; matrix-scan  -v 1 -matrix_format transfac -m $RSAT/public_html/tmp/www-data/2026/07/22/matrix-scan_2026-07-22.164403_HkV3ct.matrix -pseudo 1 -decimals 1 -2str -origin end -bginput -markov 1 -bg_pseudo 0.01 -return limits -return sites -return pval -return rank -lth score 1 -uth pval 1e-4 -i $RSAT/public_html/tmp/www-data/2026/07/22/tmp_sequence_2026-07-22.164403_PEXWxS.fasta -seq_format fasta -n score
; Slow counting mode            
; Input files
;	input	$RSAT/public_html/tmp/www-data/2026/07/22/tmp_sequence_2026-07-22.164403_PEXWxS.fasta
; Matrix files
;	matrix 1	$RSAT/public_html/tmp/www-data/2026/07/22/matrix-scan_2026-07-22.164403_HkV3ct.matrix
; Sequence format      	fasta
; Pseudo counts        	1
; Background model
;	Method        	input
;	Markov order  	1
;	Strand        	undef
;	Background pseudo-frequency	0.01
;	Residue probabilities
;		a	0.32355
;		c	0.18525
;		g	0.15053
;		t	0.34067
; Thresholds	lower	upper
;	pval  	NA	0.0001
;	score 	1    	NA
; Output columns
;	1	seq_id
;	2	ft_type
;	3	ft_name
;	4	strand
;	5	start
;	6	end
;	7	sequence
;	8	weight
#seq_id	ft_type	ft_name	strand	start	end	sequence	weight	Pval	ln_Pval	sig	rank	rank_pm
AT2G44050|Arabidopsis_thaliana.TAIR10.60|COS1	limit	START_END	D	-251	-1	.	0	0	0	0
GSBRNA2T00101444001|Brassica_napus.AST_PRJEB5043_v1.60|BnaC03g24640D	limit	START_END	D	-336	-1	.	0	0	0	0
GSBRNA2T00139024001|Brassica_napus.AST_PRJEB5043_v1.60|BnaA03g20600D	limit	START_END	D	-384	-1	.	0	0	0	0
GLYMA_08G087500|Glycine_max.Glycine_max_v2.1.60|GLYMA_08G087500	limit	START_END	D	-1701	-1	.	0	0	0	0
gene-Lalb_Chr13g0292401|Lupinus_albus.CNRS_Lalb_10.GCA_009771035.1.NCBI|gene-Lalb_Chr13g0292401	limit	START_END	D	-1701	-1	.	0	0	0	0
Prudul26B014047|Prunus_dulcis.ALMONDv2.60|Prudul26B014047	limit	START_END	D	-343	-1	.	0	0	0	0
PRUPE_7G270800|Prunus_persica.Prunus_persica_NCBIv2.60|PRUPE_7G270800	limit	START_END	D	-201	-1	.	0	0	0	0
Solyc08g015660.ITAG4.0|Solanum_lycopersicum.ITAG4.0.JGI|Solyc08g015660.ITAG4.0	limit	START_END	D	-1701	-1	.	0	0	0	0
Solyc08g015660.ITAG4.0|Solanum_lycopersicum.ITAG4.0.JGI|Solyc08g015660.ITAG4.0	site	oligos_6-8nt_m1oligos_6-8nt_m1	D	-693	-680	ACTGCATGCCATCT	8.2	4.1e-05	-10.109	4.390	1	1
;
; Matrices
;	matrix	name                          	ncol	nrow	pseudo	Wmin	Wmax	Wrange
;	1	oligos_6-8nt_m1oligos_6-8nt_m1	14	4	1	-24.100	12.400	36.500	a:0.324 c:0.185 g:0.151 t:0.341 
; Number of sequences scanned	8
; Sum of sequence lengths	6618
; N residues           	1277
; Matches per matrix
;	matrix	name                          	matches	scored
;	1	oligos_6-8nt_m1oligos_6-8nt_m1	1	13028
;		TOTAL          	1	13028
; Host name	rsat
; Job started	2026-07-22.164404
; Job done	2026-07-22.164405
; Seconds	1.61
;	user	1.61
;	system	0.03
;	cuser	0.1
;	csystem	0.01