; matrix-scan  -v 1 -matrix_format transfac -m $RSAT/public_html/tmp/www-data/2026/07/22/matrix-scan_2026-07-22.164002_OT4Uqe.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_2026-07-22.164002_jtmar1.fasta -seq_format fasta -n score
; Slow counting mode            
; Input files
;	input	$RSAT/public_html/tmp/www-data/2026/07/22/tmp_sequence_2026-07-22.164002_jtmar1.fasta
; Matrix files
;	matrix 1	$RSAT/public_html/tmp/www-data/2026/07/22/matrix-scan_2026-07-22.164002_OT4Uqe.matrix
; Sequence format      	fasta
; Pseudo counts        	1
; Background model
;	Method        	input
;	Markov order  	1
;	Strand        	undef
;	Background pseudo-frequency	0.01
;	Residue probabilities
;		a	0.33094
;		c	0.18574
;		g	0.16059
;		t	0.32273
; 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
AT3G13610|Arabidopsis_thaliana.TAIR10.60|F6'H1	limit	START_END	D	-1701	-1	.	0	0	0	0
GSBRNA2T00023848001|Brassica_napus.AST_PRJEB5043_v1.60|BnaC05g39690D	limit	START_END	D	-1648	-1	.	0	0	0	0
GSBRNA2T00023848001|Brassica_napus.AST_PRJEB5043_v1.60|BnaC05g39690D	site	oligos_6-8nt_m1oligos_6-8nt_m1	D	-1083	-1070	AGTCCATGCCTCTC	8.4	3.1e-05	-10.371	4.504	1	1
GSBRNA2T00023848001|Brassica_napus.AST_PRJEB5043_v1.60|BnaC05g39690D	site	oligos_6-8nt_m1oligos_6-8nt_m1	D	-338	-325	GAAGCATGCCATAT	8.3	3.5e-05	-10.263	4.457	2	2
GSBRNA2T00104708001|Brassica_napus.AST_PRJEB5043_v1.60|BnaA05g25780D	limit	START_END	D	-1701	-1	.	0	0	0	0
GSBRNA2T00104708001|Brassica_napus.AST_PRJEB5043_v1.60|BnaA05g25780D	site	oligos_6-8nt_m1oligos_6-8nt_m1	D	-1091	-1078	AGTCCATGCCTCTC	8.4	3.1e-05	-10.371	4.504	1	1
GSBRNA2T00104708001|Brassica_napus.AST_PRJEB5043_v1.60|BnaA05g25780D	site	oligos_6-8nt_m1oligos_6-8nt_m1	D	-338	-325	GAAGCATGCCATCT	7.7	6.7e-05	-9.616	4.176	2	2
GSBRNA2T00123637001|Brassica_napus.AST_PRJEB5043_v1.60|BnaC03g38030D	limit	START_END	D	-1701	-1	.	0	0	0	0
GSBRNA2T00137685001|Brassica_napus.AST_PRJEB5043_v1.60|BnaA03g32900D	limit	START_END	D	-1659	-1	.	0	0	0	0
A03p040480.1_BraROA|Brassica_rapa_ro18.SCU_BraROA_2.3.60|A03p040480.1_BraROA	limit	START_END	D	-1626	-1	.	0	0	0	0
GLYMA_07G124400|Glycine_max.Glycine_max_v2.1.60|GLYMA_07G124400	limit	START_END	D	-1701	-1	.	0	0	0	0
GLYMA_07G124400|Glycine_max.Glycine_max_v2.1.60|GLYMA_07G124400	site	oligos_6-8nt_m1oligos_6-8nt_m1	D	-463	-450	GTTGCATGCCCCAC	7.4	8.8e-05	-9.342	4.057	1	1
gene-Lalb_Chr13g0290931|Lupinus_albus.CNRS_Lalb_10.GCA_009771035.1.NCBI|gene-Lalb_Chr13g0290931	limit	START_END	D	-1701	-1	.	0	0	0	0
107763182|Nicotiana_tabacum_GCF_000715075.1_ASM71507v2|LOC107763182	limit	START_END	D	-1701	-1	.	0	0	0	0
107785648|Nicotiana_tabacum_GCF_000715075.1_ASM71507v2|LOC107785648	limit	START_END	D	-1701	-1	.	0	0	0	0
107796566|Nicotiana_tabacum_GCF_000715075.1_ASM71507v2|LOC107796566	limit	START_END	D	-1701	-1	.	0	0	0	0
107796566|Nicotiana_tabacum_GCF_000715075.1_ASM71507v2|LOC107796566	site	oligos_6-8nt_m1oligos_6-8nt_m1	R	-62	-49	ACTCCATGCCCTTC	7.3	9.6e-05	-9.251	4.018	1	1
107787976|Nicotiana_tabacum_GCF_000715075.1_ASM71507v2|LOC107787976	limit	START_END	D	-1701	-1	.	0	0	0	0
Prudul26B000915|Prunus_dulcis.ALMONDv2.60|Prudul26B000915	limit	START_END	D	-973	-1	.	0	0	0	0
PRUPE_6G006000|Prunus_persica.Prunus_persica_NCBIv2.60|PRUPE_6G006000	limit	START_END	D	-433	-1	.	0	0	0	0
Solyc11g072100.ITAG4.0|Solanum_lycopersicum.ITAG4.0.JGI|Solyc11g072100.ITAG4.0	limit	START_END	D	-1701	-1	.	0	0	0	0
AT3G12900|Arabidopsis_thaliana.TAIR10.60|AT3G12900	limit	START_END	D	-1701	-1	.	0	0	0	0
AT3G12900|Arabidopsis_thaliana.TAIR10.60|AT3G12900	site	oligos_6-8nt_m1oligos_6-8nt_m1	R	-32	-19	CTTTCACGCCGTTA	9.1	1.4e-05	-11.204	4.866	1	1
GSBRNA2T00000146001|Brassica_napus.AST_PRJEB5043_v1.60|BnaA05g26300D	limit	START_END	D	-1701	-1	.	0	0	0	0
GSBRNA2T00000146001|Brassica_napus.AST_PRJEB5043_v1.60|BnaA05g26300D	site	oligos_6-8nt_m1oligos_6-8nt_m1	R	-774	-761	GCGTCATGCCATTC	9.3	1.0e-05	-11.480	4.986	1	1
GSBRNA2T00000146001|Brassica_napus.AST_PRJEB5043_v1.60|BnaA05g26300D	site	oligos_6-8nt_m1oligos_6-8nt_m1	R	-1283	-1270	GAGCCATGCCTCTC	8.2	3.9e-05	-10.142	4.405	2	2
GSBRNA2T00020767001|Brassica_napus.AST_PRJEB5043_v1.60|BnaC03g73310D	limit	START_END	D	-1701	-1	.	0	0	0	0
GSBRNA2T00020767001|Brassica_napus.AST_PRJEB5043_v1.60|BnaC03g73310D	site	oligos_6-8nt_m1oligos_6-8nt_m1	R	-145	-132	CCTTCACGCCGTTA	8.6	2.5e-05	-10.583	4.596	1	1
GSBRNA2T00020768001|Brassica_napus.AST_PRJEB5043_v1.60|BnaC03g73320D	limit	START_END	D	-1701	-1	.	0	0	0	0
GSBRNA2T00020768001|Brassica_napus.AST_PRJEB5043_v1.60|BnaC03g73320D	site	oligos_6-8nt_m1oligos_6-8nt_m1	R	-145	-132	CCTTCACGCCGTTA	8.6	2.5e-05	-10.583	4.596	1	1
GSBRNA2T00026360001|Brassica_napus.AST_PRJEB5043_v1.60|BnaC01g38190D	limit	START_END	D	-1701	-1	.	0	0	0	0
GSBRNA2T00026360001|Brassica_napus.AST_PRJEB5043_v1.60|BnaC01g38190D	site	oligos_6-8nt_m1oligos_6-8nt_m1	D	-692	-679	TCTCCATGCCACAT	7.8	6.0e-05	-9.715	4.219	1	1
A01p052810.1_BraROA|Brassica_rapa_ro18.SCU_BraROA_2.3.60|A01p052810.1_BraROA	limit	START_END	D	-1701	-1	.	0	0	0	0
A03p039990.1_BraROA|Brassica_rapa_ro18.SCU_BraROA_2.3.60|A03p039990.1_BraROA	limit	START_END	D	-1701	-1	.	0	0	0	0
A05p046620.1_BraROA|Brassica_rapa_ro18.SCU_BraROA_2.3.60|A05p046620.1_BraROA	limit	START_END	D	-1701	-1	.	0	0	0	0
A05p046620.1_BraROA|Brassica_rapa_ro18.SCU_BraROA_2.3.60|A05p046620.1_BraROA	site	oligos_6-8nt_m1oligos_6-8nt_m1	R	-734	-721	GCGTCATGCCATTC	9.3	1.0e-05	-11.480	4.986	1	1
A05p046620.1_BraROA|Brassica_rapa_ro18.SCU_BraROA_2.3.60|A05p046620.1_BraROA	site	oligos_6-8nt_m1oligos_6-8nt_m1	R	-998	-985	GAGCCATGCCTCTC	8.2	3.9e-05	-10.142	4.405	2	2
GLYMA_08G169100|Glycine_max.Glycine_max_v2.1.60|GLYMA_08G169100	limit	START_END	D	-1701	-1	.	0	0	0	0
gene-Lalb_Chr20g0108651|Lupinus_albus.CNRS_Lalb_10.GCA_009771035.1.NCBI|gene-Lalb_Chr20g0108651	limit	START_END	D	-1701	-1	.	0	0	0	0
gene-Lalb_Chr01g0015881|Lupinus_albus.CNRS_Lalb_10.GCA_009771035.1.NCBI|gene-Lalb_Chr01g0015881	limit	START_END	D	-1701	-1	.	0	0	0	0
107821681|Nicotiana_tabacum_GCF_000715075.1_ASM71507v2|LOC107821681	limit	START_END	D	-1701	-1	.	0	0	0	0
107821681|Nicotiana_tabacum_GCF_000715075.1_ASM71507v2|LOC107821681	site	oligos_6-8nt_m1oligos_6-8nt_m1	D	-1683	-1670	GGCTCATGCCTTTT	9.6	7.1e-06	-11.859	5.150	1	1
107821681|Nicotiana_tabacum_GCF_000715075.1_ASM71507v2|LOC107821681	site	oligos_6-8nt_m1oligos_6-8nt_m1	D	-1031	-1018	GAATCATGCCTTTA	9.1	1.4e-05	-11.204	4.866	2	2
Prudul26B035414|Prunus_dulcis.ALMONDv2.60|Prudul26B035414	limit	START_END	D	-1701	-1	.	0	0	0	0
PRUPE_4G138300|Prunus_persica.Prunus_persica_NCBIv2.60|PRUPE_4G138300	limit	START_END	D	-1701	-1	.	0	0	0	0
AT4G31940|Arabidopsis_thaliana.TAIR10.60|CYP82C4	limit	START_END	D	-1269	-1	.	0	0	0	0
AT4G31940|Arabidopsis_thaliana.TAIR10.60|CYP82C4	site	oligos_6-8nt_m1oligos_6-8nt_m1	R	-920	-907	CATTCATGCGGTAT	8.2	3.9e-05	-10.142	4.405	1	1
GSBRNA2T00011262001|Brassica_napus.AST_PRJEB5043_v1.60|BnaC03g67210D	limit	START_END	D	-1701	-1	.	0	0	0	0
GSBRNA2T00021899001|Brassica_napus.AST_PRJEB5043_v1.60|BnaA08g12300D	limit	START_END	D	-1701	-1	.	0	0	0	0
A08p025520.1_BraROA|Brassica_rapa_ro18.SCU_BraROA_2.3.60|A08p025520.1_BraROA	limit	START_END	D	-1701	-1	.	0	0	0	0
GLYMA_04G035600|Glycine_max.Glycine_max_v2.1.60|GLYMA_04G035600	limit	START_END	D	-1701	-1	.	0	0	0	0
GLYMA_04G035600|Glycine_max.Glycine_max_v2.1.60|GLYMA_04G035600	site	oligos_6-8nt_m1oligos_6-8nt_m1	R	-408	-395	TATTCATGCCACTT	9.3	1.0e-05	-11.480	4.986	1	1
GLYMA_04G035600|Glycine_max.Glycine_max_v2.1.60|GLYMA_04G035600	site	oligos_6-8nt_m1oligos_6-8nt_m1	R	-287	-274	GAAGCATGCCGTGT	9.3	1.0e-05	-11.480	4.986	2	2
gene-Lalb_Chr23g0266791|Lupinus_albus.CNRS_Lalb_10.GCA_009771035.1.NCBI|gene-Lalb_Chr23g0266791	limit	START_END	D	-1701	-1	.	0	0	0	0
107782393|Nicotiana_tabacum_GCF_000715075.1_ASM71507v2|LOC107782393	limit	START_END	D	-1701	-1	.	0	0	0	0
107782393|Nicotiana_tabacum_GCF_000715075.1_ASM71507v2|LOC107782393	site	oligos_6-8nt_m1oligos_6-8nt_m1	D	-418	-405	GTACCATGCCGTTA	10.7	1.3e-06	-13.590	5.902	1	1
107790829|Nicotiana_tabacum_GCF_000715075.1_ASM71507v2|LOC107790829	limit	START_END	D	-1701	-1	.	0	0	0	0
107790829|Nicotiana_tabacum_GCF_000715075.1_ASM71507v2|LOC107790829	site	oligos_6-8nt_m1oligos_6-8nt_m1	D	-536	-523	GTACCATGCCGTTA	10.7	1.3e-06	-13.590	5.902	1	1
Prudul26B028905|Prunus_dulcis.ALMONDv2.60|Prudul26B028905	limit	START_END	D	-1032	-1	.	0	0	0	0
PRUPE_1G387700|Prunus_persica.Prunus_persica_NCBIv2.60|PRUPE_1G387700	limit	START_END	D	-998	-1	.	0	0	0	0
gene:Solyc12g088970.1.ITAG4.0|Solanum_lycopersicum.ITAG4.0.JGI|gene:Solyc12g088970.1.ITAG4.0	limit	START_END	D	-1464	-1	.	0	0	0	0
gene:Solyc12g088970.1.ITAG4.0|Solanum_lycopersicum.ITAG4.0.JGI|gene:Solyc12g088970.1.ITAG4.0	site	oligos_6-8nt_m1oligos_6-8nt_m1	D	-343	-330	GCACCATGCCATTA	8.0	4.9e-05	-9.925	4.310	1	1
AT1G28680|Arabidopsis_thaliana.TAIR10.60|AT1G28680	limit	START_END	D	-201	-1	.	0	0	0	0
GSBRNA2T00056005001|Brassica_napus.AST_PRJEB5043_v1.60|BnaA09g27140D	limit	START_END	D	-1701	-1	.	0	0	0	0
GSBRNA2T00056005001|Brassica_napus.AST_PRJEB5043_v1.60|BnaA09g27140D	site	oligos_6-8nt_m1oligos_6-8nt_m1	R	-451	-438	CACTCATGCCATCG	7.4	8.8e-05	-9.342	4.057	1	1
GSBRNA2T00046289001|Brassica_napus.AST_PRJEB5043_v1.60|BnaC05g22050D	limit	START_END	D	-1701	-1	.	0	0	0	0
GSBRNA2T00046289001|Brassica_napus.AST_PRJEB5043_v1.60|BnaC05g22050D	site	oligos_6-8nt_m1oligos_6-8nt_m1	R	-479	-466	CACTCATGCCATCG	7.4	8.8e-05	-9.342	4.057	1	1
A09p048520.1_BraROA|Brassica_rapa_ro18.SCU_BraROA_2.3.60|A09p048520.1_BraROA	limit	START_END	D	-1701	-1	.	0	0	0	0
A09p048520.1_BraROA|Brassica_rapa_ro18.SCU_BraROA_2.3.60|A09p048520.1_BraROA	site	oligos_6-8nt_m1oligos_6-8nt_m1	R	-451	-438	CACTCATGCCATCG	7.4	8.8e-05	-9.342	4.057	1	1
GLYMA_13G232400|Glycine_max.Glycine_max_v2.1.60|GLYMA_13G232400	limit	START_END	D	-1701	-1	.	0	0	0	0
GLYMA_13G232400|Glycine_max.Glycine_max_v2.1.60|GLYMA_13G232400	site	oligos_6-8nt_m1oligos_6-8nt_m1	D	-54	-41	GAGTCATGCCATGC	8.4	3.1e-05	-10.371	4.504	1	1
gene-Lalb_Chr20g0121341|Lupinus_albus.CNRS_Lalb_10.GCA_009771035.1.NCBI|gene-Lalb_Chr20g0121341	limit	START_END	D	-1640	-1	.	0	0	0	0
107773785|Nicotiana_tabacum_GCF_000715075.1_ASM71507v2|LOC107773785	limit	START_END	D	-1701	-1	.	0	0	0	0
Prudul26B009025|Prunus_dulcis.ALMONDv2.60|Prudul26B009025	limit	START_END	D	-1323	-1	.	0	0	0	0
Prudul26B009025|Prunus_dulcis.ALMONDv2.60|Prudul26B009025	site	oligos_6-8nt_m1oligos_6-8nt_m1	R	-279	-266	GGGGCATGCCGCAC	9.3	1.0e-05	-11.480	4.986	1	1
PRUPE_4G057600|Prunus_persica.Prunus_persica_NCBIv2.60|PRUPE_4G057600	limit	START_END	D	-545	-1	.	0	0	0	0
PRUPE_4G057600|Prunus_persica.Prunus_persica_NCBIv2.60|PRUPE_4G057600	site	oligos_6-8nt_m1oligos_6-8nt_m1	R	-315	-302	ATTGCATGCCCTTT	7.8	6.0e-05	-9.715	4.219	1	1
Solyc04g079720.ITAG4.0|Solanum_lycopersicum.ITAG4.0.JGI|Solyc04g079720.ITAG4.0	limit	START_END	D	-1701	-1	.	0	0	0	0
;
; Matrices
;	matrix	name                          	ncol	nrow	pseudo	Wmin	Wmax	Wrange
;	1	oligos_6-8nt_m1oligos_6-8nt_m1	14	4	1	-24.200	12.500	36.700	a:0.331 c:0.186 g:0.161 t:0.323 
; Number of sequences scanned	50
; Sum of sequence lengths	77748
; N residues           	13976
; Matches per matrix
;	matrix	name                          	matches	scored
;	1	oligos_6-8nt_m1oligos_6-8nt_m1	28	154196
;		TOTAL          	28	154196
; Host name	rsat
; Job started	2026-07-22.164002
; Job done	2026-07-22.164015
; Seconds	13.13
;	user	13.13
;	system	0.03
;	cuser	0.12
;	csystem	0.01