; matrix-scan  -quick -v 1 -seq_format fasta -i $RSAT/public_html/tmp/www-data/2025/04/03/peak-motifs.2025-04-03.124448_2025-04-03.124448_OhsrJC/data/sequences/peak-motifs_test_maxlen1000.fasta -matrix_format transfac -m $RSAT/public_html/tmp/www-data/2025/04/03/peak-motifs.2025-04-03.124448_2025-04-03.124448_OhsrJC/results/discovered_motifs/oligos_6nt_mkv2_m4/peak-motifs_oligos_6nt_mkv2_m4.tf -bg_format inclusive -bgfile $RSAT/public_html/tmp/www-data/2025/04/03/peak-motifs.2025-04-03.124448_2025-04-03.124448_OhsrJC/results/composition/peak-motifs_test_inclusive-1str-ovlp_2nt.txt -pseudo 1 -2str -decimals 1 -bg_pseudo 0.01 -n score -lth score 7.5 -origin center -offset 0 -return sites -o $RSAT/public_html/tmp/www-data/2025/04/03/peak-motifs.2025-04-03.124448_2025-04-03.124448_OhsrJC/results/discovered_motifs/oligos_6nt_mkv2_m4/peak-motifs_oligos_6nt_mkv2_m4_sites.tab
; Quick counting mode           
; Input files
;	input	/var/www/html/rsat/public_html/tmp/www-data/2025/04/03/peak-motifs.2025-04-03.124448_2025-04-03.124448_OhsrJC/data/sequences/peak-motifs_test_maxlen1000.fasta
;	bg	/var/www/html/rsat/public_html/tmp/www-data/2025/04/03/peak-motifs.2025-04-03.124448_2025-04-03.124448_OhsrJC/results/composition/peak-motifs_test_inclusive-1str-ovlp_2nt.txt
; Matrix files
;	matrix 1	/var/www/html/rsat/public_html/tmp/www-data/2025/04/03/peak-motifs.2025-04-03.124448_2025-04-03.124448_OhsrJC/results/discovered_motifs/oligos_6nt_mkv2_m4/peak-motifs_oligos_6nt_mkv2_m4.tf
; Sequence format      	fasta
; Output files
;	output	/var/www/html/rsat/public_html/tmp/www-data/2025/04/03/peak-motifs.2025-04-03.124448_2025-04-03.124448_OhsrJC/results/discovered_motifs/oligos_6nt_mkv2_m4/peak-motifs_oligos_6nt_mkv2_m4_sites.tab
; Pseudo counts        	1
; Background model
;	Method        	file
;	Markov order  	1
;	Strand        	undef
;	Background pseudo-frequency	0.01
;	Residue probabilities
;		a	0.26461
;		c	0.24461
;		g	0.23830
;		t	0.25248
; Thresholds	lower	upper
;	score 	7.5  	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
ChrIII_A_nidulans_FGSC_A4:209815-209915(.)	site	oligos_6nt_mkv2_m4	D	3	16	ATGATGACTAATCG	12.8
ChrIII_A_nidulans_FGSC_A4:261780-261880(.)	site	oligos_6nt_mkv2_m4	D	-1	12	GCGCTGAGTCAGCA	10.8
ChrIII_A_nidulans_FGSC_A4:261780-261880(.)	site	oligos_6nt_mkv2_m4	R	0	13	ATGCTGACTCAGCG	13.8
ChrIII_A_nidulans_FGSC_A4:708640-708740(.)	site	oligos_6nt_mkv2_m4	D	-7	6	GAGATGACTAAGCA	12.2
ChrIII_A_nidulans_FGSC_A4:975153-975253(.)	site	oligos_6nt_mkv2_m4	D	-1	12	GCGGTGAGTCAGCC	8.3
ChrIII_A_nidulans_FGSC_A4:975153-975253(.)	site	oligos_6nt_mkv2_m4	R	0	13	TGGCTGACTCACCG	9.6
ChrIII_A_nidulans_FGSC_A4:1133408-1133508(.)	site	oligos_6nt_mkv2_m4	D	-12	1	ATGATGAGTCAGCA	12.8
ChrIII_A_nidulans_FGSC_A4:1133408-1133508(.)	site	oligos_6nt_mkv2_m4	R	-11	2	CTGCTGACTCATCA	11.9
ChrIII_A_nidulans_FGSC_A4:1668795-1668895(.)	site	oligos_6nt_mkv2_m4	D	7	20	TGGATGACTCAGCC	11.7
ChrIII_A_nidulans_FGSC_A4:1668795-1668895(.)	site	oligos_6nt_mkv2_m4	R	8	21	CGGCTGAGTCATCC	9.2
ChrIII_A_nidulans_FGSC_A4:1881384-1881484(.)	site	oligos_6nt_mkv2_m4	D	4	17	CGGCTGACTCAGCA	12.4
ChrIII_A_nidulans_FGSC_A4:1881384-1881484(.)	site	oligos_6nt_mkv2_m4	R	5	18	ATGCTGAGTCAGCC	11.5
ChrIII_A_nidulans_FGSC_A4:2542454-2542554(.)	site	oligos_6nt_mkv2_m4	D	1	14	AAGATTAGTAAGCA	8.3
ChrIII_A_nidulans_FGSC_A4:3063985-3064085(.)	site	oligos_6nt_mkv2_m4	D	-7	6	CGGCTGAGTCAGCA	11.1
ChrIII_A_nidulans_FGSC_A4:3063985-3064085(.)	site	oligos_6nt_mkv2_m4	R	-6	7	CTGCTGACTCAGCC	12.3
ChrII_A_nidulans_FGSC_A4:73725-73825(.)	site	oligos_6nt_mkv2_m4	R	-8	5	ATGATGACTAAGCG	13.9
ChrII_A_nidulans_FGSC_A4:242647-242747(.)	site	oligos_6nt_mkv2_m4	D	1	14	CAAATGACTCAGCA	10.1
ChrII_A_nidulans_FGSC_A4:919677-919777(.)	site	oligos_6nt_mkv2_m4	D	10	23	ATGATGACTAATCG	12.8
ChrII_A_nidulans_FGSC_A4:924615-924715(.)	site	oligos_6nt_mkv2_m4	D	-3	10	ATGATGACTAATCG	12.8
ChrII_A_nidulans_FGSC_A4:1412511-1412611(.)	site	oligos_6nt_mkv2_m4	D	-1	12	CAGATGACTAATCA	11.0
ChrII_A_nidulans_FGSC_A4:2986375-2986475(.)	site	oligos_6nt_mkv2_m4	D	-10	3	GTGATGAGTCAGCA	12.6
ChrII_A_nidulans_FGSC_A4:2986375-2986475(.)	site	oligos_6nt_mkv2_m4	R	-9	4	CTGCTGACTCATCA	11.9
ChrII_A_nidulans_FGSC_A4:3802147-3802247(.)	site	oligos_6nt_mkv2_m4	R	-16	-3	ATGATGACTAAGCG	13.9
ChrIV_A_nidulans_FGSC_A4:154106-154206(.)	site	oligos_6nt_mkv2_m4	R	-8	5	ATAATGACTAATCG	10.2
ChrIV_A_nidulans_FGSC_A4:175051-175151(.)	site	oligos_6nt_mkv2_m4	R	-18	-5	ATGATGACTAAGCG	13.9
ChrIV_A_nidulans_FGSC_A4:391146-391246(.)	site	oligos_6nt_mkv2_m4	D	-13	0	AAGCTGAGTAAGCA	10.8
ChrIV_A_nidulans_FGSC_A4:391146-391246(.)	site	oligos_6nt_mkv2_m4	R	-12	1	CTGCTTACTCAGCT	9.0
ChrIV_A_nidulans_FGSC_A4:624392-624492(.)	site	oligos_6nt_mkv2_m4	D	-4	9	TGGCTGACTCAGCC	11.1
ChrIV_A_nidulans_FGSC_A4:624392-624492(.)	site	oligos_6nt_mkv2_m4	R	-3	10	TGGCTGAGTCAGCC	9.8
ChrIV_A_nidulans_FGSC_A4:624392-624492(.)	site	oligos_6nt_mkv2_m4	D	31	44	GCGATGAGTCAGCG	11.7
ChrIV_A_nidulans_FGSC_A4:624392-624492(.)	site	oligos_6nt_mkv2_m4	R	32	45	TCGCTGACTCATCG	11.2
ChrIV_A_nidulans_FGSC_A4:721457-721557(.)	site	oligos_6nt_mkv2_m4	R	-4	9	ATAATGACTAAGCG	11.4
ChrIV_A_nidulans_FGSC_A4:1061234-1061334(.)	site	oligos_6nt_mkv2_m4	D	0	13	ATGATGACTAATCG	12.8
ChrIV_A_nidulans_FGSC_A4:1111262-1111362(.)	site	oligos_6nt_mkv2_m4	R	-9	4	ATGATGACTAATCG	12.8
ChrIV_A_nidulans_FGSC_A4:1216534-1216634(.)	site	oligos_6nt_mkv2_m4	D	9	22	ATGATGAGTAAGCC	11.6
ChrIV_A_nidulans_FGSC_A4:1216534-1216634(.)	site	oligos_6nt_mkv2_m4	R	10	23	TGGCTTACTCATCA	7.7
ChrIV_A_nidulans_FGSC_A4:1967798-1967898(.)	site	oligos_6nt_mkv2_m4	D	-6	7	GAGCTGAGTCAGCA	10.9
ChrIV_A_nidulans_FGSC_A4:1967798-1967898(.)	site	oligos_6nt_mkv2_m4	R	-5	8	CTGCTGACTCAGCT	12.0
ChrIV_A_nidulans_FGSC_A4:2767230-2767330(.)	site	oligos_6nt_mkv2_m4	D	-5	8	ATAATGACTAAGCG	11.4
ChrIV_A_nidulans_FGSC_A4:2780757-2780857(.)	site	oligos_6nt_mkv2_m4	D	8	21	ATAATGACTAAGCG	11.4
ChrI_A_nidulans_FGSC_A4:169876-169976(.)	site	oligos_6nt_mkv2_m4	D	-7	6	ATAATGACTAATCG	10.2
ChrI_A_nidulans_FGSC_A4:830603-830703(.)	site	oligos_6nt_mkv2_m4	D	-6	7	ATGCTTAGTAATCA	7.6
ChrI_A_nidulans_FGSC_A4:830603-830703(.)	site	oligos_6nt_mkv2_m4	R	-5	8	TTGATTACTAAGCA	10.1
ChrI_A_nidulans_FGSC_A4:1367603-1367703(.)	site	oligos_6nt_mkv2_m4	R	-42	-29	ATCCTGACTAAGAA	7.6
ChrI_A_nidulans_FGSC_A4:1367603-1367703(.)	site	oligos_6nt_mkv2_m4	D	-7	6	ACGATGACTCATCA	12.3
ChrI_A_nidulans_FGSC_A4:1367603-1367703(.)	site	oligos_6nt_mkv2_m4	R	-6	7	CTGATGAGTCATCG	11.5
ChrI_A_nidulans_FGSC_A4:1608149-1608249(.)	site	oligos_6nt_mkv2_m4	D	-16	-3	TTGCTGAGTCATCA	10.6
ChrI_A_nidulans_FGSC_A4:1608149-1608249(.)	site	oligos_6nt_mkv2_m4	R	-15	-2	GTGATGACTCAGCA	13.9
ChrI_A_nidulans_FGSC_A4:1691823-1691923(.)	site	oligos_6nt_mkv2_m4	D	-12	1	TAGATGACTCAGCA	12.5
ChrI_A_nidulans_FGSC_A4:1691823-1691923(.)	site	oligos_6nt_mkv2_m4	R	-11	2	TTGCTGAGTCATCT	9.6
ChrI_A_nidulans_FGSC_A4:2369050-2369150(.)	site	oligos_6nt_mkv2_m4	R	-18	-5	ATGCTGACTAAGTA	10.3
ChrI_A_nidulans_FGSC_A4:2369050-2369150(.)	site	oligos_6nt_mkv2_m4	R	1	14	ATGCTGACTAAGAT	10.4
ChrVIII_A_nidulans_FGSC_A4:895968-896068(.)	site	oligos_6nt_mkv2_m4	D	-15	-2	ATGCTTACTCAGCG	10.8
ChrVIII_A_nidulans_FGSC_A4:895968-896068(.)	site	oligos_6nt_mkv2_m4	R	-14	-1	CCGCTGAGTAAGCA	10.5
ChrVIII_A_nidulans_FGSC_A4:895968-896068(.)	site	oligos_6nt_mkv2_m4	D	34	47	AGGATCAGTCAGCG	7.8
ChrVIII_A_nidulans_FGSC_A4:895968-896068(.)	site	oligos_6nt_mkv2_m4	R	35	48	CCGCTGACTGATCC	7.6
ChrVIII_A_nidulans_FGSC_A4:1311964-1312064(.)	site	oligos_6nt_mkv2_m4	R	-5	8	ATGCTGACTAATAA	10.1
ChrVIII_A_nidulans_FGSC_A4:1570970-1571070(.)	site	oligos_6nt_mkv2_m4	R	-2	11	TAGATGACTAAGCA	12.1
ChrVIII_A_nidulans_FGSC_A4:2521812-2521912(.)	site	oligos_6nt_mkv2_m4	D	-38	-25	ATGCTGAGTCAGCT	11.2
ChrVIII_A_nidulans_FGSC_A4:2521812-2521912(.)	site	oligos_6nt_mkv2_m4	R	-37	-24	TAGCTGACTCAGCA	12.0
ChrVIII_A_nidulans_FGSC_A4:3373009-3373109(.)	site	oligos_6nt_mkv2_m4	D	-15	-2	ATGATGACTAAGCG	13.9
ChrVIII_A_nidulans_FGSC_A4:3377893-3377993(.)	site	oligos_6nt_mkv2_m4	D	-17	-4	TTGCTGAGTCATCG	10.9
ChrVIII_A_nidulans_FGSC_A4:3377893-3377993(.)	site	oligos_6nt_mkv2_m4	R	-16	-3	GCGATGACTCAGCA	12.6
ChrVIII_A_nidulans_FGSC_A4:3936747-3936847(.)	site	oligos_6nt_mkv2_m4	D	-1	12	GAGATGAGTAAGCG	11.2
ChrVIII_A_nidulans_FGSC_A4:3966635-3966735(.)	site	oligos_6nt_mkv2_m4	D	-14	-1	CTGCTGAGTAAGCG	11.6
ChrVIII_A_nidulans_FGSC_A4:3966635-3966735(.)	site	oligos_6nt_mkv2_m4	R	-13	0	CCGCTTACTCAGCA	9.2
ChrVIII_A_nidulans_FGSC_A4:4620730-4620830(.)	site	oligos_6nt_mkv2_m4	D	-2	11	CAGCTGACTAAGCC	10.8
ChrVII_A_nidulans_FGSC_A4:146517-146617(.)	site	oligos_6nt_mkv2_m4	D	-1	12	GTGATTAGTAAGCA	9.1
ChrVII_A_nidulans_FGSC_A4:146517-146617(.)	site	oligos_6nt_mkv2_m4	R	0	13	CTGCTTACTAATCA	8.4
ChrVII_A_nidulans_FGSC_A4:785691-785791(.)	site	oligos_6nt_mkv2_m4	D	0	13	TGGCTGACGCAGCA	9.0
ChrVII_A_nidulans_FGSC_A4:1173852-1173952(.)	site	oligos_6nt_mkv2_m4	D	-11	2	TTGCTTACTCAGCA	10.0
ChrVII_A_nidulans_FGSC_A4:1173852-1173952(.)	site	oligos_6nt_mkv2_m4	R	-10	3	TTGCTGAGTAAGCA	11.3
ChrVII_A_nidulans_FGSC_A4:1292728-1292828(.)	site	oligos_6nt_mkv2_m4	D	-14	-1	ATACTGACTAAGCT	9.9
ChrVII_A_nidulans_FGSC_A4:2121987-2122087(.)	site	oligos_6nt_mkv2_m4	D	-13	0	TTGCTTAGTCATCA	7.6
ChrVII_A_nidulans_FGSC_A4:2121987-2122087(.)	site	oligos_6nt_mkv2_m4	R	-12	1	GTGATGACTAAGCA	13.5
ChrVII_A_nidulans_FGSC_A4:2889234-2889334(.)	site	oligos_6nt_mkv2_m4	D	-5	8	AAGCTGACTCATCA	11.3
ChrVII_A_nidulans_FGSC_A4:2889234-2889334(.)	site	oligos_6nt_mkv2_m4	R	-4	9	CTGATGAGTCAGCT	11.3
ChrVII_A_nidulans_FGSC_A4:3585476-3585576(.)	site	oligos_6nt_mkv2_m4	D	-11	2	TTGCTGAGTCATCA	10.6
ChrVII_A_nidulans_FGSC_A4:3585476-3585576(.)	site	oligos_6nt_mkv2_m4	R	-10	3	TTGATGACTCAGCA	13.6
ChrVII_A_nidulans_FGSC_A4:3620034-3620134(.)	site	oligos_6nt_mkv2_m4	R	-6	7	TTAATGACTAATCG	9.7
ChrVI_A_nidulans_FGSC_A4:792333-792433(.)	site	oligos_6nt_mkv2_m4	D	-24	-11	ATGCTGACTAAGAC	10.8
ChrV_A_nidulans_FGSC_A4:189788-189888(.)	site	oligos_6nt_mkv2_m4	D	-13	0	CCGATGACTAATCA	11.2
ChrV_A_nidulans_FGSC_A4:189788-189888(.)	site	oligos_6nt_mkv2_m4	R	-12	1	CTGATTAGTCATCG	8.4
ChrV_A_nidulans_FGSC_A4:3331030-3331130(.)	site	oligos_6nt_mkv2_m4	D	-12	1	GTGATGACTAAGCG	13.7
ChrV_A_nidulans_FGSC_A4:3365025-3365125(.)	site	oligos_6nt_mkv2_m4	R	27	40	ATGCTGACTAAGAC	10.8
;
; Matrices
;	matrix	name              	ncol	nrow	pseudo	Wmin	Wmax	Wrange
;	1	oligos_6nt_mkv2_m4	14	4	0	-44.600	14.500	59.100	a:0.265 c:0.245 g:0.238 t:0.252 
; Number of sequences scanned	150
; Sum of sequence lengths	15000
; N residues           	0
; Matches per matrix
;	matrix	name              	matches	scored
;	1	oligos_6nt_mkv2_m4	85	0
;		TOTAL          	85	0
; Host name	rsat
; Job started	2025-04-03.124522
; Job done	2025-04-03.124522
; Seconds	0.12
;	user	0.12
;	system	0.04
;	cuser	0.08
;	csystem	0.02
