AlignACE 3.0 10/20/99
AlignACE2 -i TH/TH_profile009_100.orf 
Parameter values:
 expect =      	10
 gcback =      	0.38
 minpass =     	200
 seed =        	944246814
 numcols =     	10
 undersample = 	1
 oversample = 	1

Input sequences:
#0	MTH802	49	aspartokinase II alpha subunit
#1	MTH804	40	chorismate mutase, subunit A
#2	MTH805	240	conserved protein (homoserine kinase related)
#3	MTH1694	207	aspartate aminotransferase related protein
#4	MTH1759	70	mannose-1-phosphate guanyltransferase
#5	MTH1762	159	DNA mismatch recognition protein MutS
#6	MTH1917	189	biotin carboxylase

Motif 1
          CTCCAGTGACCCTTGAATGG	1	0	1
ACCTTTTTACCTCCAGTCATGTTTTCAGGA	2	18	1
CTGCAAAGCACTCCAGAGAGCACCTCAAGC	2	181	0
GCTAAAAACAGTCCAGTCATGGT       	3	3	0
ATTACAGAGGCTCCTCTGGTAAACAAAGTT	3	61	1
CGCATGGATACTCCTGTGCTGATGTGATAA	3	186	1
ATATGGATGAGCCCTGAGATGCTGC     	6	5	0
ACCGTAAGTCCCCATGTCATCCACATGGCA	6	87	1
GTTACTGTAACTCAAGTGGTATGCTTAAAA	6	117	1
          **********
MAP Score: 4.10529

Motif 2
         GACAGAATTTTTTTCATTTTTTC	0	1	1
      GGTATCAGACCTTTTTACCTCCAGTC	2	4	1
AGTCATGTTTTCAGGAGTTTTTGTTATATCAG	2	32	1
TGAGGTGCTCTCTGGAGTGCTTTGCAGCCTAA	2	184	1
    ACCATGACTGGACTGTTTTTAGCCAGCT	3	6	1
TGTAGGATAATGTGGCCTGATTTTATTACAGA	3	37	1
AAGTTTATTAAGAGGTTTGTTTAATATGGTAT	3	86	1
AAACTCCACTTTAGGGTTTCTTATACCATATT	3	108	0
GGTAGGTAAGAGAAGCCTTCTTCTCTTTCGCA	3	158	1
TACCGAACTAATAAGTATTTTTTTCCAGCGAA	4	37	0
CTGTAACTCAAGTGGTATGCTTAAAAAGAGGT	6	121	1
          *****  *****
MAP Score: 3.98358

Motif 3
AATTGATGAATACACTTTGCAGTGTTTGAGAGCT	2	150	1
GAGCTTGAGGTGCTCTCTGGAGTGCTTTGCAGCC	2	179	1
TCAATTAAACTCCACTTTAGGGTTTCTTATACCA	3	112	0
GGTGCAATAATTCACATCGAAGGTCGCTGCTGAT	5	26	0
CCCCATGTCATCCACATGGCAGTTACTGTAACTC	6	96	1
     CTAACTGCACCTTGAAGTTTTAACAGATA	6	170	0
          * *** * * ****
MAP Score: 3.77588

Motif 4
         GACAGAATTTTTTTCATTTTTTC	0	1	1
AGTCATGTTTTCAGGAGTTTTTGTTATATCAG	2	32	1
ATTTTTATTAATAGAATGTTCTACCACTATAT	2	94	1
TTTGTTTACCAGAGGAGCCTCTGTAATAAAAT	3	56	0
AAGTTTATTAAGAGGTTTGTTTAATATGGTAT	3	86	1
CGGGTAGGTAAGAGAAGCCTTCTTCTCTTTCG	3	156	1
TCACATCAGCACAGGAGTATCCATGCGAAAGA	3	181	0
TCTCTGTTGAAGCGGTTACTCCCAGATTTTAC	5	82	0
CCGCTTCAACAGAGAATACTTTCCACACGCAC	5	99	1
ATGCTTAAAAAGAGGTTCATTCAATATACTAT	6	137	1
          *******  ***
MAP Score: 3.2749

Motif 5
ATTACATTCCCCTTTCTTCCATTCAAGGGTCACTGGAG       	1	3	0
AGTGCAATATTTATATAGTGGTAGAACATTCTATTAATAAAAATG	2	93	0
TGCAGCCTAATAATCTATTCAGTGAACGATCATAGAATCCTGGA 	2	206	1
AGAAGCCTTCTTCTCTTTCGCATGGATACTCCTGTGCTGATGTGA	3	168	1
 TTCTGGTTATTATAATGTAATTGCATATTCGCTGGAAAAAAATA	4	9	1
ATATTAGGTGCAATAATTCACATCGAAGGTCGCTGCTGATGGGTA	5	21	0
CTAATATCCCCACTCTTTCTGAAGTAAAATCTGGGAGTAACCGCT	5	59	1
GAAGGAGGTATCTTGGGGGATATGGATGAGCCCTGAGATGCTGC 	6	9	0
AGATACCTCCTTCTCTCTCCTATCTACTATCAATGCAAACCCGGT	6	41	1
TTAAGCATACCACTTGAGTTACAGTAACTGCCATGTGGATGACAT	6	100	0
ATTCAATATACTATATATCTGTTAAAACTTCAAGGTGCAGTTAG 	6	155	1
          *  *   **   ** *   **   *
MAP Score: 3.16685

Motif 6
AAGCCTTCTTCTCTTTCGCATGGATACTCCTGT	3	170	1
     TTTATCACATCAGCACAGGAGTATCCAT	3	189	0
AACTGCCATACCCATCAGCAGCGACCTTCGATG	5	13	1
TGGGAGTAACCGCTTCAACAGAGAATACTTTCC	5	90	1
AAGTCCCCATGTCATCCACATGGCAGTTACTGT	6	92	1
          * ********  *
MAP Score: 1.4408