/var/www/html/rsat/public_html/tmp/www-data/2025/05/21/peak-motifs.2025-05-21.033913_2025-05-21.033913_SwV7J2/results/discovered_motifs/dyads_m3/peak-motifs_dyads_m3_vs_db_footprintDB-plants.tab 
 compare-matrices  -v 1 -mode matches -format1 transfac -file1 $RSAT/public_html/tmp/www-data/2025/05/21/peak-motifs.2025-05-21.033913_2025-05-21.033913_SwV7J2/results/discovered_motifs/dyads_m3/peak-motifs_dyads_m3.tf -format2 tf -file2 $RSAT/public_html/motif_databases/footprintDB/footprintDB.plants.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/2025/05/21/peak-motifs.2025-05-21.033913_2025-05-21.033913_SwV7J2/results/discovered_motifs/dyads_m3/peak-motifs_dyads_m3_vs_db_footprintDB-plants
 Program version       	1.118
 Quick mode 
 Input files
	file1 	$RSAT/public_html/tmp/www-data/2025/05/21/peak-motifs.2025-05-21.033913_2025-05-21.033913_SwV7J2/results/discovered_motifs/dyads_m3/peak-motifs_dyads_m3.tf
	file2 	$RSAT/public_html/motif_databases/footprintDB/footprintDB.plants.motif.tf
 Output files
	alignments_1ton_html	$RSAT/public_html/tmp/www-data/2025/05/21/peak-motifs.2025-05-21.033913_2025-05-21.033913_SwV7J2/results/discovered_motifs/dyads_m3/peak-motifs_dyads_m3_vs_db_footprintDB-plants_alignments_1ton.html
	match_table_html	$RSAT/public_html/tmp/www-data/2025/05/21/peak-motifs.2025-05-21.033913_2025-05-21.033913_SwV7J2/results/discovered_motifs/dyads_m3/peak-motifs_dyads_m3_vs_db_footprintDB-plants.html
	html_index   	$RSAT/public_html/tmp/www-data/2025/05/21/peak-motifs.2025-05-21.033913_2025-05-21.033913_SwV7J2/results/discovered_motifs/dyads_m3/peak-motifs_dyads_m3_vs_db_footprintDB-plants_index.html
	prefix       	$RSAT/public_html/tmp/www-data/2025/05/21/peak-motifs.2025-05-21.033913_2025-05-21.033913_SwV7J2/results/discovered_motifs/dyads_m3/peak-motifs_dyads_m3_vs_db_footprintDB-plants
	alignments_1ton	$RSAT/public_html/tmp/www-data/2025/05/21/peak-motifs.2025-05-21.033913_2025-05-21.033913_SwV7J2/results/discovered_motifs/dyads_m3/peak-motifs_dyads_m3_vs_db_footprintDB-plants_alignments_1ton.tab
	match_table_txt	$RSAT/public_html/tmp/www-data/2025/05/21/peak-motifs.2025-05-21.033913_2025-05-21.033913_SwV7J2/results/discovered_motifs/dyads_m3/peak-motifs_dyads_m3_vs_db_footprintDB-plants.tab
 Matrices
	file1	1 matrices	$RSAT/public_html/tmp/www-data/2025/05/21/peak-motifs.2025-05-21.033913_2025-05-21.033913_SwV7J2/results/discovered_motifs/dyads_m3/peak-motifs_dyads_m3.tf
		file1	1	18	66
	file2	2958 matrices	$RSAT/public_html/motif_databases/footprintDB/footprintDB.plants.motif.tf
		file2		1		8		5
		file2		2		8		3
		file2		3		8		5
		file2		4		8		1
		file2		5		8		2
		file2		6		8		2
		file2		7		8		6
		file2		8		8		2
		file2		9		8		8
		file2		10		8		1
		file2		11		8		4
		...	2948 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_m3 DOF3.2/MA1270.2/JASPAR dyads_m3 DOF3.2:MA1270.2:JASPAR 0.741 0.585 18 16 15 19 0.7895 0.8333 0.9375 D -1
dyads_m3 dof24.ampDAP/M0269/AthalianaCistrome dyads_m3 dof24.ampDAP:M0269:AthalianaCistrome 0.737 0.543 18 15 14 19 0.7368 0.7778 0.9333 R -1
dyads_m3 CDF3.DAP/M0268/AthalianaCistrome dyads_m3 CDF3.DAP:M0268:AthalianaCistrome 0.755 0.515 18 19 15 22 0.6818 0.8333 0.7895 R -4
dyads_m3 AT2G40260/MA1385.1/JASPAR dyads_m3 AT2G40260:MA1385.1:JASPAR 0.787 0.512 18 15 13 20 0.6500 0.7222 0.8667 D 5
dyads_m3 AT2G28810.ampDAP/M0245/AthalianaCistrome dyads_m3 AT2G28810.ampDAP:M0245:AthalianaCistrome 0.781 0.508 18 15 13 20 0.6500 0.7222 0.8667 D -2
dyads_m3 At1g64620.DAP/M0263/AthalianaCistrome dyads_m3 At1g64620.DAP:M0263:AthalianaCistrome 0.728 0.496 18 19 15 22 0.6818 0.8333 0.7895 R -4
dyads_m3 DOF1.5/MA1279.2/JASPAR dyads_m3 DOF1.5:MA1279.2:JASPAR 0.794 0.491 18 16 13 21 0.6190 0.7222 0.8125 R -3
dyads_m3 AT5G02460.ampDAP/M0258/AthalianaCistrome dyads_m3 AT5G02460.ampDAP:M0258:AthalianaCistrome 0.720 0.491 18 19 15 22 0.6818 0.8333 0.7895 D -4
dyads_m3 OBP4.ampDAP/M0261/AthalianaCistrome dyads_m3 OBP4.ampDAP:M0261:AthalianaCistrome 0.714 0.487 18 19 15 22 0.6818 0.8333 0.7895 R -4
dyads_m3 AT3G12130.ampDAP/M0341/AthalianaCistrome dyads_m3 AT3G12130.ampDAP:M0341:AthalianaCistrome 0.808 0.485 18 14 12 20 0.6000 0.6667 0.8571 R -2
dyads_m3 KHZ1/UN0404.1/JASPAR dyads_m3 KHZ1:UN0404.1:JASPAR 0.808 0.485 18 14 12 20 0.6000 0.6667 0.8571 R -2
dyads_m3 AT5G66940.ampDAP/M0257/AthalianaCistrome dyads_m3 AT5G66940.ampDAP:M0257:AthalianaCistrome 0.730 0.456 18 21 15 24 0.6250 0.8333 0.7143 D -6
dyads_m3 TAGL1/UN0426.1/JASPAR dyads_m3 TAGL1:UN0426.1:JASPAR 0.713 0.450 18 13 12 19 0.6316 0.6667 0.9231 R -1
dyads_m3 Adof1.ampDAP/M0277/AthalianaCistrome dyads_m3 Adof1.ampDAP:M0277:AthalianaCistrome 0.716 0.447 18 21 15 24 0.6250 0.8333 0.7143 R -6
dyads_m3 CDF5/UN0360.1/JASPAR dyads_m3 CDF5:UN0360.1:JASPAR 0.787 0.437 18 10 10 18 0.5556 0.5556 1.0000 R 0
dyads_m3 DOF2.2/MA1272.2/JASPAR dyads_m3 DOF2.2:MA1272.2:JASPAR 0.785 0.436 18 10 10 18 0.5556 0.5556 1.0000 R 0
dyads_m3 AT5G04760/MA2031.1/JASPAR dyads_m3 AT5G04760:MA2031.1:JASPAR 0.709 0.433 18 11 11 18 0.6111 0.6111 1.0000 D 0
dyads_m3 AT2G31460/UN0390.1/JASPAR dyads_m3 AT2G31460:UN0390.1:JASPAR 0.746 0.432 18 12 11 19 0.5789 0.6111 0.9167 R 7
dyads_m3 AT2G31460.DAP/M0726/AthalianaCistrome dyads_m3 AT2G31460.DAP:M0726:AthalianaCistrome 0.746 0.432 18 12 11 19 0.5789 0.6111 0.9167 R 7
dyads_m3 AT5G18090.DAP/M0009/AthalianaCistrome dyads_m3 AT5G18090.DAP:M0009:AthalianaCistrome 0.835 0.417 18 15 11 22 0.5000 0.6111 0.7333 R 7
dyads_m3 REM21/UN0408.1/JASPAR dyads_m3 REM21:UN0408.1:JASPAR 0.835 0.417 18 15 11 22 0.5000 0.6111 0.7333 D 7
dyads_m3 Adof1/MA1277.1/JASPAR dyads_m3 Adof1:MA1277.1:JASPAR 0.740 0.414 18 21 14 25 0.5600 0.7778 0.6667 R -7
dyads_m3 dof4.2/MA1273.1/JASPAR dyads_m3 dof4.2:MA1273.1:JASPAR 0.762 0.413 18 19 13 24 0.5417 0.7222 0.6842 R -6
dyads_m3 e_gw1.392.16.1/M0660_1.02/CISBP dyads_m3 e_gw1.392.16.1:M0660_1.02:CISBP 0.823 0.412 18 9 9 18 0.5000 0.5000 1.0000 R 0
dyads_m3 PHYPADRAFT_153324/MA0989.1/JASPAR dyads_m3 PHYPADRAFT_153324:MA0989.1:JASPAR 0.823 0.412 18 9 9 18 0.5000 0.5000 1.0000 R 0
dyads_m3 AT1G47655/MA1275.1/JASPAR dyads_m3 AT1G47655:MA1275.1:JASPAR 0.765 0.402 18 11 10 19 0.5263 0.5556 0.9091 R -1 
 Host name	rsat
 Job started	2025-05-21.034021
 Job done	2025-05-21.034022
 Seconds	1.26
	user	1.26
	system	0.05
	cuser	0.22
;	csystem	0.05