; compare-matrices  -v 1 -mode matches -format1 transfac -file1 $RSAT/public_html/tmp/www-data/2025/03/02/peak-motifs.2025-03-02.091145_2025-03-02.091145_IYXNXa/results/discovered_motifs/dyads_m1/peak-motifs_dyads_m1.tf -format2 tf -file2 $RSAT/public_html/motif_databases/footprintDB/footprintDB.motif.tf -mode matches -strand DR -uth offset_rank 1 -lth w 5 -lth Wr 0.3 -lth cor 0.7 -lth Ncor 0.4 -return matrix_name,matrix_id,cor,Ncor,width,strand,offset,alignments_1ton -sort Ncor -quick -o $RSAT/public_html/tmp/www-data/2025/03/02/peak-motifs.2025-03-02.091145_2025-03-02.091145_IYXNXa/results/discovered_motifs/dyads_m1/peak-motifs_dyads_m1_vs_db_footprintDB
; Program version       	1.118
; Quick mode 
; Input files
;	file2 	/var/www/html/rsat/public_html/motif_databases/footprintDB/footprintDB.motif.tf
;	file1 	/var/www/html/rsat/public_html/tmp/www-data/2025/03/02/peak-motifs.2025-03-02.091145_2025-03-02.091145_IYXNXa/results/discovered_motifs/dyads_m1/peak-motifs_dyads_m1.tf
; Output files
;	prefix       	/var/www/html/rsat/public_html/tmp/www-data/2025/03/02/peak-motifs.2025-03-02.091145_2025-03-02.091145_IYXNXa/results/discovered_motifs/dyads_m1/peak-motifs_dyads_m1_vs_db_footprintDB
;	html_index   	/var/www/html/rsat/public_html/tmp/www-data/2025/03/02/peak-motifs.2025-03-02.091145_2025-03-02.091145_IYXNXa/results/discovered_motifs/dyads_m1/peak-motifs_dyads_m1_vs_db_footprintDB_index.html
;	alignments_1ton_html	/var/www/html/rsat/public_html/tmp/www-data/2025/03/02/peak-motifs.2025-03-02.091145_2025-03-02.091145_IYXNXa/results/discovered_motifs/dyads_m1/peak-motifs_dyads_m1_vs_db_footprintDB_alignments_1ton.html
;	match_table_html	/var/www/html/rsat/public_html/tmp/www-data/2025/03/02/peak-motifs.2025-03-02.091145_2025-03-02.091145_IYXNXa/results/discovered_motifs/dyads_m1/peak-motifs_dyads_m1_vs_db_footprintDB.html
;	alignments_1ton	/var/www/html/rsat/public_html/tmp/www-data/2025/03/02/peak-motifs.2025-03-02.091145_2025-03-02.091145_IYXNXa/results/discovered_motifs/dyads_m1/peak-motifs_dyads_m1_vs_db_footprintDB_alignments_1ton.tab
;	match_table_txt	/var/www/html/rsat/public_html/tmp/www-data/2025/03/02/peak-motifs.2025-03-02.091145_2025-03-02.091145_IYXNXa/results/discovered_motifs/dyads_m1/peak-motifs_dyads_m1_vs_db_footprintDB.tab
; Matrices
;	file1	1 matrices	/var/www/html/rsat/public_html/tmp/www-data/2025/03/02/peak-motifs.2025-03-02.091145_2025-03-02.091145_IYXNXa/results/discovered_motifs/dyads_m1/peak-motifs_dyads_m1.tf
;		file1	1	13	28
;	file2	13863 matrices	/var/www/html/rsat/public_html/motif_databases/footprintDB/footprintDB.motif.tf
;		file2		1		17		1.01
;		file2		2		7		96
;		file2		3		8		5
;		file2		4		8		3
;		file2		5		8		5
;		file2		6		8		1
;		file2		7		8		2
;		file2		8		8		2
;		file2		9		8		6
;		file2		10		8		2
;		file2		11		8		8
;		...	13853 more matrices
; Column content
;	1	id1          	Identifier of the first matrix
;	2	id2          	Identifier of the second matrix
;	3	name1        	Name of the first matrix
;	4	name2        	Name of the second matrix
;	5	cor          	Pearson coefficient of correlation between frequency matrices
;	6	Ncor         	Normalized correlation. Ncor = cor * Wr
;	7	w1           	Width of the first matrix
;	8	w2           	Width of the second matrix
;	9	w            	Alignment length (number of overlapping columns between matrix 1 and matrix 2, as a function of the offset)
;	10	W            	Total alignment length (overlapping + non-overlapping columns). W = w1 + w2 - w
;	11	Wr           	Relative alignment length (overlap divided by the total alignemnt length). Wr = w/W
;	12	wr1          	Alignment length relative to the width of the first matrix. wr1 = w/w1
;	13	wr2          	Alignment length relative to the width of the second matrix. wr2 = w/w2
;	14	strand       	"strand", i.e. orientation of matrix 2 relative to matrix 1 (D=direct;  R=reverse)
;	15	offset       	shift of the second matrix relative to the first matrix (negative:left; positive: right)
#id1	id2	name1	name2	cor	Ncor	w1	w2	w	W	Wr	wr1	wr2	strand	offset
dyads_m1	ZNF527/UN0625.1/JASPAR	dyads_m1	ZNF527:UN0625.1:JASPAR	0.712	0.579	13	16	13	16	0.8125	1.0000	0.8125	D	-2
dyads_m1	CG3956/sna_FlyReg_FBgn0003448/FlyZincFinger	dyads_m1	CG3956:sna_FlyReg_FBgn0003448:FlyZincFinger	0.726	0.559	13	10	10	13	0.7692	0.7692	1.0000	R	0
dyads_m1	ZNF527/UN0625.2/JASPAR	dyads_m1	ZNF527:UN0625.2:JASPAR	0.736	0.540	13	13	11	15	0.7333	0.8462	0.8462	D	-2
dyads_m1	bHLH80/MA1357.2/JASPAR	dyads_m1	bHLH80:MA1357.2:JASPAR	0.718	0.497	13	9	9	13	0.6923	0.6923	1.0000	D	1
dyads_m1	Spdef/M0701_1.02/CISBP	dyads_m1	Spdef:M0701_1.02:CISBP	0.749	0.481	13	10	9	14	0.6429	0.6923	0.9000	D	4
dyads_m1	Etv3/M0689_1.02/CISBP	dyads_m1	Etv3:M0689_1.02:CISBP	0.744	0.478	13	10	9	14	0.6429	0.6923	0.9000	D	4
dyads_m1	Myc/MYC_MOUSE.H10MO.A|M01219/HOCOMOCO	dyads_m1	Myc:MYC_MOUSE.H10MO.A|M01219:HOCOMOCO	0.711	0.474	13	12	10	15	0.6667	0.7692	0.8333	D	-2
dyads_m1	IKZF1/MA1508.2/JASPAR	dyads_m1	IKZF1:MA1508.2:JASPAR	0.758	0.466	13	8	8	13	0.6154	0.6154	1.0000	D	4
dyads_m1	MSN1/M4387_1.02/CISBP	dyads_m1	MSN1:M4387_1.02:CISBP	0.753	0.463	13	8	8	13	0.6154	0.6154	1.0000	R	4
dyads_m1	Nfatc2/MA0152.3/JASPAR	dyads_m1	Nfatc2:MA0152.3:JASPAR	0.753	0.463	13	8	8	13	0.6154	0.6154	1.0000	D	5
dyads_m1	Elf5/M0704_1.02/CISBP	dyads_m1	Elf5:M0704_1.02:CISBP	0.719	0.462	13	10	9	14	0.6429	0.6923	0.9000	D	4
dyads_m1	Y48G1C.6/M0579_1.02/CISBP	dyads_m1	Y48G1C.6:M0579_1.02:CISBP	0.718	0.462	13	10	9	14	0.6429	0.6923	0.9000	R	-1
dyads_m1	Mafg/M0308_1.02/CISBP	dyads_m1	Mafg:M0308_1.02:CISBP	0.865	0.462	13	10	8	15	0.5333	0.6154	0.8000	D	-2
dyads_m1	Gm4881/M0714_1.02/CISBP	dyads_m1	Gm4881:M0714_1.02:CISBP	0.718	0.461	13	10	9	14	0.6429	0.6923	0.9000	D	4
dyads_m1	T-CELL/2ypa_AB/3D-footprint	dyads_m1	T-CELL:2ypa_AB:3D-footprint	0.747	0.460	13	8	8	13	0.6154	0.6154	1.0000	R	2
dyads_m1	bHLH130/MA1358.2/JASPAR	dyads_m1	bHLH130:MA1358.2:JASPAR	0.744	0.458	13	8	8	13	0.6154	0.6154	1.0000	R	2
dyads_m1	Ets1/M0707_1.02/CISBP	dyads_m1	Ets1:M0707_1.02:CISBP	0.712	0.458	13	10	9	14	0.6429	0.6923	0.9000	D	4
dyads_m1	Fli1/M0699_1.02/CISBP	dyads_m1	Fli1:M0699_1.02:CISBP	0.702	0.451	13	10	9	14	0.6429	0.6923	0.9000	D	4
dyads_m1	CG1856/ttk-PF_SANGER_5_FBgn0003870/FlyZincFinger	dyads_m1	CG1856:ttk-PF_SANGER_5_FBgn0003870:FlyZincFinger	0.836	0.450	13	7	7	13	0.5385	0.5385	1.0000	D	6
dyads_m1	ces-1/M0450_1.02/CISBP	dyads_m1	ces-1:M0450_1.02:CISBP	0.835	0.449	13	7	7	13	0.5385	0.5385	1.0000	D	3
dyads_m1	Transcription/2ql2_AB/3D-footprint	dyads_m1	Transcription:2ql2_AB:3D-footprint	0.730	0.449	13	8	8	13	0.6154	0.6154	1.0000	R	2
dyads_m1	bHLH112/MA0961.2/JASPAR	dyads_m1	bHLH112:MA0961.2:JASPAR	0.833	0.448	13	7	7	13	0.5385	0.5385	1.0000	R	3
dyads_m1	OsFBH1/MA2350.1/JASPAR	dyads_m1	OsFBH1:MA2350.1:JASPAR	0.833	0.448	13	7	7	13	0.5385	0.5385	1.0000	R	3
dyads_m1	tj/MA2288.1/JASPAR	dyads_m1	tj:MA2288.1:JASPAR	0.824	0.440	13	10	8	15	0.5333	0.6154	0.8000	D	-2
dyads_m1	Transcription/2ql2_CD/3D-footprint	dyads_m1	Transcription:2ql2_CD:3D-footprint	0.707	0.435	13	8	8	13	0.6154	0.6154	1.0000	D	2
dyads_m1	MYC/MA0147.4/JASPAR	dyads_m1	MYC:MA0147.4:JASPAR	0.705	0.434	13	8	8	13	0.6154	0.6154	1.0000	R	2
dyads_m1	NEUROD1/MA1109.2/JASPAR	dyads_m1	NEUROD1:MA1109.2:JASPAR	0.704	0.433	13	8	8	13	0.6154	0.6154	1.0000	D	2
dyads_m1	ETS1/ETS1_HUMAN.H10MO.C|M01123/HOCOMOCO	dyads_m1	ETS1:ETS1_HUMAN.H10MO.C|M01123:HOCOMOCO	0.756	0.432	13	9	8	14	0.5714	0.6154	0.8889	D	5
dyads_m1	ZIK1/UN0591.2/JASPAR	dyads_m1	ZIK1:UN0591.2:JASPAR	0.705	0.431	13	16	11	18	0.6111	0.8462	0.6875	D	-5
dyads_m1	NAC105/MA2053.2/JASPAR	dyads_m1	NAC105:MA2053.2:JASPAR	0.754	0.431	13	9	8	14	0.5714	0.6154	0.8889	D	-1
dyads_m1	TAL1/UN0808.1/JASPAR	dyads_m1	TAL1:UN0808.1:JASPAR	0.700	0.431	13	8	8	13	0.6154	0.6154	1.0000	D	2
dyads_m1	NRL/NRL_DBD/HumanTF	dyads_m1	NRL:NRL_DBD:HumanTF	0.710	0.426	13	11	9	15	0.6000	0.6923	0.8182	R	-2
dyads_m1	AT1G74840/MA1397.2/JASPAR	dyads_m1	AT1G74840:MA1397.2:JASPAR	0.737	0.421	13	9	8	14	0.5714	0.6154	0.8889	D	5
dyads_m1	ZNF296/UN0175.2/JASPAR	dyads_m1	ZNF296:UN0175.2:JASPAR	0.781	0.420	13	7	7	13	0.5385	0.5385	1.0000	D	6
dyads_m1	MYF6/MYF6_HUMAN.H10MO.C|M01345/HOCOMOCO	dyads_m1	MYF6:MYF6_HUMAN.H10MO.C|M01345:HOCOMOCO	0.780	0.420	13	7	7	13	0.5385	0.5385	1.0000	D	2
dyads_m1	NEUROG2/MA1642.2/JASPAR	dyads_m1	NEUROG2:MA1642.2:JASPAR	0.779	0.419	13	7	7	13	0.5385	0.5385	1.0000	D	3
dyads_m1	PROTEIN/2drp_D/3D-footprint	dyads_m1	PROTEIN:2drp_D:3D-footprint	0.838	0.419	13	8	7	14	0.5000	0.5385	0.8750	D	6
dyads_m1	ZmHOX2a(1)/ZmHOX2a/1)(Athamap	dyads_m1	ZmHOX2a(1):ZmHOX2a:1)(Athamap	0.777	0.419	13	7	7	13	0.5385	0.5385	1.0000	R	5
dyads_m1	NFATC1/M1521_1.02/CISBP	dyads_m1	NFATC1:M1521_1.02:CISBP	0.781	0.416	13	10	8	15	0.5333	0.6154	0.8000	R	5
dyads_m1	TCF12/MA1648.2/JASPAR	dyads_m1	TCF12:MA1648.2:JASPAR	0.772	0.416	13	7	7	13	0.5385	0.5385	1.0000	R	2
dyads_m1	TCF3/MA0522.4/JASPAR	dyads_m1	TCF3:MA0522.4:JASPAR	0.771	0.415	13	7	7	13	0.5385	0.5385	1.0000	R	2
dyads_m1	Atoh1/MA1467.3/JASPAR	dyads_m1	Atoh1:MA1467.3:JASPAR	0.771	0.415	13	7	7	13	0.5385	0.5385	1.0000	D	3
dyads_m1	RFX7/RFX7_methyl_1/HT-SELEX2	dyads_m1	RFX7:RFX7_methyl_1:HT-SELEX2	0.724	0.414	13	9	8	14	0.5714	0.6154	0.8889	R	-1
dyads_m1	SMB/UN0380.1/JASPAR	dyads_m1	SMB:UN0380.1:JASPAR	0.822	0.411	13	11	8	16	0.5000	0.6154	0.7273	D	-3
dyads_m1	NAC007/UN0370.1/JASPAR	dyads_m1	NAC007:UN0370.1:JASPAR	0.821	0.411	13	11	8	16	0.5000	0.6154	0.7273	D	-3
dyads_m1	NAC101/UN0377.1/JASPAR	dyads_m1	NAC101:UN0377.1:JASPAR	0.821	0.411	13	11	8	16	0.5000	0.6154	0.7273	D	-3
dyads_m1	ase/M4745_1.02/CISBP	dyads_m1	ase:M4745_1.02:CISBP	0.762	0.410	13	7	7	13	0.5385	0.5385	1.0000	D	2
dyads_m1	ase/UN0748.1/JASPAR	dyads_m1	ase:UN0748.1:JASPAR	0.762	0.410	13	7	7	13	0.5385	0.5385	1.0000	R	2
dyads_m1	nfatc1/M1523_1.02/CISBP	dyads_m1	nfatc1:M1523_1.02:CISBP	0.765	0.408	13	10	8	15	0.5333	0.6154	0.8000	R	5
dyads_m1	l(1)sc/M5064_1.02/CISBP	dyads_m1	l(1)sc:M5064_1.02:CISBP	0.756	0.407	13	7	7	13	0.5385	0.5385	1.0000	D	2
dyads_m1	NFATC1/MA0624.1/JASPAR	dyads_m1	NFATC1:MA0624.1:JASPAR	0.763	0.407	13	10	8	15	0.5333	0.6154	0.8000	R	5
dyads_m1	NFATC1/M1520_1.02/CISBP	dyads_m1	NFATC1:M1520_1.02:CISBP	0.762	0.406	13	10	8	15	0.5333	0.6154	0.8000	R	5
dyads_m1	Zic3/MA0697.3/JASPAR	dyads_m1	Zic3:MA0697.3:JASPAR	0.753	0.406	13	7	7	13	0.5385	0.5385	1.0000	D	3
dyads_m1	NFATC3/M1517_1.02/CISBP	dyads_m1	NFATC3:M1517_1.02:CISBP	0.758	0.404	13	10	8	15	0.5333	0.6154	0.8000	R	5
dyads_m1	Zic1::Zic2/MA1628.2/JASPAR	dyads_m1	Zic1::Zic2:MA1628.2:JASPAR	0.751	0.404	13	7	7	13	0.5385	0.5385	1.0000	D	3
dyads_m1	NFATC3/MA0625.1/JASPAR	dyads_m1	NFATC3:MA0625.1:JASPAR	0.758	0.404	13	10	8	15	0.5333	0.6154	0.8000	R	5
dyads_m1	LM195/CN0195.1/JASPAR	dyads_m1	LM195:CN0195.1:JASPAR	0.728	0.404	13	15	10	18	0.5556	0.7692	0.6667	R	3
dyads_m1	NAC045/MA2048.2/JASPAR	dyads_m1	NAC045:MA2048.2:JASPAR	0.808	0.404	13	8	7	14	0.5000	0.5385	0.8750	D	-1
dyads_m1	NFATC3/NFATC3_4/HT-SELEX2	dyads_m1	NFATC3:NFATC3_4:HT-SELEX2	0.756	0.403	13	10	8	15	0.5333	0.6154	0.8000	D	5
dyads_m1	ZNF462/UN0616.2/JASPAR	dyads_m1	ZNF462:UN0616.2:JASPAR	0.748	0.403	13	7	7	13	0.5385	0.5385	1.0000	D	3
dyads_m1	BHLH122/MA1739.2/JASPAR	dyads_m1	BHLH122:MA1739.2:JASPAR	0.748	0.403	13	7	7	13	0.5385	0.5385	1.0000	R	3
dyads_m1	NAC037/UN0374.1/JASPAR	dyads_m1	NAC037:UN0374.1:JASPAR	0.804	0.402	13	11	8	16	0.5000	0.6154	0.7273	D	-3
dyads_m1	NFATC4/NFATC4_3/HT-SELEX2	dyads_m1	NFATC4:NFATC4_3:HT-SELEX2	0.754	0.402	13	10	8	15	0.5333	0.6154	0.8000	D	5
dyads_m1	Etv5/M0698_1.02/CISBP	dyads_m1	Etv5:M0698_1.02:CISBP	0.703	0.402	13	9	8	14	0.5714	0.6154	0.8889	D	5
dyads_m1	SPIB/MA0081.1/JASPAR	dyads_m1	SPIB:MA0081.1:JASPAR	0.746	0.401	13	7	7	13	0.5385	0.5385	1.0000	D	5
dyads_m1	ANAC016/UN0342.1/JASPAR	dyads_m1	ANAC016:UN0342.1:JASPAR	0.801	0.401	13	11	8	16	0.5000	0.6154	0.7273	D	-3
; Host name	rsat
; Job started	2025-03-02.091220
; Job done	2025-03-02.091226
; Seconds	5.61
;	user	5.61
;	system	0.14
;	cuser	0.47
;	csystem	0.07
