RegulonDB

CysB matrix and aligment

matrix-quality result

Command: 
CysB.2nt_upstream-noorf-ovlp-2str.38.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 CysB.2nt_upstream-noorf-ovlp-2str.38.meme_quality_logo
; Input files
;	input	CysB.2nt_upstream-noorf-ovlp-2str.38.meme_quality_matrix.tf
;	prior	CysB.2nt_upstream-noorf-ovlp-2str.38.meme_quality2nt_upstream-noorf_Escherichia_coli_K_12_substr__MG1655_uid57779-ovlp-1str.freq.gz_inclusive.tab
; Input format        	transfac
; Output files
;	output	CysB.2nt_upstream-noorf-ovlp-2str.38.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	2	2	9	4	1	3	2	9	2	1	2	1	2	5	7	8	1	0	4	6	3	2	9	0	0	4	2	3	7	5	2	2	4	2	4	8	0	3
C	1	0	2	1	1	5	7	2	1	2	2	2	4	3	2	2	0	0	7	3	2	2	0	1	7	3	10	4	4	4	4	6	4	0	0	4	1	0
G	0	1	2	5	3	2	2	0	0	0	3	5	7	0	0	0	2	2	0	4	0	0	1	0	2	3	0	0	1	0	3	2	2	7	1	0	0	0
T	11	11	1	4	9	4	3	3	11	11	7	6	1	6	5	4	11	12	3	1	9	10	4	13	5	4	2	7	2	5	5	4	4	5	9	2	13	11
//
a  0.2  0.2  0.6  0.3  0.1  0.2  0.2  0.6  0.2  0.1  0.2  0.1  0.2  0.4  0.5  0.6  0.1  0.0  0.3  0.4  0.2  0.2  0.6  0.0  0.0  0.3  0.2  0.2  0.5  0.4  0.2  0.2  0.3  0.2  0.3  0.6  0.0  0.2
c  0.1  0.0  0.1  0.1  0.1  0.3  0.5  0.1  0.1  0.1  0.1  0.1  0.3  0.2  0.1  0.1  0.0  0.0  0.5  0.2  0.1  0.1  0.0  0.1  0.5  0.2  0.7  0.3  0.3  0.3  0.3  0.4  0.3  0.0  0.0  0.3  0.1  0.0
g  0.0  0.1  0.1  0.3  0.2  0.1  0.1  0.0  0.0  0.0  0.2  0.3  0.5  0.0  0.0  0.0  0.1  0.1  0.0  0.3  0.0  0.0  0.1  0.0  0.1  0.2  0.0  0.0  0.1  0.0  0.2  0.1  0.1  0.5  0.1  0.0  0.0  0.0
t  0.8  0.8  0.1  0.3  0.6  0.3  0.2  0.2  0.8  0.8  0.5  0.4  0.1  0.4  0.4  0.3  0.8  0.8  0.2  0.1  0.6  0.7  0.3  0.9  0.4  0.3  0.2  0.5  0.2  0.4  0.4  0.3  0.3  0.4  0.6  0.2  0.9  0.8
//
a -0.6 -0.6  0.8 -0.0 -1.2 -0.3 -0.6  0.8 -0.6 -1.2 -0.6 -1.2 -0.6  0.2  0.5  0.6 -1.2 -2.7 -0.0  0.4 -0.3 -0.6  0.8 -2.7 -2.7 -0.0 -0.6 -0.3  0.5  0.2 -0.6 -0.6 -0.0 -0.6 -0.0  0.6 -2.7 -0.3
c -0.9 -2.7 -0.3 -0.9 -0.9  0.5  0.8 -0.3 -0.9 -0.3 -0.3 -0.3  0.3  0.0 -0.3 -0.3 -2.7 -2.7  0.8  0.0 -0.3 -0.3 -2.7 -0.9  0.8  0.0  1.2  0.3  0.3  0.3  0.3  0.7  0.3 -2.7 -2.7  0.3 -0.9 -2.7
g -2.7 -0.9 -0.3  0.5  0.0 -0.3 -0.3 -2.7 -2.7 -2.7  0.0  0.5  0.9 -2.7 -2.7 -2.7 -0.3 -0.3 -2.7  0.3 -2.7 -2.7 -0.9 -2.7 -0.3  0.0 -2.7 -2.7 -0.9 -2.7  0.0 -0.3 -0.3  0.9 -0.9 -2.7 -2.7 -2.7
t  0.9  0.9 -1.2 -0.0  0.7 -0.0 -0.3 -0.3  0.9  0.9  0.5  0.3 -1.2  0.3  0.2 -0.0  0.9  1.0 -0.3 -1.2  0.7  0.8 -0.0  1.1  0.2 -0.0 -0.7  0.5 -0.7  0.2  0.2 -0.0 -0.0  0.2  0.7 -0.7  1.1  0.9
//
a -0.1 -0.1  0.5 -0.0 -0.1 -0.1 -0.1  0.5 -0.1 -0.1 -0.1 -0.1 -0.1  0.1  0.2  0.4 -0.1 -0.1 -0.0  0.2 -0.1 -0.1  0.5 -0.1 -0.1 -0.0 -0.1 -0.1  0.2  0.1 -0.1 -0.1 -0.0 -0.1 -0.0  0.4 -0.1 -0.1
c -0.1 -0.0 -0.1 -0.1 -0.1  0.2  0.4 -0.1 -0.1 -0.1 -0.1 -0.1  0.1  0.0 -0.1 -0.1 -0.0 -0.0  0.4  0.0 -0.1 -0.1 -0.0 -0.1  0.4  0.0  0.8  0.1  0.1  0.1  0.1  0.3  0.1 -0.0 -0.0  0.1 -0.1 -0.0
g -0.0 -0.1 -0.0  0.2  0.0 -0.0 -0.0 -0.0 -0.0 -0.0  0.0  0.2  0.4 -0.0 -0.0 -0.0 -0.0 -0.0 -0.0  0.1 -0.0 -0.0 -0.1 -0.0 -0.0  0.0 -0.0 -0.0 -0.1 -0.0  0.0 -0.0 -0.0  0.4 -0.1 -0.0 -0.0 -0.0
t  0.7  0.7 -0.1 -0.0  0.5 -0.0 -0.1 -0.1  0.7  0.7  0.2  0.1 -0.1  0.1  0.1 -0.0  0.7  0.8 -0.1 -0.1  0.5  0.6 -0.0  1.0  0.1 -0.0 -0.1  0.2 -0.1  0.1  0.1 -0.0 -0.0  0.1  0.5 -0.1  1.0  0.7
//
; Sites	
;
; Matrix parameters
;	Columns                      	38
;	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                  	ttagkccattkkshwatTcvttaTysCymhbccktmTt
;	min.prior                    	0.204759
;	alphabet.size                	4
;	max.bits                     	2
;	total.information            	11.9474
;	information.per.column       	0.314406
;	max.possible.info.per.col    	1.58592
;	consensus.strict             	ttagtccatttggtaatTcattaTcgCtaccccgtaTt
;	consensus.strict.rc          	AATACGGGGTAGCGATAATGAATTACCAAATGGACTAA
;	consensus.IUPAC              	ttagkccattkkshwatTcvttaTysCymhbccktmTt
;	consensus.IUPAC.rc           	AAKAMGGVDKRGSRATAABGAATWDSMMAATGGMCTAA
;	consensus.regexp             	ttag[gt]ccatt[gt][gt][cg][act][at]atTc[acg]ttaT[ct][cg]C[ct][ac][act][cgt]cc[gt]t[ac]Tt
;	consensus.regexp.rc          	AA[GT]A[AC]GG[ACG][AGT][GT][AG]G[CG][AG]ATAA[CGT]GAAT[AT][AGT][CG][AC][AC]AATGG[AC]CTAA
;	residues.content.crude.freq  	a:0.2462|c:0.1936|g:0.1128|t:0.4474
;	G+C.content.crude.freq       	0.306391
;	residues.content.corrected.freq	a:0.2492|c:0.1946|g:0.1189|t:0.4373
;	G+C.content.corrected.freq   	0.313488
;	min(P(S|M))                  	1.77903e-58
;	max(P(S|M))                  	5.11462e-11
;	proba_range                  	5.11462e-11
;	Wmin                         	-76.3
;	Wmax                         	26.8
;	Wrange                       	103.1
; logo file:CysB.2nt_upstream-noorf-ovlp-2str.38.meme_quality_logo_m1.png
; logo file:CysB.2nt_upstream-noorf-ovlp-2str.38.meme_quality_logo_m1_rc.png
; Host name	compute-1-5.local
; Job started	2015-08-06.164341
; Job done	2015-08-06.164342
; Seconds	0.31
;	user	0.31
;	system	0.05
;	cuser	0.58
;	csystem	0.06
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