCGTTCTCGACTC	0	102	1
GACTCATAAAAGTGATGCCGCTATAATGCCGCGTCCTATTT	0	138	1
ATAAGAACATCCCGGTTCCGCGAAGCCAACAACCTGTGCTT	0	223	1
  TTTACGCAGCATAACGCGCTAAATTCGCACAAAGGCCCG	1	8	1
CGCACAAAGGCCCGTCACCGCCAGGTGGTGGGCTTTTTTTT	1	35	1
AGCCTCTTTCGGTGTTAGCGTAACAACAAAAGATTGTTATG	1	106	1
CTTGAAATATGGTGATGCCGTACCCATAACACAGGGACTAG	1	147	1
         TGCCAGAGGCGCAACTGTGCCGCTATACTTAT	2	1	1
CCGCTTACAGCGTTGTGCCGCCCTGGATAAGTATAGCGGCA	2	27	0
AACGCTGTAAGCGGCTTGCGCCTGAGAATGGCATTTGCGTC	2	54	1
          ** * * ****        **
MAP Score: 3.33111

Motif 8
CGGGCAATTTTCGTCTGAATGCTGGGCAAAAAGCGCAA	0	57	0
TCGCGTATTTTTTCACAATTCCCGGGCAATTTTCGTCT	0	79	0
CCCGAAAGCATTCAAATAGGACGCGGCATTATAGCGGC	0	154	0
TTGTGCGAATTTAGCGCGTTATGCTGCGTAAA      	1	4	0
TGTCATGAATTTTGCATGGAACCGTGCGAAAAGCCTCT	1	75	1
AACTGTGCCGCTATACTTATCCAGGGCGGCACAACGCT	2	22	1
GAGAATGGCATTTGCGTCGTCGTGTGCGGCACAAAGAA	2	77	1
CCCTTTAATTTTTCCTCTATTCTCGGCGTTGAATGTGG	3	59	1
CACAGTCGTGTCATCTGATTACCTGGCGGAAATTAAAC	3	145	1
          **  *    * * *****
MAP Score: 1.12239

Motif 9
GTCTGAATGCTGGGCAAAAAGCGCAAAATCCA	0	51	0
AATACGCGACAGCGCGCAATAACCGTTCTCGA	0	108	1
AACCTGTGCTTGCGGGGTAAGAGTTGACCGAG	0	253	1
GTGCGAATTTAGCGCGTTATGCTGCGTAAA  	1	8	0
TGCATGGAACCGTGCGAAAAGCCTCTTTCGGT	1	87	1
ATACTTATCCAGGGCGGCACAACGCTGTAAGC	2	34	1
TGCGTCGTCGTGTGCGGCACAAAGAACAAAGA	2	89	1
CGGCGTTGAATGTGGGGGAAACATCCCCATAT	3	82	1
ATGTTAATAGATGGCGTGAAGCACAGTCGTGT	3	124	1
          ******  ****
MAP Score: 0.108227