RegulonDB

FlhDC matrix and aligment

matrix-quality result

Command: 
FlhDC.2nt_upstream-noorf-ovlp-2str.16.meme_quality

Figures

Matrix logo

Decreasing cumulative distributions (dCDF)

Decreasing cumulative distributions (dCDF), logarithmic Y axis

ROC curve (logarithmic X axis)

Matrix information

; convert-matrix  -v 1 -from transfac -i FlhDC.2nt_upstream-noorf-ovlp-2str.16.meme_quality_logo
; Input files
;	input	FlhDC.2nt_upstream-noorf-ovlp-2str.16.meme_quality_matrix.tf
;	prior	FlhDC.2nt_upstream-noorf-ovlp-2str.16.meme_quality2nt_upstream-noorf_Escherichia_coli_K_12_substr__MG1655_uid57779-ovlp-1str.freq.gz_inclusive.tab
; Input format        	transfac
; Output files
;	output	FlhDC.2nt_upstream-noorf-ovlp-2str.16.meme_quality_matrix_info.txt
; Output format       	tab
; pseudo-weight       	1
; Background model
;	Strand        	undef
;	Background pseudo-frequency	0.01
;	Residue probabilities
;		a	0.29086
;		c	0.20809
;		g	0.20476
;		t	0.29629
A	0	2	0	0	11	5	0	1	7	3	2	1	0	4	4	0
C	10	4	8	3	0	2	1	3	7	4	5	8	12	4	1	0
G	4	10	3	2	0	0	0	0	1	5	8	7	4	6	0	0
T	2	0	5	11	5	9	15	12	1	4	1	0	0	2	11	16
//
a  0.0  0.1  0.0  0.0  0.7  0.3  0.0  0.1  0.4  0.2  0.1  0.1  0.0  0.3  0.3  0.0
c  0.6  0.2  0.5  0.2  0.0  0.1  0.1  0.2  0.4  0.2  0.3  0.5  0.7  0.2  0.1  0.0
g  0.2  0.6  0.2  0.1  0.0  0.0  0.0  0.0  0.1  0.3  0.5  0.4  0.2  0.4  0.0  0.0
t  0.1  0.0  0.3  0.7  0.3  0.5  0.9  0.7  0.1  0.3  0.1  0.0  0.0  0.1  0.7  1.0
//
a -2.8 -0.8 -2.8 -2.8  0.8  0.1 -2.8 -1.3  0.4 -0.4 -0.8 -1.3 -2.8 -0.1 -0.1 -2.8
c  1.1  0.2  0.8 -0.1 -2.8 -0.5 -1.1 -0.1  0.7  0.2  0.4  0.8  1.2  0.2 -1.1 -2.8
g  0.2  1.1 -0.1 -0.5 -2.8 -2.8 -2.8 -2.8 -1.1  0.4  0.9  0.7  0.2  0.6 -2.8 -2.8
t -0.8 -2.8  0.1  0.8  0.1  0.6  1.1  0.9 -1.4 -0.2 -1.4 -2.8 -2.8 -0.8  0.8  1.2
//
a -0.0 -0.1 -0.0 -0.0  0.5  0.0 -0.0 -0.1  0.2 -0.1 -0.1 -0.1 -0.0 -0.0 -0.0 -0.0
c  0.6  0.0  0.4 -0.0 -0.0 -0.1 -0.1 -0.0  0.3  0.0  0.1  0.4  0.9  0.0 -0.1 -0.0
g  0.0  0.6 -0.0 -0.1 -0.0 -0.0 -0.0 -0.0 -0.1  0.1  0.4  0.3  0.0  0.2 -0.0 -0.0
t -0.1 -0.0  0.0  0.5  0.0  0.3  1.0  0.6 -0.1 -0.0 -0.1 -0.0 -0.0 -0.1  0.5  1.1
//
; Sites	
;
; Matrix parameters
;	Columns                      	16
;	Rows                         	4
;	Alphabet                     	a|c|g|t
;	Prior                        	a:0.29085999082|c:0.208089935287|g:0.204758708047|t:0.296291365846
;	program                      	transfac
;	matrix.nb                    	1
;	accession                    	1
;	AC                           	1
;	id                           	1
;	name                         	1
;	description                  	SSytwwTtmsssSstT
;	min.prior                    	0.204759
;	alphabet.size                	4
;	max.bits                     	2
;	total.information            	7.49454
;	information.per.column       	0.468408
;	max.possible.info.per.col    	1.58592
;	consensus.strict             	CGctatTtcggcCgtT
;	consensus.strict.rc          	AACGGCCGAAATAGCG
;	consensus.IUPAC              	SSytwwTtmsssSstT
;	consensus.IUPAC.rc           	AASSSSSKAAWWARSS
;	consensus.regexp             	[CG][CG][ct]t[at][at]Tt[ac][cg][cg][cg][CG][cg]tT
;	consensus.regexp.rc          	AA[CG][CG][CG][CG][CG][GT]AA[AT][AT]A[AG][CG][CG]
;	residues.content.crude.freq  	a:0.1562|c:0.2812|g:0.1953|t:0.3672
;	G+C.content.crude.freq       	0.476562
;	residues.content.corrected.freq	a:0.1642|c:0.2769|g:0.1959|t:0.3630
;	G+C.content.corrected.freq   	0.472815
;	min(P(S|M))                  	1.12301e-26
;	max(P(S|M))                  	0.000139645
;	proba_range                  	0.000139645
;	Wmin                         	-38
;	Wmax                         	13.9
;	Wrange                       	51.9
; logo file:FlhDC.2nt_upstream-noorf-ovlp-2str.16.meme_quality_logo_m1.png
; logo file:FlhDC.2nt_upstream-noorf-ovlp-2str.16.meme_quality_logo_m1_rc.png
; Host name	compute-1-10.local
; Job started	2015-08-06.164357
; Job done	2015-08-06.164359
; Seconds	0.3
;	user	0.3
;	system	0.05
;	cuser	0.5
;	csystem	0.07
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