AlignACE 3.0 10/20/99
AlignACE2 -i AP/AP_sum_all039_100.orf 
Parameter values:
 expect =      	10
 gcback =      	0.38
 minpass =     	200
 seed =        	944236331
 numcols =     	10
 undersample = 	1
 oversample = 	1

Input sequences:
#0	APE0510	53	352aa long hypothetical protein
#1	APE1958	199	246aa long hypothetical NH(3)-dependent NAD(+) synthetase

Motif 1
ACTAATGTATAGTGTTGGAGG          	0	0	0
CACCAATTGGAGTGTTGTAGAGCGGAGGCAG	1	51	0
CAACACTCCAATTGGTGTGGGGGTTTGGCTG	1	65	1
TAGTTTAGACGATGTTGTTGACATAGATTAT	1	109	1
CATAGATTATAATGGTGTAAGACAGGCAATA	1	130	1
          * *********
MAP Score: 3.99826

Motif 2
CACTAATGTATAGTGTTGGAGG        	0	2	0
CCAATTGGAGTGTTGTAGAGCGGAGGCAGG	1	50	0
ACACTCCAATTGGTGTGGGGGTTTGGCTGT	1	67	1
ATTATAAGGTTAGTTTAGACGATGTTGTTG	1	99	1
GTTTAGACGATGTTGTTGACATAGATTATA	1	111	1
TAGATTATAATGGTGTAAGACAGGCAATAA	1	132	1
          **********
MAP Score: 3.6104

Motif 3
TCTTTTACCTGCCTCCGCTCTACAACACTC	1	43	1
ATACGTGGCAGCCTTCTCTTTTACCTGCCT	1	27	1
         AGCCTTCTCATCCGCCTGAAC	0	42	0
CTTCTCATCCGCCTGAACACGTATAACCCA	0	30	0
TAACAGCCAAACCCCCACACCAATTGGAGT	1	69	0
          **********
MAP Score: 3.04213

Motif 4
   AGCCTTCTCATCCGCCTGAACACGTAT	0	36	0
GTAAGGATACGTGGCAGCCTTCTCTTTTAC	1	21	1
GCCTTCTCTTTTACCTGCCTCCGCTCTACA	1	37	1
AACTGTGTTATTGCCTGTCTTACACCATTA	1	139	0
CCTTGAGGCCTCGGGCGCCTCAGGCTAT  	1	181	1
          **********
MAP Score: 2.47895

Motif 5
GTAAGGATACGTGGCAGCCTTCTCTTTTAC	1	21	1
GCCTTCTCTTTTACCTGCCTCCGCTCTACA	1	37	1
GTGTGGGGGTTTGGCTGTTAATTATAAGGT	1	79	1
AACTGTGTTATTGCCTGTCTTACACCATTA	1	139	0
          **********
MAP Score: 0.880483