AlignACE 3.0 10/20/99
AlignACE2 -i AP/AP_operons021_100.orf 
Parameter values:
 expect =      	10
 gcback =      	0.38
 minpass =     	200
 seed =        	944249678
 numcols =     	10
 undersample = 	1
 oversample = 	1

Input sequences:
#0	APE0011	300	212aa long hypothetical protein
#1	APE2503	121	243aa long hypothetical 3-oxoacyl-[acyl-carrier protein] reductase

Motif 1
TAAACTGGTAAAACCCTAGCCTCAAAATTGGAC	0	15	1
GAAAGTCTTACTCGCTTACCAACGTCCTGTGAG	0	138	0
GCGAATATAACAGACCTACCATCTGGAAGTATT	0	174	0
GGCCCATGCTCGATCCCATGATCAAAGGCGAAT	0	201	0
GGAATCTCTCCAGGCCCATGCTCGATCCCATGA	0	213	0
AACCTAGGATCCAGCCTCTCCTCCGGAATCTCT	0	237	0
TCTCTAATCAACAACCTAGGATCCAGCCTCTCC	0	249	0
AAATAACTTTAATACCCAGGATAATAGCGGGGA	1	21	0
AGTTGTCTCCAAGACCGATCCACCAAGACTAGC	1	89	0
GGTCTTGGAGACAACTTATGCTCTA        	1	106	1
          *   *********
MAP Score: 8.24993

Motif 2
GCATGGGCCTGGAGAGATTCCGGAGGAGAG	0	225	1
AGATTCCGGAGGAGAGGCTGGATCCTAGGT	0	239	1
GTTGTTGATTAGAGAGGTTGTTGAAGCGGG	0	267	1
AGAGGTTGTTGAAGCGGGTGTTGACGCTAT	0	279	1
       ACCGTAGAAGCTCCCCGCTATTA	1	3	1
ATGTAAGTTGGAAGCAGCTGGGAAAATAAC	1	47	0
CAACTTACATGAAGAGGTACAAGCTAGTCT	1	67	1
          **********
MAP Score: 6.30294

Motif 3
TTGTCCAATTTTGAGGCTAGGGTTTTACCA	0	20	0
CACTATAGTATAGTGGCGAGAACGTAATTC	0	75	0
ATAACAGACCTACCATCTGGAAGTATTCTC	0	171	0
GATTCCGGAGGAGAGGCTGGATCCTAGGTT	0	240	1
AGAGAGGTTGTTGAAGCGGGTGTTGACGCT	0	277	1
CCCAGGATAATAGCGGGGAGCTTCTACGGT	1	10	0
TGTAAGTTGGAAGCAGCTGGGAAAATAACT	1	46	0
CATGAAGAGGTACAAGCTAGTCTTGGTGGA	1	74	1
          **********
MAP Score: 6.0441

Motif 4
  AATCATAAACTGGTAAAACCCTAGCCTCAAAATTGGACA	0	8	1
GTACTTCACTATAGTATAGTGGCGAGAACGTAATTCATATA	0	70	0
ACTATACTATAGTGAAGTACTGCTAGGGGGTTTCCGATATT	0	91	1
GGTTTCCGATATTGATTTCCTCACAGGACGTTGGTAAGCGA	0	119	1
GGCGAATATAACAGACCTACCATCTGGAAGTATTCTCGAAA	0	167	0
CGCCTTTGATCATGGGATCGAGCATGGGCCTGGAGAGATTC	0	204	1
ATTCCGGAGGAGAGGCTGGATCCTAGGTTGTTGATTAGAGA	0	241	1
TGTTGATTAGAGAGGTTGTTGAAGCGGGTGTTGACGCTATA	0	269	1
ACTTTAATACCCAGGATAATAGCGGGGAGCTTCTACGGT  	1	8	0
CCTGGGTATTAAAGTTATTTTCCCAGCTGCTTCCAACTTAC	1	34	1
TTCCAACTTACATGAAGAGGTACAAGCTAGTCTTGGTGGAT	1	64	1
          * ***      **  **  **
MAP Score: 5.4194

Motif 5
CATATATTCATTTCTGCAAGTTGGATTTGTC	0	45	0
ATGAATTACGTTCTCGCCACTATACTATAGT	0	73	1
TGCTAGGGGGTTTCCGATATTGATTTCCTCA	0	111	1
TCTGGAAGTATTCTCGAAAGTCTTACTCGCT	0	155	0
TCGAGAATACTTCCAGATGGTAGGTCTGTTA	0	169	1
AGAGAGGTTGTTGAAGCGGGTGTTGACGCTA	0	277	1
CCGTAGAAGCTCCCCGCTATTATCCTGGGTA	1	11	1
AAAGTTATTTTCCCAGCTGCTTCCAACTTAC	1	44	1
CTTGTACCTCTTCATGTAAGTTGGAAGCAGC	1	59	0
CATGAAGAGGTACAAGCTAGTCTTGGTGGAT	1	74	1
          ******* ***
MAP Score: 1.77809