AlignACE 3.0 10/20/99
AlignACE2 -i AP/AP_operons030_100.orf 
Parameter values:
 expect =      	10
 gcback =      	0.38
 minpass =     	200
 seed =        	944249828
 numcols =     	10
 undersample = 	1
 oversample = 	1

Input sequences:
#0	APE0065	300	311aa long hypothetical protein

Motif 1
       GGTTGACGAGCTTAGCGGGGGCAACATGCAG	0	3	1
GAGGCTCGTACTAGCGAGGGAGCTCTGGCTCAAGCCCC	0	40	1
GCTGGGTTCATAGCAACCAGGAGGCGGGGCTTGAGCCA	0	65	0
TCCTGGTTGCTATGAACCCAGCCGCTGGTCTCGACCTG	0	81	1
ACCTGGAGGGTCAGCAGGCTGTGGCGGAAATGATGAGA	0	114	1
ATGATGAGAATGTCCTCGGAGAGGGGGGGAGTACTGGT	0	143	1
AAACAAGATTTACGTTGCGAGTGGCGGGATAGTCAAAG	0	217	1
AGAAGTCGATTGTGACTGCAATGGGGGGGCTCGA    	0	276	1
          *  *   *  * ******
MAP Score: 11.9741

Motif 2
     GGTTGACGAGCTTAGCGGGGGCAACATGC	0	5	1
CTCGTACTAGCGAGGGAGCTCTGGCTCAAGCCCC	0	44	1
GTTCATAGCAACCAGGAGGCGGGGCTTGAGCCAG	0	64	0
CTATGAACCCAGCCGCTGGTCTCGACCTGGAGGG	0	90	1
CTGGAGGGTCAGCAGGCTGTGGCGGAAATGATGA	0	116	1
ATGAGAATGTCCTCGGAGAGGGGGGGAGTACTGG	0	146	1
TACTGGTTATCGATGAAGACCTAGACTTCCTTCT	0	174	1
ACAAGATTTACGTTGCGAGTGGCGGGATAGTCAA	0	219	1
TACCTGCCTACCGAGGAGAAGTCGATTGTGACTG	0	260	1
TTGTGACTGCAATGGGGGGGCTCGA         	0	285	1
          **  ** ** ****
MAP Score: 9.31775

Motif 3
GTTGACGAGCTTAGCGGGGGCAACATGCAGA	0	11	1
GGGGCAACATGCAGAGGCTCGTACTAGCGAG	0	27	1
GCAACCAGGAGGCGGGGCTTGAGCCAGAGCT	0	60	0
TCGAGACCAGCGGCTGGGTTCATAGCAACCA	0	84	0
CCGCTGGTCTCGACCTGGAGGGTCAGCAGGC	0	102	1
ATCATTTCCGCCACAGCCTGCTGACCCTCCA	0	117	0
GAATGTCCTCGGAGAGGGGGGGAGTACTGGT	0	150	1
ATTTACGTTGCGAGTGGCGGGATAGTCAAAG	0	224	1
GACTTCTCCTCGGTAGGCAGGTAAGGCCCTT	0	252	0
GATTGTGACTGCAATGGGGGGGCTCGA    	0	283	1
          **** ******
MAP Score: 1.10288