; matrix-scan  -v 1 -matrix_format transfac -m $RSAT/public_html/tmp/www-data/2026/06/17/matrix-scan_2026-06-17.025335_A43cvy.matrix -pseudo 1 -decimals 1 -2str -origin end -offset -200 -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/2026/06/17/tmp_sequence_2026-06-17.025335_sd6N8m.fasta -seq_format fasta -n score
; Slow counting mode            
; Input files
;	input	$RSAT/public_html/tmp/www-data/2026/06/17/tmp_sequence_2026-06-17.025335_sd6N8m.fasta
; Matrix files
;	matrix 1	$RSAT/public_html/tmp/www-data/2026/06/17/matrix-scan_2026-06-17.025335_A43cvy.matrix
; Sequence format      	fasta
; Pseudo counts        	1
; Background model
;	Method        	input
;	Markov order  	1
;	Strand        	undef
;	Background pseudo-frequency	0.01
;	Residue probabilities
;		a	0.33779
;		c	0.20939
;		g	0.14334
;		t	0.30948
; 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
BVRB_3g059400|Beta_vulgaris.RefBeet-1.2.2.60|BVRB_3g059400	limit	START_END	D	-255	199	.	0	0	0	0
BVRB_3g059400|Beta_vulgaris.RefBeet-1.2.2.60|BVRB_3g059400	site	oligos_6-8nt_m2oligos_6-8nt_m2	R	-137	-126	AATCATGCCTTT	9.3	1.2e-05	-11.300	4.907	1	1
BVRB_4g096340|Beta_vulgaris.RefBeet-1.2.2.60|BVRB_4g096340	limit	START_END	D	-501	199	.	0	0	0	0
T459_03445|Capsicum_annuum.ASM51225v2.60|T459_03445	limit	START_END	D	-501	199	.	0	0	0	0
T459_31204|Capsicum_annuum.ASM51225v2.60|T459_31204	limit	START_END	D	-501	199	.	0	0	0	0
T459_31204|Capsicum_annuum.ASM51225v2.60|T459_31204	site	oligos_6-8nt_m2oligos_6-8nt_m2	D	-121	-110	TTTCATGCCACT	9.1	2.0e-05	-10.822	4.700	1	1
AUR62023693.v1.0|Chenopodium_quinoa.PI614886.392.v1.JGI|AUR62023693.v1.0	limit	START_END	D	-501	199	.	0	0	0	0
AUR62023693.v1.0|Chenopodium_quinoa.PI614886.392.v1.JGI|AUR62023693.v1.0	site	oligos_6-8nt_m2oligos_6-8nt_m2	R	-106	-95	ATTCATGCCTTT	9.4	9.8e-06	-11.538	5.011	1	1
AUR62023693.v1.0|Chenopodium_quinoa.PI614886.392.v1.JGI|AUR62023693.v1.0	site	oligos_6-8nt_m2oligos_6-8nt_m2	D	-61	-50	AAGCATGCCGCT	8.5	4.9e-05	-9.934	4.314	2	2
Cla97C08G153070|Citrullus_lanatus.Cla97_v1.62|Cla97C08G153070	limit	START_END	D	-501	199	.	0	0	0	0
MELO3C011439.2|Cucumis_melo.Melonv4.60|MELO3C011439.2	limit	START_END	D	-501	199	.	0	0	0	0
Csa_6G366300|Cucumis_sativus.ASM407v2.60|Csa_6G366300	limit	START_END	D	-501	199	.	0	0	0	0
HanXRQr2_Chr13g0574171|Helianthus_annuus.HanXRQr2.0-SUNRISE.60|HanXRQr2_Chr13g0574171	limit	START_END	D	-501	199	.	0	0	0	0
HanXRQr2_Chr13g0574181|Helianthus_annuus.HanXRQr2.0-SUNRISE.60|HanXRQr2_Chr13g0574181	limit	START_END	D	-501	199	.	0	0	0	0
gene-LSAT_8X33320|Lactuca_sativa.Lsat_Salinas_v7.60|gene-LSAT_8X33320	limit	START_END	D	-501	199	.	0	0	0	0
gene-LSAT_8X33320|Lactuca_sativa.Lsat_Salinas_v7.60|gene-LSAT_8X33320	site	oligos_6-8nt_m2oligos_6-8nt_m2	D	-200	-189	AAACATGCCAAT	8.8	3.2e-05	-10.348	4.494	1	1
gene25542|Medicago_truncatula.MtrunA17r50ANR.60|gene25542	limit	START_END	D	-501	199	.	0	0	0	0
107761937|Nicotiana_tabacum_GCF_000715075.1_ASM71507v2|LOC107761937	limit	START_END	D	-501	199	.	0	0	0	0
107761937|Nicotiana_tabacum_GCF_000715075.1_ASM71507v2|LOC107761937	site	oligos_6-8nt_m2oligos_6-8nt_m2	R	-132	-121	TCTCATGCCTTT	8.6	4.3e-05	-10.065	4.371	1	1
107793142|Nicotiana_tabacum_GCF_000715075.1_ASM71507v2|LOC107793142	limit	START_END	D	-501	199	.	0	0	0	0
107793142|Nicotiana_tabacum_GCF_000715075.1_ASM71507v2|LOC107793142	site	oligos_6-8nt_m2oligos_6-8nt_m2	D	62	73	GGACATGCCAAG	8.0	7.9e-05	-9.441	4.100	1	1
107759548|Nicotiana_tabacum_GCF_000715075.1_ASM71507v2|LOC107759548	limit	START_END	D	-501	199	.	0	0	0	0
107759548|Nicotiana_tabacum_GCF_000715075.1_ASM71507v2|LOC107759548	site	oligos_6-8nt_m2oligos_6-8nt_m2	D	-44	-33	GGACATGCCGAG	8.3	6.0e-05	-9.721	4.222	1	1
107759548|Nicotiana_tabacum_GCF_000715075.1_ASM71507v2|LOC107759548	site	oligos_6-8nt_m2oligos_6-8nt_m2	R	-53	-42	TCCCATGCCTTT	7.8	9.5e-05	-9.264	4.023	2	2
107812499|Nicotiana_tabacum_GCF_000715075.1_ASM71507v2|LOC107812499	limit	START_END	D	-501	199	.	0	0	0	0
107812499|Nicotiana_tabacum_GCF_000715075.1_ASM71507v2|LOC107812499	site	oligos_6-8nt_m2oligos_6-8nt_m2	R	-116	-105	TCCCATGCCTTT	7.8	9.5e-05	-9.264	4.023	1	1
gene-LOC110794951|Spinacia_oleracea.GCF020520425.1.RefSeq|gene-LOC110794951	limit	START_END	D	-501	199	.	0	0	0	0
gene-LOC110794951|Spinacia_oleracea.GCF020520425.1.RefSeq|gene-LOC110794951	site	oligos_6-8nt_m2oligos_6-8nt_m2	R	1	12	TTTCATGCCTTT	8.9	2.6e-05	-10.553	4.583	1	1
;
; Matrices
;	matrix	name                          	ncol	nrow	pseudo	Wmin	Wmax	Wrange
;	1	oligos_6-8nt_m2oligos_6-8nt_m2	12	4	1	-23.000	10.800	33.800	a:0.338 c:0.209 g:0.143 t:0.309 
; Number of sequences scanned	17
; Sum of sequence lengths	11671
; N residues           	2211
; Matches per matrix
;	matrix	name                          	matches	scored
;	1	oligos_6-8nt_m2oligos_6-8nt_m2	11	22968
;		TOTAL          	11	22968
; Host name	rsat
; Job started	2026-06-17.025335
; Job done	2026-06-17.025337
; Seconds	2.14
;	user	2.14
;	system	0.02
;	cuser	0.09
;	csystem	0.03