; convert-matrix  -v -i /Users/jturatsi/research/project/drosophila/data/oreganno_data/matrices_from_oreganno/Eip74EF.tab -from meme -to tab -return counts,info,margins,parameters,profile,sites -o html_ready/Eip74EF_parameters.txt
; Input files
;	input	/Users/jturatsi/research/project/drosophila/data/oreganno_data/matrices_from_oreganno/Eip74EF.tab
; Output files
;	output	html_ready/Eip74EF_parameters.txt
; pseudo-weight       	1
;
; MATRIX 1/1 : Eip74EF
;
;
; Matrix type: counts
; Pos	|	1	2	3	4	5	6	7	8
; -----	|--------|-------|-------|-------|-------|-------|-------|-------|
a	|	3	6	1	0	8	8	1	1
c	|	5	2	0	1	0	0	0	1
g	|	0	0	7	7	0	0	5	0
t	|	0	0	0	0	0	0	2	6
; -----	|--------|-------|-------|-------|-------|-------|-------|-------|
; c.sum	|	8	8	8	8	8	8	8	8	64
; c.max	|	5	6	7	7	8	8	5	6	8
; c.min	|	0	0	0	0	0	0	0	0	0
; Profile matrix
;pos	a	c	g	t	|	sum	max_frq	inf_sum	strict	IUPAC	-----------1-----------2
1	3	5	0	0	|	8	 0.62	 0.58	C	M	aCCCC
2	6	2	0	0	|	8	 0.75	 0.51	a	m	aaaac
3	1	0	7	0	|	8	 0.88	 0.91	G	G	aGGGGGGGGGG
4	0	1	7	0	|	8	 0.88	 0.94	G	G	cGGGGGGGGGG
5	8	0	0	0	|	8	 1.00	 0.84	A	A	AAAAAAAAAAAA
6	8	0	0	0	|	8	 1.00	 0.84	A	A	AAAAAAAAAAAA
7	1	0	5	2	|	8	 0.62	 0.43	G	G	GGt
8	1	1	0	6	|	8	 0.75	 0.37	t	t	cttt
;
; Matrix type: information
;P	|    1    2    3    4    5    6    7    8
;-	|-----|----|----|----|----|----|----|----|
a	|  0.1  0.6 -0.1 -0.1  1.0  1.0 -0.1 -0.1
c	|  0.6  0.1 -0.0 -0.0 -0.0 -0.0 -0.0 -0.0
g	| -0.0 -0.0  1.1  1.1 -0.0 -0.0  0.6 -0.0
t	| -0.1 -0.1 -0.1 -0.1 -0.1 -0.1 -0.0  0.6
;-	|-----|----|----|----|----|----|----|----|
; i.sum	|  0.6  0.5  0.9  0.9  0.8  0.8  0.4  0.4  5.4
; i.max	|  0.6  0.6  1.1  1.1  1.0  1.0  0.6  0.6  1.1
; i.min	| -0.1 -0.1 -0.1 -0.1 -0.1 -0.1 -0.1 -0.1 -0.1
; Sites	8
>Eip74EF_chr3L_17553000_1
ccggaagt
>Eip74EF_chr3L_15622699_1
aaggaagt
>Eip74EF_chr3L_15623028_1
caggaagc
>Eip74EF_chr3L_17552907_1
caggaatt
>Eip74EF_chr3L_15622831_1
aaggaaga
>Eip74EF_chr3L_15622928_1
ccagaagt
>Eip74EF_chr3L_15622648_1
aaggaaat
>Eip74EF_chr3L_17552797_1
cagcaatt
;
; Matrix parameters
;	Columns                      	8
;	Rows                         	4
;	Alphabet                     	a|c|g|t
;	Prior                        	a:0.309|c:0.191|g:0.191|t:0.309
;	program                      	meme
;	matrix.nb                    	1
;	command                      	meme ../data/oreganno_data/processed_data/regulons_for_one_factor/Eip74EF_factor_binding_sites_sequences.fa -dna -mod zoops -nmotifs 1 -revcomp -minw 6 -maxw 25 -dir /Users/jturatsi
;	sites                        	8
;	meme.llr                     	60
;	meme.E-value                 	0.00051
;	pseudo                       	1
;	info.log.base                	2.71828
;	min.prior                    	0.191
;	alphabet.size                	4
;	max.bits                     	2
;	total.information            	5.43283
;	information.per.column       	0.679104
;	max.possible.info.per.col    	1.65548
;	consensus.strict             	CaGGAAGt
;	consensus.strict.rc          	aCTTCCtG
;	consensus.IUPAC              	MmGGAAGt
;	consensus.IUPAC.rc           	aCTTCCkK
;	consensus.regexp             	[AC][ac]GGAAGt
;	consensus.regexp.rc          	aCTTCC[gt][GT]
;	residues.content.crude.freq  	a:0.4375|c:0.1406|g:0.2969|t:0.1250
;	G+C.content.crude.freq       	0.4375
;	residues.content.corrected.freq	a:0.4232|c:0.1462|g:0.2851|t:0.1454
;	G+C.content.corrected.freq   	0.431333
;	min(P(S|M))                  	6.65659e-14
;	max(P(S|M))                  	0.0889527
;	proba_range                  	0.0889527
;	Wmin                         	-17.6
;	Wmax                         	8.9
;	Wrange                       	26.5
; Job started 2007_12_10.132052
; Job done    2007_12_10.132052