AlignACE version 2.2  July 7, 1998
/home/amcguire/bin/alignACE -i042_Transketolase_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	tkt	168	transketolase

Motif number 1

          TATAAGAGGAATACGGCAATA	1	1	1	TATAAGAGAA	    0.985665	-168
TTGATTATAGTATATGCAAAAGAGGAATACG	1	33	0	TATATGCAAA	    0.976137	-136
TTGCATATACTATAATCAAAACTCTTATGTG	1	45	1	TATAATCAAA	    0.837886	-124
TCAAAACTCTTATGTGACAAAATTCAACAAG	1	60	1	TATGTGAAAA	    0.786146	-109
TCAGCTTAAATTTGAGAGAAACTTGTTGAAT	1	81	0	TTTGAGAAAA	    0.971168	-88
TTCTCTCAAATTTAAGCTGAAACAGTTGAGA	1	92	1	TTTAAGCGAA	    0.981724	-77
AGCTGAAACAGTTGAGAAAAAGTCGTCAGAC	1	106	1	GTTGAGAAAA	    0.928983	-63
TCGTCAGACATTTATGATGTAAGGGTACAAC	1	128	1	TTTATGAGTA	    0.905708	-41
TCCCCTTCCTTATGTGTTGTACCCTTACATC	1	143	0	TATGTGTGTA	     0.83878	-26
          ******* ***

Masking position 3
Map Score:   12.0045

Number of sites scoring better than the average of aligned sites = 1258
Number in coding regions = 1024
Number in noncoding regions = 234
Number of orfs with sites within 600 bp upstream = 277
Fraction of orfs with sites within 600 bp upstream = 0.0444908


Motif number 2

      TATAAGAGGAATACGGCAATATCGT	1	5	1	AGAGGAAACG	    0.998472	-164
TATATGCAAAAGAGGAATACGATATTGCCGT	1	23	0	AGAGGAAACG	    0.998472	-146
CTTAAATTTGAGAGAAACTTGTTGAATTTTG	1	77	0	AGAGAAATTG	    0.990748	-92
GAAACAGTTGAGAAAAAGTCGTCAGACATTT	1	110	1	AGAAAAATCG	    0.990734	-59
          ******* ***

Masking position 6
Map Score:   6.6448

Number of sites scoring better than the average of aligned sites = 94
Number in coding regions = 81
Number in noncoding regions = 13
Number of orfs with sites within 600 bp upstream = 14
Fraction of orfs with sites within 600 bp upstream = 0.00224863


Motif number 3

          **********

No masking
Map Score:   -1.75204e-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:   -1.75204e-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:   -1.75204e-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