AlignACE version 2.2  July 7, 1998
/home/amcguire/bin/alignACE -i270_hypothetical15_mtub_reg_100.orf -a/home/amcguire/alignace/lib/ORF_mtub.txt -z/skink1/amcguire/genomes/mtub.fna -g0.66 -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 =  	0.66
 maxlen =  	30
 weight =  	0.8
 exclude = 	0

Input sequences:
#1	ftsZ	172	ftsZ

Motif number 1

  CCGAAAAAATGCCCGCCGCGTATCGGCG	1	9	1	ATGCCCGCCG	     0.97201	-164
CTAACCGTGCAGGCGCGCCGATACGCGGCG	1	24	0	AGGCGCGCCG	      0.6562	-149
GCTACGACGGTTGCTAACCGTGCAGGCGCG	1	37	0	TTGCTAACCG	    0.977074	-136
TGTCAAGTAGTTGCTCGTAGTCAGAACCGT	1	70	0	TTGCTCGTAG	    0.969599	-103
GGTTGAGAGTTTGCCAGCAGACACACCGAA	1	121	1	TTGCCAGCAG	    0.931038	-52
          **********

Masking position 4
Map Score:   7.77189

Number of sites scoring better than the average of aligned sites = 3367
Number in coding regions = 3101
Number in noncoding regions = 266
Number of orfs with sites within 600 bp upstream = 250
Fraction of orfs with sites within 600 bp upstream = 0.0401542


Motif number 2

ATGGCTACGACGGTTGCTAACCGTGCAGGCGC	1	38	0	CGGTTCTACC	    0.912374	-135
TAGCAACCGTCGTAGCCATACGGTTCTGACTA	1	51	1	CGTAGCAACG	    0.828787	-122
AGTAGTTGCTCGTAGTCAGAACCGTATGGCTA	1	63	0	CGTAGCAAAC	     0.99427	-110
ACGAGCAACTACTTGACATAACTCTAAGCCTA	1	82	1	ACTTGCAAAC	    0.939329	-91
AGAGTTTGCCAGCAGACACACCGAAGAACCGA	1	126	1	AGCAGCAACC	    0.990305	-47
CACCGAAGAACCGAGCCCCACCAGGGAGGAAG	1	144	1	CCGAGCCACC	    0.994965	-29
CCCACCAGGGAGGAAGCCGAACG         	1	160	1	AGGAACCAAC	    0.944463	-13
          ***** ** ***

Masking position 10
Map Score:   4.20334

Number of sites scoring better than the average of aligned sites = 3740
Number in coding regions = 3414
Number in noncoding regions = 326
Number of orfs with sites within 600 bp upstream = 294
Fraction of orfs with sites within 600 bp upstream = 0.0472213


Motif number 3

TCAGAACCGTATGGCTACGACGGTTGCTAA	1	50	0	ATGGCTACGA	    0.996839	-123
CCATACGGTTCTGACTACGAGCAACTACTT	1	66	1	CTGACTACGA	    0.996839	-107
          **********

Masking position 6
Map Score:   0.272707

Number of sites scoring better than the average of aligned sites = 16
Number in coding regions = 11
Number in noncoding regions = 5
Number of orfs with sites within 600 bp upstream = 5
Fraction of orfs with sites within 600 bp upstream = 0.000803084


Motif number 4

GGTTAGCAACCGTCGTAGCCATACGGTTCT	1	48	1	CGTCGTAGCC	     0.98301	-125
AGTTGCTCGTAGTCAGAACCGTATGGCTAC	1	62	0	AGTCAGAACC	    0.984478	-111
ACTTGACATAACTCTAAGCCTATGGTTGAG	1	92	1	ACTCTAAGCC	    0.991579	-81
CTGCTGGCAAACTCTCAACCTCAACCATAG	1	111	0	ACTCTCAACC	    0.991178	-62
          **********

Masking position 7
Map Score:   1.29413

Number of sites scoring better than the average of aligned sites = 139
Number in coding regions = 118
Number in noncoding regions = 21
Number of orfs with sites within 600 bp upstream = 22
Fraction of orfs with sites within 600 bp upstream = 0.00353357


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