AlignACE 3.0 10/20/99
AlignACE2 -i PH/PH_profile024_100.orf 
Parameter values:
 expect =      	10
 gcback =      	0.38
 minpass =     	200
 seed =        	944234416
 numcols =     	10
 undersample = 	1
 oversample = 	1

Input sequences:
#0	PH0437	263	367aa long hypothetical protein
#1	PH0438	58	339aa long hypothetical adenylosuccinate synthetase
#2	PH0439	31	255aa long hypothetical competence-damage protein
#3	PH1995	61	449aa long hypothetical glycine dehydrogenase subunit 1
#4	PH1996	150	225aa long hypothetical protein

Motif 1
CCAGGCTAGGCCACCGGCCCTCAGAAAAGG	4	48	0
GCTCCGAAGGCCGACGCCCCATCCAGGCTA	4	70	0
GCCTTCGGAGCCGAAGGTCCCGGGTTCAAA	4	89	1
GTTCAAATCCCGGCCGGCCCGCCAACAATA	4	112	1
          **********
MAP Score: 4.82207

Motif 2
GAGAAGCGGAGTGGAAGCGCCTAAGAAGCTT	0	129	1
TCCAGGCTAGGCCACCGGCCCTCAGAAAAGG	4	48	0
GGCTCCGAAGGCCGACGCCCCATCCAGGCTA	4	70	0
GGCCTTCGGAGCCGAAGGTCCCGGGTTCAAA	4	88	1
GGTTCAAATCCCGGCCGGCCCGCCAACAATA	4	111	1
          ******** **
MAP Score: 4.5629

Motif 3
CCTTAAAATGCTTACCCTTTTGACAGGG  	1	8	0
AGCATTTTAAGGTACCCCTTTACTTACCCT	1	26	1
TACCCCTTTACTTACCCTTTGGTAAGGAGT	1	38	1
  TTTATCACCGAAACCTTTATTACGCTTT	4	8	1
CGAAACCTTTATTACGCTTTCAATTTAAAG	4	18	1
          **********
MAP Score: 2.53974

Motif 4
CAGGGATCTCCTCAAAATATTAGGTGAAGAGTTTG	0	37	1
TAATTCTCTTCTCAAACTCTTCACCTAATATTTTG	0	49	0
CATAATACTCCTCATACTTTTCGATTGGAGTCTCC	0	85	0
ATAAGGTTTGCTCTCAATAGCCATTCTATTCATTG	0	201	0
          CTTTAAATTTCCTATCCCTATTTTT	2	0	1
CTTTATTACGCTTTCAATTTAAAGCCTTTTCTGAG	4	24	1
GCCACCGGCCCTCAGAAAAGGCTTTAAATTGAAAG	4	34	0
CCAACAATAACTTTAAAACTTCCACAA        	4	133	1
          **** *** * *  *
MAP Score: 2.11057

Motif 5
CCTTTTCTGAGGGCCGGTGGCCTAGCCTGGATG	4	48	1
TCGGCTCCGAAGGCCGACGCCCCATCCAGGCTA	4	70	0
TCGGCCTTCGGAGCCGAAGGTCCCGGGTTCAAA	4	86	1
GTTCAAATCCCGGCCGGCCCGCCAACAATAACT	4	112	1
          ******  ** **
MAP Score: 0.60525