AlignACE version 2.2  July 7, 1998
/home/amcguire/bin/alignACE -i00430_bsub_reg_100.orf -o00430_bsub_100.ace -a/home/amcguire/alignace/lib/ORF_bsub.txt -z/skink1/amcguire/genomes/bsub.fna -g0.44 -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 =  	0.44
 maxlen =  	30
 weight =  	0.8
 exclude = 	1

Input sequences:
#1	ggt	184	gamma-glutamyltranspeptidase

Motif number 1

CTTAATCCGTATGCTGATTCTAATATAGCA	1	24	1	ATGCTGATTC	    0.933878	-161
TATGAGCCATGTGCTATATTAGAATCAGCA	1	35	0	GTGCTATATT	    0.978031	-150
CCGTTTTTCTGTGCAGAATTGATTATATTG	1	66	0	GTGCAGAATT	    0.945994	-119
ATAGTGCATAATGCCGTTTTTCTGTGCAGA	1	79	0	ATGCCGTTTT	    0.974723	-106
CAAGTGACAAATGGTATATTATATAGTGCA	1	101	0	ATGGTATATT	    0.927106	-84
ACTTGTGAAAACGCTGTAATTTTTTTACGC	1	126	1	ACGCTGTAAT	    0.948482	-59
CTCCTATATGAAGCTGTATTGTTACAATCT	1	158	0	AAGCTGTATT	    0.983547	-27
          **********

Masking position 3
Map Score:   5.67903

Number of sites scoring better than the average of aligned sites = 2123
Number in coding regions = 1942
Number in noncoding regions = 181
Number of orfs with sites within 600 bp upstream = 168
Fraction of orfs with sites within 600 bp upstream = 0.0269836


Motif number 2

GTATGCTGATTCTAATATAGCACATGGCTC	1	32	1	TCTAATATAG	     0.98363	-153
GTGCAGAATTGATTATATTGATATGAGCCA	1	56	0	GATTATATTG	    0.982431	-129
ACAAATGGTATATTATATAGTGCATAATGC	1	95	0	TATTATATAG	    0.974746	-90
ATTTTTTTACGCTAAGATTGTAACAATACA	1	144	1	GCTAAGATTG	    0.981989	-41
          **********

Masking position 5
Map Score:   2.36048

Number of sites scoring better than the average of aligned sites = 153
Number in coding regions = 118
Number in noncoding regions = 35
Number of orfs with sites within 600 bp upstream = 38
Fraction of orfs with sites within 600 bp upstream = 0.00610344


Motif number 3

ATACGGATTAAGAAGGGACTGCTAT     	1	6	0	AGAAGGGACT	    0.995443	-179
TTTTCTGTGCAGAATTGATTATATTGATAT	1	62	0	AGAATTGATT	    0.929089	-123
CAGCGTTTTCACAAGTGACAAATGGTATAT	1	112	0	ACAAGTGACA	     0.98147	-73
AGCTTCATATAGGAGGGAGAAC        	1	173	1	AGGAGGGAGA	    0.985916	-12
          **********

Masking position 4
Map Score:   0.777713

Number of sites scoring better than the average of aligned sites = 418
Number in coding regions = 303
Number in noncoding regions = 115
Number of orfs with sites within 600 bp upstream = 119
Fraction of orfs with sites within 600 bp upstream = 0.0191134


Motif number 4

          **********

No masking
Map Score:   2.227e-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:   2.227e-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 6

          **********

No masking
Map Score:   2.227e-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