AlignACE 3.0 10/20/99
AlignACE2 -i WIT_ctrl_PID017_100.orf 
Parameter values:
 expect =      	10
 gcback =      	0.38
 minpass =     	200
 seed =        	943390996
 numcols =     	10
 undersample = 	1
 oversample = 	1

Input sequences:
#0	nadC	87	quinolinate phosphoribosyltransferase
#1	nadA	300	quinolinate synthetase, A protein
#2	nadB	300	quinolinate synthetase, B protein

Motif 1
AGTAGCATGTTTCTACCTTATGATTCGTTAGCTATC	0	49	1
TAAAGGCGCTTTTTTGCTATTCAGGCATCCTCAATT	1	50	1
GCATCCTCAATTTCACTTTGTAAACCTGATGACATC	1	74	1
TTAGGCGTAATTCGAGTGACTTTTCCCCACCATTCG	1	177	1
CGACTATCTTGTTTAGCATATAAAACAAATTACACC	1	211	1
CGGTTTTAACGTTAAGCCTGTAAAACGAGATGGTAA	1	273	1
AACGCATCTGTTTTTGTTTGTCATGCTGTAGACGGA	2	15	1
GAAATGCCCATTTAACTGCCTGAAGAGTAACCCAAC	2	104	1
GGCCTTTTTATTTCACCACCTAATCCTCCACCAGCC	2	140	1
GCGTCAGCGTGTTTAGCAACTGTAACAAATATTAAA	2	203	1
ATAGCATCATGTTGTGCGGATAAACACCTGCTATTT	2	237	0
ACCAAACCATGTTTAGTAAATTAAACAAAGAAA   	2	277	1
          *** ***   * ** *
MAP Score: 6.961

Motif 2
ATGTGGTGCTAATACCCGGTTCAGAGTAGCATGTTTCTACC	0	25	1
ACAAAGTGAAATTGAGGATGCCTGAATAGCAAAAAAGCGCC	1	54	0
ATTCCACCGACATAGAGTTGCTTGCACAGTAAGCTCTGACG	1	109	0
TTAGGCGTAAAATGACGCATCCTGCACATTAGGCGTAATTC	1	149	1
TTTCCCCACCATTCGACTATCTTGTTTAGCATATAAAACAA	1	198	1
AGATAATGATCCGTCTACAGCATGACAAACAAAAACAGATG	2	19	0
TAGAAATGCCCATTTAACTGCCTGAAGAGTAACCCAACGGC	2	102	1
TTCTCGCCGCCCTGCGTCAGCGTGTTTAGCAACTGTAACAA	2	190	1
ATTTACTAAACATGGTTTGGTCAGCATAGCATCATGTTGTG	2	257	0
          * *      ** **   ****
MAP Score: 6.88796

Motif 3
GAATCATAAGGTAGAAACATGCTACTCTGAAC	0	43	0
GGTGGGTCGTGCAGGATGACTCG         	1	1	0
ACCCACCAATGTAAAAAAGCGCCCTAAAGGCG	1	26	1
TGCCTGAATAGCAAAAAAGCGCCTTTAGGGCG	1	45	0
GGAATTAGGCGTAAAATGACGCATCCTGCACA	1	145	1
GAATGGTGGGGAAAAGTCACTCGAATTACGCC	1	180	0
CATTATCTGTGTAGAAATGCCCATTTAACTGC	2	91	1
TTAACTGCCTGAAGAGTAACCCAACGGCCTTT	2	115	1
          * ***** ****
MAP Score: 6.46058

Motif 4
AGCATGTTTCTACCTTATGATTCGTTAGCT	0	52	1
TGGTGGGTCGTGCAGGATGACTCG      	1	4	0
AAATTGAGGATGCCTGAATAGCAAAAAAGC	1	57	0
TCACTTTGTAAACCTGATGACATCGTCAGA	1	86	1
ACGCCTAATGTGCAGGATGCGTCATTTTAC	1	155	0
ATGATCCGTCTACAGCATGACAAACAAAAA	2	25	0
CCCATTTAACTGCCTGAAGAGTAACCCAAC	2	110	1
TTATCCGCACAACATGATGCTATGCTGACC	2	250	1
          **********
MAP Score: 5.14219

Motif 5
TGTAAAAAAGCGCCCTAAAGGCGCTTTTTTGCTA	1	35	1
TAGCGTAATATTCGCTGTTATCGGTGTAATTTGT	1	235	0
CAGCGAATATTACGCTAATGTCGGTTTTAACGTT	1	252	1
TTTTGTTTGTCATGCTGTAGACGGATCATTATCT	2	26	1
AGAGAAGTTACTGGCTGGTGGAGGATTAGGTGGT	2	154	0
AGTTGCTAAACACGCTGACGCAGGGCGGCGAGAA	2	190	0
          * *****  * ***
MAP Score: 3.67325

Motif 6
ACCAATGTAAAAAAGCGCCCTAAAGGCGCTTTTTTG	1	30	1
TGAATAGCAAAAAAGCGCCTTTAGGGCGCTTTTTTA	1	37	0
TTACACCGATAACAGCGAATATTACGCTAATGTCGG	1	240	1
GCTTAACGTTAAAACCGACATTAGCGTAATATTCGC	1	254	0
ACAGAATCTGAACATCGCATTATCTGTGTAGAAATG	2	74	1
GGCGGCGAGAAAAAGAGAAGTTACTGGCTGGTGGAG	2	165	0
AACAAATATTAAAATAGCAGGTGTTTATCCGCACAA	2	226	1
TGGTTTGGTCAGCATAGCATCATGTTGTGCGGATAA	2	250	0
          **** ****  *   *
MAP Score: 1.07432