RegulonDB

FNR matrix and aligment

matrix-quality result

Command: 
FNR.2nt_upstream-noorf-ovlp-2str.14.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 FNR.2nt_upstream-noorf-ovlp-2str.14.meme_quality_logo
; Input files
;	input	FNR.2nt_upstream-noorf-ovlp-2str.14.meme_quality_matrix.tf
;	prior	FNR.2nt_upstream-noorf-ovlp-2str.14.meme_quality2nt_upstream-noorf_Escherichia_coli_K_12_substr__MG1655_uid57779-ovlp-1str.freq.gz_inclusive.tab
; Input format        	transfac
; Output files
;	output	FNR.2nt_upstream-noorf-ovlp-2str.14.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	15	6	14	51	13	17	28	51	19	69	7	0	81	75
C	8	9	8	14	4	28	12	11	24	0	0	72	1	7
G	12	6	60	6	14	3	17	8	11	13	0	6	0	0
T	49	63	2	13	53	36	27	14	30	2	77	6	2	2
//
a  0.2  0.1  0.2  0.6  0.2  0.2  0.3  0.6  0.2  0.8  0.1  0.0  1.0  0.9
c  0.1  0.1  0.1  0.2  0.0  0.3  0.1  0.1  0.3  0.0  0.0  0.8  0.0  0.1
g  0.1  0.1  0.7  0.1  0.2  0.0  0.2  0.1  0.1  0.2  0.0  0.1  0.0  0.0
t  0.6  0.7  0.0  0.2  0.6  0.4  0.3  0.2  0.4  0.0  0.9  0.1  0.0  0.0
//
a -0.5 -1.4 -0.5  0.7 -0.6 -0.4  0.1  0.7 -0.2  1.0 -1.2 -4.4  1.2  1.1
c -0.8 -0.7 -0.8 -0.2 -1.4  0.5 -0.4 -0.5  0.3 -4.4 -4.4  1.4 -2.7 -0.9
g -0.4 -1.0  1.2 -1.0 -0.2 -1.7 -0.0 -0.8 -0.4 -0.3 -4.4 -1.0 -4.4 -4.4
t  0.7  0.9 -2.4 -0.6  0.7  0.4  0.1 -0.6  0.2 -2.4  1.1 -1.4 -2.4 -2.4
//
a -0.1 -0.1 -0.1  0.4 -0.1 -0.1  0.0  0.4 -0.1  0.8 -0.1 -0.0  1.1  1.0
c -0.1 -0.1 -0.1 -0.0 -0.1  0.2 -0.1 -0.1  0.1 -0.0 -0.0  1.2 -0.0 -0.1
g -0.1 -0.1  0.9 -0.1 -0.0 -0.1 -0.0 -0.1 -0.1 -0.0 -0.0 -0.1 -0.0 -0.0
t  0.4  0.7 -0.1 -0.1  0.5  0.2  0.0 -0.1  0.1 -0.1  1.0 -0.1 -0.1 -0.1
//
; Sites	
;
; Matrix parameters
;	Columns                      	14
;	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                  	ttGatywayATCAA
;	min.prior                    	0.204759
;	alphabet.size                	4
;	max.bits                     	2
;	total.information            	6.68085
;	information.per.column       	0.477204
;	max.possible.info.per.col    	1.58592
;	consensus.strict             	ttGatcaacATCAA
;	consensus.strict.rc          	TTGATGTTGATCAA
;	consensus.IUPAC              	ttGatywayATCAA
;	consensus.IUPAC.rc           	TTGATRTWRATCAA
;	consensus.regexp             	ttGat[ct][at]a[ct]ATCAA
;	consensus.regexp.rc          	TTGAT[AG]T[AT][AG]ATCAA
;	residues.content.crude.freq  	a:0.3793|c:0.1684|g:0.1327|t:0.3197
;	G+C.content.crude.freq       	0.30102
;	residues.content.corrected.freq	a:0.3782|c:0.1688|g:0.1335|t:0.3195
;	G+C.content.corrected.freq   	0.302336
;	min(P(S|M))                  	5.55281e-24
;	max(P(S|M))                  	0.00188729
;	proba_range                  	0.00188729
;	Wmin                         	-32.5
;	Wmax                         	11.9
;	Wrange                       	44.4
; logo file:FNR.2nt_upstream-noorf-ovlp-2str.14.meme_quality_logo_m1.png
; logo file:FNR.2nt_upstream-noorf-ovlp-2str.14.meme_quality_logo_m1_rc.png
; Host name	compute-1-9.local
; Job started	2015-08-06.164357
; Job done	2015-08-06.164359
; Seconds	0.31
;	user	0.31
;	system	0.05
;	cuser	0.51
;	csystem	0.06
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