AlignACE version 2.2  July 7, 1998
/home/amcguire/bin/alignACE -i270_ecoli_mtub_100.orf -o270_ecoli_mtub_100.ace -a/home/amcguire/genomes/ORF_ecoli.txt -z/home/amcguire/genomes/ecoli.fna -g0.58 -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 =  	0.58
 maxlen =  	30
 weight =  	0.8
 exclude = 	1

Input sequences:
#1	ftsZ	172	ftsZ

Motif number 1

CGCCGATACGCGGCGGGCATTTTTTCGG  	1	9	0	CGGCGGGCAT	    0.973484	-164
CGCCGCGTATCGGCGCGCCTGCACGGTTAG	1	24	1	CGGCGCGCCT	    0.662825	-149
CGCGCCTGCACGGTTAGCAACCGTCGTAGC	1	37	1	CGGTTAGCAA	    0.976725	-136
ACGGTTCTGACTACGAGCAACTACTTGACA	1	70	1	CTACGAGCAA	    0.969687	-103
TTCGGTGTGTCTGCTGGCAAACTCTCAACC	1	121	0	CTGCTGGCAA	     0.93425	-52
          **********

Masking position 7
Map Score:   7.77189

Number of sites scoring better than the average of aligned sites = 1233
Number in coding regions = 1175
Number in noncoding regions = 58
Number of orfs with sites within 600 bp upstream = 57
Fraction of orfs with sites within 600 bp upstream = 0.00915516


Motif number 2

GCGCCTGCACGGTTAGCAACCGTCGTAGCCAT	1	38	1	GGTAGAACCG	    0.908965	-135
TAGTCAGAACCGTATGGCTACGACGGTTGCTA	1	51	0	CGTTGCTACG	    0.833599	-122
TAGCCATACGGTTCTGACTACGAGCAACTACT	1	63	1	GTTTGCTACG	    0.993972	-110
TAGGCTTAGAGTTATGTCAAGTAGTTGCTCGT	1	82	0	GTTTGCAAGT	    0.936338	-91
TCGGTTCTTCGGTGTGTCTGCTGGCAAACTCT	1	126	0	GGTTGCTGCT	      0.9898	-47
CTTCCTCCCTGGTGGGGCTCGGTTCTTCGGTG	1	144	0	GGTGGCTCGG	    0.994702	-29
         CGTTCGGCTTCCTCCCTGGTGGG	1	160	0	GTTGGTTCCT	     0.94171	-13
          *** ** *****

Masking position 3
Map Score:   4.20334

Number of sites scoring better than the average of aligned sites = 1467
Number in coding regions = 1381
Number in noncoding regions = 86
Number of orfs with sites within 600 bp upstream = 98
Fraction of orfs with sites within 600 bp upstream = 0.0157404


Motif number 3

CTTGACATAACTCTAAGCCTATGGTTGAGG	1	93	1	CTCTAAGCCT	    0.997049	-80
TGCTGGCAAACTCTCAACCTCAACCATAGG	1	110	0	CTCTCAACCT	    0.997042	-63
          **********

Masking position 6
Map Score:   0.272707

Number of sites scoring better than the average of aligned sites = 11
Number in coding regions = 8
Number in noncoding regions = 3
Number of orfs with sites within 600 bp upstream = 3
Fraction of orfs with sites within 600 bp upstream = 0.00048185


Motif number 4

TTAGCAACCGTCGTAGCCATACGGTTCTGA	1	50	1	TCGTAGCCAT	    0.996982	-123
AAGTAGTTGCTCGTAGTCAGAACCGTATGG	1	66	0	TCGTAGTCAG	    0.996982	-107
          **********

Masking position 5
Map Score:   0.272707

Number of sites scoring better than the average of aligned sites = 26
Number in coding regions = 25
Number in noncoding regions = 1
Number of orfs with sites within 600 bp upstream = 1
Fraction of orfs with sites within 600 bp upstream = 0.000160617


Motif number 5

          **********

No masking
Map Score:   1.51646e-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:   1.51646e-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 7

          **********

No masking
Map Score:   1.51646e-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