AlignACE 3.0 10/20/99
AlignACE2 -i WIT_ctrl_PID051_300.orf 
Parameter values:
 expect =      	10
 gcback =      	0.38
 minpass =     	200
 seed =        	943391705
 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
CGGCATTATAGCGGCATCACTTTTATGAGT	0	139	0
GATAAGTATAGCGGCACAGTTGCGCCTCTG	2	13	0
GTCGTCGTGTGCGGCACAAAGAACAAAGAA	2	92	1
TTCGGTGTTAGCGTAACAACAAAAGATTGT	1	113	1
     TTTACGCAGCATAACGCGCTAAATT	1	5	1
TGTTGGCTTCGCGGAACCGGGATGTTCTTA	0	224	0
TATGGGTACGGCATCACCATATTTCAAGCA	1	145	0
CAAATAGGACGCGGCATTATAGCGGCATCA	0	150	0
GCACAAAGGCCCGTCACCGCCAGGTGGTGG	1	36	1
ACGCGACAGCGCGCAATAACCGTTCTCGAC	0	111	1
CATATTTCAAGCATAACAATCTTTTGTTGT	1	128	0
TTCCCTGTTACCAGAATCATCCCGAAAGCA	0	182	0
          **********
MAP Score: 15.3471

Motif 2
TTTGCGCTTTTTGCCCAGCATTCAGACGAA	0	56	1
CAGACGAAAATTGCCCGGGAATTGTGAAAA	0	78	1
CTCATAAAAGTGATGCCGCTATAATGCCGC	0	140	1
CGGTCAACTCTTACCCCGCAAGCACAGGTT	0	253	0
         TTTACGCAGCATAACGCGCTA	1	1	1
TTTTTCAATTTTATCCAGGAGACGGAA   	1	228	1
AGCGGCACAGTTGCGCCTCTGGCA      	2	4	0
AGAGGCGCAACTGTGCCGCTATACTTATCC	2	14	1
GCTTACAGCGTTGTGCCGCCCTGGATAAGT	2	36	0
TGTAAGCGGCTTGCGCCTGAGAATGGCATT	2	59	1
TCTTTGTTCTTTGTGCCGCACACGACGACG	2	91	0
          **********
MAP Score: 13.7268

Motif 3
TTTTGTTTTGTCTGGATTTTGCGCTTTTTGCCCA	0	39	1
GCAATTTTCGTCTGAATGCTGGGCAAAAAGCGCA	0	58	0
CGGTTATTGCGCGCTGTCGCGTATTTTTTCACAA	0	99	0
ATAGGACGCGGCATTATAGCGGCATCACTTTTAT	0	143	0
TATAAGAACATCCCGGTTCCGCGAAGCCAACAAC	0	222	1
CGAATTTAGCGCGTTATGCTGCGTAAA       	1	3	0
GCCCGTCACCGCCAGGTGGTGGGCTTTTTTTTGT	1	44	1
CATGAATTTTGCATGGAACCGTGCGAAAAGCCTC	1	78	1
AAGTATAGCGGCACAGTTGCGCCTCTGGCA    	2	6	0
GCCGCTTACAGCGTTGTGCCGCCCTGGATAAGTA	2	35	0
AATGGCATTTGCGTCGTCGTGTGCGGCACAAAGA	2	80	1
ATGGCGTGAAGCACAGTCGTGTCATCTGATTACC	3	134	1
          **   ** ******
MAP Score: 8.06252

Motif 4
TTTGCGCTTTTTGCCCAGCATTCAGACGAA	0	56	1
CAGACGAAAATTGCCCGGGAATTGTGAAAA	0	78	1
CATTCAAATAGGACGCGGCATTATAGCGGC	0	154	0
TTGGCTTCGCGGAACCGGGATGTTCTTATA	0	222	0
CAACCTGTGCTTGCGGGGTAAGAGTTGACC	0	252	1
GGGTAAGAGTTGACCGAGCACTGTGATTTT	0	267	1
         TTTACGCAGCATAACGCGCTA	1	1	1
CCTGTGTTATGGGTACGGCATCACCATATT	1	152	0
TTTTTCAATTTTATCCAGGAGACGGAA   	1	228	1
TTGCGTCGTCGTGTGCGGCACAAAGAACAA	2	88	1
          **********
MAP Score: 5.43839

Motif 5
AAAAAATACGCGACAGCGCGCAATAACCGTT	0	104	1
CTCATAAAAGTGATGCCGCTATAATGCCGCG	0	140	1
GCATTCAAATAGGACGCGGCATTATAGCGGC	0	154	0
GTTGGCTTCGCGGAACCGGGATGTTCTTATA	0	222	0
CACCACCTGGCGGTGACGGGCCTTTGTGCGA	1	34	0
CGTCACCGCCAGGTGGTGGGCTTTTTTTTGT	1	47	1
GAATTTTGCATGGAACCGTGCGAAAAGCCTC	1	81	1
TGAAATATGGTGATGCCGTACCCATAACACA	1	149	1
AATTTTATCCAGGAGACGGAA          	1	234	1
       TGCCAGAGGCGCAACTGTGCCGCT	2	3	1
AGAGGCGCAACTGTGCCGCTATACTTATCCA	2	14	1
GCTTACAGCGTTGTGCCGCCCTGGATAAGTA	2	35	0
GTGCCGCACACGACGACGCAAATGCCATTCT	2	78	0
TCTTTGTTCTTTGTGCCGCACACGACGACGC	2	90	0
ACATGTTAATAGATGGCGTGAAGCACAGTCG	3	122	1
          ********* *
MAP Score: 5.02009

Motif 6
TTGTTTTGTCTGGATTTTGCGCTTTTTGCCCAGC	0	41	1
AATTTTCGTCTGAATGCTGGGCAAAAAGCGCAAA	0	56	0
GGACGCGGCATTATAGCGGCATCACTTTTATGAG	0	140	0
CCTATTTGAATGCTTTCGGGATGATTCTGGTAAC	0	172	1
GTTGGCTTCGCGGAACCGGGATGTTCTTATAATC	0	219	0
CAACAACCTGTGCTTGCGGGGTAAGAGTTGACCG	0	249	1
GGCCTTTGTGCGAATTTAGCGCGTTATGCTGCGT	1	13	0
CCCTGTGTTATGGGTACGGCATCACCATATTTCA	1	149	0
       TTCCGTCTCCTGGATAAAATTGAAAAA	1	228	0
          TGCCAGAGGCGCAACTGTGCCGCT	2	0	1
AGGCGCAAGCCGCTTACAGCGTTGTGCCGCCCTG	2	43	0
GGCTTGCGCCTGAGAATGGCATTTGCGTCGTCGT	2	66	1
TTTGCGTCGTCGTGTGCGGCACAAAGAACAAAGA	2	87	1
TTCTCGGCGTTGAATGTGGGGGAAACATCCCCAT	3	78	1
          **  * ****** *
MAP Score: 4.7727

Motif 7
         TGCCAGAGGCGCAACTGTGCCGCTATACTTA	2	1	1
TGAATGCTGGGCAAAAAGCGCAAAATCCAGACAAAACAAA	0	40	0
AGTCGAGAACGGTTATTGCGCGCTGTCGCGTATTTTTTCA	0	102	0
  TTTACGCAGCATAACGCGCTAAATTCGCACAAAGGCCC	1	8	1
GGCGCAAGCCGCTTACAGCGTTGTGCCGCCCTGGATAAGT	2	36	0
TTAATAGATGGCGTGAAGCACAGTCGTGTCATCTGATTAC	3	127	1
ATAAGAACATCCCGGTTCCGCGAAGCCAACAACCTGTGCT	0	223	1
GCCTGAGAATGGCATTTGCGTCGTCGTGTGCGGCACAAAG	2	73	1
ACCGAAAGAGGCTTTTCGCACGGTTCCATGCAAAATTCAT	1	79	0
CGCACAAAGGCCCGTCACCGCCAGGTGGTGGGCTTTTTTT	1	35	1
CTCGGTCAACTCTTACCCCGCAAGCACAGGTTGTTGGCTT	0	245	0
GACTCATAAAAGTGATGCCGCTATAATGCCGCGTCCTATT	0	138	1
CTTGAAATATGGTGATGCCGTACCCATAACACAGGGACTA	1	147	1
CCTTATGGACGGATTATCAGCTAGTCCCTGTGTTATGGGT	1	168	0
AGCCTCTTTCGGTGTTAGCGTAACAACAAAAGATTGTTAT	1	106	1
          **     **** *   ** *
MAP Score: 3.96831

Motif 8
TCTGAATGCTGGGCAAAAAGCGCAAAATCCA	0	51	0
    TTTACGCAGCATAACGCGCTAAATTCG	1	6	1
GCATGGAACCGTGCGAAAAGCCTCTTTCGGT	1	88	1
TTATCCAGGGCGGCACAACGCTGTAAGCGGC	2	38	1
TCGTCGTGTGCGGCACAAAGAACAAAGAAGA	2	93	1
          ***** *****
MAP Score: 3.16667