; matrix-scan  -v 1 -quick -matrix_format jaspar -m $RSAT/public_html/tmp/www-data/2026/06/18/matrix-scan_2026-06-18.061008_CBTwYE.matrix -pseudo 1 -decimals 1 -2str -origin end -bginput -markov 1 -bg_pseudo 0.01 -return limits -return pval -uth pval 0.001 -i $RSAT/public_html/tmp/www-data/2026/06/18/tmp_sequence_2026-06-18.061008_9ENqlF.fasta -seq_format fasta -n score
; Quick counting mode           
; Input files
;	input	$RSAT/public_html/tmp/www-data/2026/06/18/tmp_sequence_2026-06-18.061008_9ENqlF.fasta
; Matrix files
;	matrix 1	$RSAT/public_html/tmp/www-data/2026/06/18/matrix-scan_2026-06-18.061008_CBTwYE.matrix
; Sequence format      	fasta
; Pseudo counts        	1
; Background model
;	Method        	input
;	Markov order  	1
;	Strand        	undef
;	Background pseudo-frequency	0.01
;	Residue probabilities
;		a	0.29954
;		c	0.20837
;		g	0.22298
;		t	0.26911
; Thresholds	lower	upper
;	pval  	NA	0.001
; 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
ref|NC_138300.1|:c75602370-75600370	limit	START_END	D	-2001	-1	.	0	0	0	0
ref|NC_138300.1|:c75602370-75600370	site	NFE2L2	R	-32	-22	ATGACTAAGAC	5.2	4.6e-04	-7.684	3.337
;
; Matrices
;	matrix	name  	ncol	nrow	pseudo	Wmin	Wmax	Wrange
;	1	NFE2L2	11	4	0	-28.600	12.300	40.900	a:0.300 c:0.208 g:0.223 t:0.269 
; Number of sequences scanned	1
; Sum of sequence lengths	2001
; N residues           	0
; Matches per matrix
;	matrix	name  	matches	scored
;	1	NFE2L2         	1	0
;		TOTAL          	1	0
; Host name	rsat
; Job started	2026-06-18.061008
; Job done	2026-06-18.061009
; Seconds	0.36
;	user	0.36
;	system	0.06
;	cuser	0.49
;	csystem	0.03