AlignACE version 2.2  July 7, 1998
/home/amcguire/bin/alignACE -i136_Transmembrane_Transport_10_bsub_reg_100.orf -aORF_bsub.txt -zbsub.fna -g0.435 -x5 
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 =  	0.435
 maxlen =  	30
 weight =  	0.8
 exclude = 	0

Input sequences:
#1	yfiB	105	similar to ABC transporter (ATP-binding protein)

Motif number 1

CTCCCGAAAAGGAGGGCAGTCT        	1	3	0	GGAGGGCAGT	    0.996745	-103
CTCCTTTTCGGGAGGGTTTTCGTTTGCCGT	1	19	1	GGAGGGTTTT	    0.998823	-87
ACTTTACTATGGCGGTCTTTTTGACGGCAA	1	42	0	GGCGGTCTTT	    0.996491	-64
AAAGGGGTTTGGAGGCTTTTAC        	1	94	1	GGAGGCTTTT	     0.99742	-12
          **********

Masking position 10
Map Score:   8.47404

Number of sites scoring better than the average of aligned sites = 101
Number in coding regions = 65
Number in noncoding regions = 36
Number of orfs with sites within 600 bp upstream = 38
Fraction of orfs with sites within 600 bp upstream = 0.00610344


Motif number 2

CCTCCCGAAAAGGAGGGCAGTCT       	1	4	0	AGGAGGGCAG	    0.987761	-102
CCTCCTTTTCGGGAGGGTTTTCGTTTGCCG	1	18	1	GGGAGGGTTT	    0.997042	-88
TACTTTACTATGGCGGTCTTTTTGACGGCA	1	43	0	TGGCGGTCTT	    0.992282	-63
AAAAGGGGTTTGGAGGCTTTTAC       	1	93	1	TGGAGGCTTT	    0.995436	-13
          **********

Masking position 5
Map Score:   4.09748

Number of sites scoring better than the average of aligned sites = 252
Number in coding regions = 188
Number in noncoding regions = 64
Number of orfs with sites within 600 bp upstream = 64
Fraction of orfs with sites within 600 bp upstream = 0.0102795


Motif number 3

          **********

No masking
Map Score:   -1.9652e-13

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:   -1.9652e-13

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 5

          **********

No masking
Map Score:   -1.9652e-13

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