AlignACE version 2.2  July 7, 1998
/home/amcguire/bin/alignACE -i031_ecoli_bsub_100.orf -o031_ecoli_bsub_100.ace -a/home/amcguire/alignace/lib/ORF_ecoli.txt -z/skink1/amcguire/genomes/ecoli.fna -g0.47 -x5 -e 
Parameter values:
 expect =  	5
 ncols =   	10
 npass =   	1000
 maxnpass =	100
 nruns =   	1000
 maxnruns =	100
 repeat =  	15
 maxreps = 	3
 nread =   	500
 ncycles = 	1
 fragment =	1
 psfact =  	0.1
 gcback =  	0.47
 maxlen =  	30
 weight =  	0.8
 exclude = 	1

Input sequences:
#1	b1200	188	putative dihydroxyacetone kinase (EC 2.7.1.2)

Motif number 1

ATGTTCCATATTGAAACTTTTACGTGTATT	1	53	0	TTGAAACTTT	    0.938456	-136
AAGTTTCAATATGGAACATTCATTAAAGCA	1	64	1	ATGGAACATT	    0.989622	-125
ATGTTTCATAGTGAAACATATGCTTTAATG	1	84	0	GTGAAACATA	    0.992745	-105
ATGTTTCACTATGAAACATAATTTGGGCTA	1	95	1	ATGAAACATA	    0.988822	-94
TCGCCGTGTCGTTGAACATCATCC      	1	175	1	GTTGAACATC	      0.9594	-14
          **********

Masking position 5
Map Score:   5.42622

Number of sites scoring better than the average of aligned sites = 155
Number in coding regions = 125
Number in noncoding regions = 30
Number of orfs with sites within 600 bp upstream = 38
Fraction of orfs with sites within 600 bp upstream = 0.00610344


Motif number 2

          **********

No masking
Map Score:   6.63809e-14

Number of sites scoring better than the average of aligned sites = 0
Number in coding regions = 0
Number in noncoding regions = 0
Number of orfs with sites within 600 bp upstream = 0
Fraction of orfs with sites within 600 bp upstream = 0


Motif number 3

          **********

No masking
Map Score:   6.63809e-14

Number of sites scoring better than the average of aligned sites = 0
Number in coding regions = 0
Number in noncoding regions = 0
Number of orfs with sites within 600 bp upstream = 0
Fraction of orfs with sites within 600 bp upstream = 0


Motif number 4

          **********

No masking
Map Score:   6.63809e-14

Number of sites scoring better than the average of aligned sites = 0
Number in coding regions = 0
Number in noncoding regions = 0
Number of orfs with sites within 600 bp upstream = 0
Fraction of orfs with sites within 600 bp upstream = 0