; matrix-scan  -v 1 -quick -matrix_format transfac -m $RSAT/public_html/tmp/www-data/2026/07/27/matrix-scan_2026-07-27.095424_eA4VOO.matrix -pseudo 1 -decimals 1 -2str -origin end -bginput -markov 1 -bg_pseudo 0.01 -return limits -return sites -lth score 4 -i $RSAT/public_html/tmp/www-data/2026/07/27/tmp_sequence_2026-07-27.095424_DgI9Be.fasta -seq_format fasta -n score
; Quick counting mode           
; Input files
;	input	$RSAT/public_html/tmp/www-data/2026/07/27/tmp_sequence_2026-07-27.095424_DgI9Be.fasta
; Matrix files
;	matrix 1	$RSAT/public_html/tmp/www-data/2026/07/27/matrix-scan_2026-07-27.095424_eA4VOO.matrix
; Sequence format      	fasta
; Pseudo counts        	1
; Background model
;	Method        	input
;	Markov order  	1
;	Strand        	undef
;	Background pseudo-frequency	0.01
;	Residue probabilities
;		a	0.32945
;		c	0.17469
;		g	0.17085
;		t	0.32502
; Thresholds	lower	upper
;	score 	4    	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
AT2G20690|Arabidopsis_thaliana.TAIR10.60|AT2G20690	limit	START_END	D	-278	-1	.	0
GSBRNA2T00050728001|Brassica_napus.AST_PRJEB5043_v1.60|BnaA07g00510D	limit	START_END	D	-1126	-1	.	0
GSBRNA2T00120865001|Brassica_napus.AST_PRJEB5043_v1.60|BnaC07g00180D	limit	START_END	D	-1701	-1	.	0
A07p000150.1_BraROA|Brassica_rapa_ro18.SCU_BraROA_2.3.60|A07p000150.1_BraROA	limit	START_END	D	-1398	-1	.	0
GLYMA_12G112900|Glycine_max.Glycine_max_v2.1.60|GLYMA_12G112900	limit	START_END	D	-1701	-1	.	0
gene-Lalb_Chr03g0029441|Lupinus_albus.CNRS_Lalb_10.GCA_009771035.1.NCBI|gene-Lalb_Chr03g0029441	limit	START_END	D	-1701	-1	.	0
Prudul26B017349|Prunus_dulcis.ALMONDv2.60|Prudul26B017349	limit	START_END	D	-1701	-1	.	0
PRUPE_3G137500|Prunus_persica.Prunus_persica_NCBIv2.60|PRUPE_3G137500	limit	START_END	D	-1701	-1	.	0
Solyc07g054190.ITAG4.0|Solanum_lycopersicum.ITAG4.0.JGI|Solyc07g054190.ITAG4.0	limit	START_END	D	-1701	-1	.	0
GSBRNA2T00120865001|Brassica_napus.AST_PRJEB5043_v1.60|BnaC07g00180D	site	oligos_6-8nt_m2oligos_6-8nt_m2	D	-1358	-1347	TCACCCGCCCGT	4.0
GSBRNA2T00120865001|Brassica_napus.AST_PRJEB5043_v1.60|BnaC07g00180D	site	oligos_6-8nt_m2oligos_6-8nt_m2	R	-594	-583	CAACATGCCGCA	6.1
GSBRNA2T00120865001|Brassica_napus.AST_PRJEB5043_v1.60|BnaC07g00180D	site	oligos_6-8nt_m2oligos_6-8nt_m2	R	-162	-151	AACCCTGCCCAA	4.5
GSBRNA2T00120865001|Brassica_napus.AST_PRJEB5043_v1.60|BnaC07g00180D	site	oligos_6-8nt_m2oligos_6-8nt_m2	R	-56	-45	GTTCGTGCCGTG	5.4
GLYMA_12G112900|Glycine_max.Glycine_max_v2.1.60|GLYMA_12G112900	site	oligos_6-8nt_m2oligos_6-8nt_m2	D	-1571	-1560	TAACATGCGCAC	4.4
GLYMA_12G112900|Glycine_max.Glycine_max_v2.1.60|GLYMA_12G112900	site	oligos_6-8nt_m2oligos_6-8nt_m2	R	-907	-896	TCTCCTGCCGAA	6.1
gene-Lalb_Chr03g0029441|Lupinus_albus.CNRS_Lalb_10.GCA_009771035.1.NCBI|gene-Lalb_Chr03g0029441	site	oligos_6-8nt_m2oligos_6-8nt_m2	R	-1634	-1623	AATCATGTCATT	4.8
gene-Lalb_Chr03g0029441|Lupinus_albus.CNRS_Lalb_10.GCA_009771035.1.NCBI|gene-Lalb_Chr03g0029441	site	oligos_6-8nt_m2oligos_6-8nt_m2	D	-807	-796	TATCAAGCCAAA	6.8
Prudul26B017349|Prunus_dulcis.ALMONDv2.60|Prudul26B017349	site	oligos_6-8nt_m2oligos_6-8nt_m2	D	-757	-746	ACCCATGCCCCT	6.5
Prudul26B017349|Prunus_dulcis.ALMONDv2.60|Prudul26B017349	site	oligos_6-8nt_m2oligos_6-8nt_m2	R	-719	-708	AAGCAGGCCTAA	4.4
Prudul26B017349|Prunus_dulcis.ALMONDv2.60|Prudul26B017349	site	oligos_6-8nt_m2oligos_6-8nt_m2	R	-669	-658	GTTCAAGCCATA	6.8
PRUPE_3G137500|Prunus_persica.Prunus_persica_NCBIv2.60|PRUPE_3G137500	site	oligos_6-8nt_m2oligos_6-8nt_m2	R	-1549	-1538	CCACATGCCTCA	4.6
PRUPE_3G137500|Prunus_persica.Prunus_persica_NCBIv2.60|PRUPE_3G137500	site	oligos_6-8nt_m2oligos_6-8nt_m2	D	-579	-568	ACCCATGCCCCT	6.5
PRUPE_3G137500|Prunus_persica.Prunus_persica_NCBIv2.60|PRUPE_3G137500	site	oligos_6-8nt_m2oligos_6-8nt_m2	R	-541	-530	AAGCAGGCCTAA	4.4
PRUPE_3G137500|Prunus_persica.Prunus_persica_NCBIv2.60|PRUPE_3G137500	site	oligos_6-8nt_m2oligos_6-8nt_m2	R	-491	-480	GTTCAAGCCATA	6.8
;
; Matrices
;	matrix	name                          	ncol	nrow	pseudo	Wmin	Wmax	Wrange
;	1	oligos_6-8nt_m2oligos_6-8nt_m2	12	4	0	-26.200	10.600	36.800	a:0.329 c:0.175 g:0.171 t:0.325 
; Number of sequences scanned	9
; Sum of sequence lengths	13008
; N residues           	4775
; Matches per matrix
;	matrix	name                          	matches	scored
;	1	oligos_6-8nt_m2oligos_6-8nt_m2	15	0
;		TOTAL          	15	0
; Host name	rsat
; Job started	2026-07-27.095425
; Job done	2026-07-27.095425
; Seconds	0.15
;	user	0.15
;	system	0.03
;	cuser	0.1
;	csystem	0.03