AlignACE 3.0 10/20/99
AlignACE2 -i PH/PH_sum_all048_300.orf 
Parameter values:
 expect =      	10
 gcback =      	0.38
 minpass =     	200
 seed =        	944236290
 numcols =     	10
 undersample = 	1
 oversample = 	1

Input sequences:
#0	PH0985	206	238aa long hypothetical arylmalonate decarboxylase
#1	PH1801	300	109aa long hypothetical protein

Motif 1
CTCTACTTTCCTTTCTTATAAACGTTGGTAG	0	32	1
TTCTATTTCACATTATTGTTGGCAACGTTCT	0	102	1
TTGTTGGCAACGTTCTTGGTGAAATTGCTGT	0	117	1
ATATTAGTCTTATTCTTAGTATGGTTGCCGC	0	152	0
GCGGGAGGTTCCCTCTTGCTACCGGCAAATA	1	18	1
CGATACTTTTTGTTCTTGGTGGATTATCCGC	1	84	0
AGAATAACTACCTTCTTGTTACCATAAGATT	1	180	1
          * *********
MAP Score: 4.52009

Motif 2
TGACAGCAATTTCACCAAGAACGTTGCCAACA	0	118	0
AGGTCACTTATCCTACTAGCCCTCATGGCCTT	1	51	1
TGGTGGATTATCCGCTAAGGCCATGAGGGCTA	1	67	0
TAGCGGATAATCCACCAAGAACAAAAAGTATC	1	82	1
CCGATATTGCTCTTCCCAGAACCGTTAGCCCC	1	120	1
AGCCGTAAAGCCCCTCGAGAACAGAATAACTA	1	158	1
          *** ** *****
MAP Score: 4.14599

Motif 3
CCTCATCTTCAAATTCTCTACTTTCCTTTCTT	0	17	1
TCTATGTTCGAGTTTTTCTATTTCACATTATT	0	87	1
ATTTAGCGGGAGGTTCCCTCTTGCTACCGGCA	1	13	1
ATATTAGGTCACTTATCCTACTAGCCCTCATG	1	46	1
GTGATGCGATACTTTTTGTTCTTGGTGGATTA	1	89	0
ACAAGAAGGTAGTTATTCTGTTCTCGAGGGGC	1	167	0
TTCTTATATAAATTATCCTGCTATTAACATAA	1	277	1
          * ******* **
MAP Score: 2.21592

Motif 4
CAAGAACGTTGCCAACAATAATGTGAAATA	0	105	0
CAGCAATTTCACCAAGAACGTTGCCAACAA	0	117	0
CGGCAACCATACTAAGAATAAGACTAATAT	0	153	1
TAAGAATAAGACTAATATTAAAGGCTCTAG	0	165	1
CTTGCTACCGGCAAATATTAGGTCACTTAT	1	32	1
CGGATAATCCACCAAGAACAAAAAGTATCG	1	85	1
AAATTATCCTGCTATTAACATAAC      	1	286	1
          **********
MAP Score: 0.315448