AlignACE 3.0 10/20/99
AlignACE2 -i AP/AP_operons013_100.orf 
Parameter values:
 expect =      	10
 gcback =      	0.38
 minpass =     	200
 seed =        	944249546
 numcols =     	10
 undersample = 	1
 oversample = 	1

Input sequences:
#0	APE1416	300	165aa long hypothetical protein

Motif 1
   CATAATCTTCCTGGAGCTAAGCCTGCTGTCCTCCTT	0	7	1
TGCTGTCCTCCTTCCTCCTCATAGCCTTCTACGGCTACG	0	33	1
TCATAGCCTTCTACGGCTACGGCGATAGGAGGAGGATAG	0	51	1
TAGGAGGAGGATAGCGCTACTGTACTTCGTCTGGACCCA	0	76	1
TGTACTTCGTCTGGACCCACATAGCCGGGGCTCTAGCGC	0	96	1
AGCCGGGGCTCTAGCGCTCCTCGGCGGCCTCTATTATGT	0	118	1
TTATCAAGACGGGGACCTTCGACGTCGCGACAGTGGAGG	0	156	1
TAGTCTATTTCTCGAGCCCCGCGGACAGGAGTGTCTACG	0	204	1
ACAGGAGTGTCTACGCCGCCATAGCTGGGGTTAGCCTCC	0	228	1
AGCTGGGGTTAGCCTCCTCCTAGGAATGCTTGTCAAGAT	0	250	1
          ** * **  *   **  **
MAP Score: 8.88352

Motif 2
AGCTAAGCCTGCTGTCCTCCTTCCTCCTCATAGCCTTCTACGGCTA	0	24	1
CGCTACTGTACTTCGTCTGGACCCACATAGCCGGGGCTCTAGCGCT	0	90	1
CCACATAGCCGGGGCTCTAGCGCTCCTCGGCGGCCTCTATTATGTT	0	112	1
TTATCAAGACGGGGACCTTCGACGTCGCGACAGTGGAGGGAGGCAG	0	156	1
AGGGAGGCAGGATAGTCTATTTCTCGAGCCCCGCGGACAGGAGTGT	0	192	1
CCGCGGACAGGAGTGTCTACGCCGCCATAGCTGGGGTTAGCCTCCT	0	222	1
          * *   **    *  *    * * **
MAP Score: 7.60609

Motif 3
TGCTGTCCTCCTTCCTCCTCATAGCCTTCTACGGC	0	33	1
TCATAGCCTTCTACGGCTACGGCGATAGGAGGAGG	0	51	1
CGCTACTGTACTTCGTCTGGACCCACATAGCCGGG	0	90	1
CCGAGGAGCGCTAGAGCCCCGGCTATGTGGGTCCA	0	107	0
TAGCGCTCCTCGGCGGCCTCTATTATGTTATCAAG	0	129	1
CCTCCCTCCACTGTCGCGACGTCGAAGGTCCCCGT	0	164	0
TAGTCTATTTCTCGAGCCCCGCGGACAGGAGTGTC	0	204	1
CTAACCCCAGCTATGGCGGCGTAGACACTCCTGTC	0	227	0
          ** * *** **  **
MAP Score: 4.88659

Motif 4
CTTCCTGGAGCTAAGCCTGCTGTCCTCCTTCCTCCTC	0	16	1
TCATAGCCTTCTACGGCTACGGCGATAGGAGGAGGAT	0	51	1
GGCGATAGGAGGAGGATAGCGCTACTGTACTTCGTCT	0	71	1
AGCCGGGGCTCTAGCGCTCCTCGGCGGCCTCTATTAT	0	118	1
AGACGGGGACCTTCGACGTCGCGACAGTGGAGGGAGG	0	162	1
AATAGACTATCCTGCCTCCCTCCACTGTCGCGACGTC	0	176	0
GTCTATTTCTCGAGCCCCGCGGACAGGAGTGTCTACG	0	206	1
ACAGGAGTGTCTACGCCGCCATAGCTGGGGTTAGCCT	0	228	1
CATAGCTGGGGTTAGCCTCCTCCTAGGAATGCTTGTC	0	247	1
          *** ***  * *  * *
MAP Score: 1.36877

Motif 5
AGCTAAGCCTGCTGTCCTCCTTCCTCCTCATAGCCT	0	24	1
TCCTCCTCATAGCCTTCTACGGCTACGGCGATAGGA	0	45	1
GAAGTACAGTAGCGCTATCCTCCTCCTATCGCCGTA	0	68	0
GGAGGATAGCGCTACTGTACTTCGTCTGGACCCACA	0	81	1
AGGCCGCCGAGGAGCGCTAGAGCCCCGGCTATGTGG	0	112	0
CGGGGCTCTAGCGCTCCTCGGCGGCCTCTATTATGT	0	121	1
TCAAGACGGGGACCTTCGACGTCGCGACAGTGGAGG	0	159	1
AAATAGACTATCCTGCCTCCCTCCACTGTCGCGACG	0	178	0
AGGGAGGCAGGATAGTCTATTTCTCGAGCCCCGCGG	0	192	1
CCGCGGACAGGAGTGTCTACGCCGCCATAGCTGGGG	0	222	1
CGCCATAGCTGGGGTTAGCCTCCTCCTAGGAATGCT	0	244	1
          *    ***** ** **
MAP Score: 0.25045