/var/www/html/rsat/public_html/tmp/www-data/2025/11/07/peak-motifs.2025-11-07.144553_2025-11-07.144553_0jTHd8/results/discovered_motifs/oligos_7nt_mkv1_m4/peak-motifs_oligos_7nt_mkv1_m4_vs_db_JASPAR2024_CORE_plants_non-redundant.tab 
 compare-matrices  -v 1 -mode matches -format1 transfac -file1 $RSAT/public_html/tmp/www-data/2025/11/07/peak-motifs.2025-11-07.144553_2025-11-07.144553_0jTHd8/results/discovered_motifs/oligos_7nt_mkv1_m4/peak-motifs_oligos_7nt_mkv1_m4.tf -format2 tf -file2 $RSAT/public_html/motif_databases/JASPAR/Jaspar_2024/JASPAR2024_CORE_plants_non-redundant_pfms_transfac.txt -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/2025/11/07/peak-motifs.2025-11-07.144553_2025-11-07.144553_0jTHd8/results/discovered_motifs/oligos_7nt_mkv1_m4/peak-motifs_oligos_7nt_mkv1_m4_vs_db_JASPAR2024_CORE_plants_non-redundant
 Program version       	1.118
 Quick mode 
 Input files
	file1 	$RSAT/public_html/tmp/www-data/2025/11/07/peak-motifs.2025-11-07.144553_2025-11-07.144553_0jTHd8/results/discovered_motifs/oligos_7nt_mkv1_m4/peak-motifs_oligos_7nt_mkv1_m4.tf
	file2 	$RSAT/public_html/motif_databases/JASPAR/Jaspar_2024/JASPAR2024_CORE_plants_non-redundant_pfms_transfac.txt
 Output files
	match_table_txt	$RSAT/public_html/tmp/www-data/2025/11/07/peak-motifs.2025-11-07.144553_2025-11-07.144553_0jTHd8/results/discovered_motifs/oligos_7nt_mkv1_m4/peak-motifs_oligos_7nt_mkv1_m4_vs_db_JASPAR2024_CORE_plants_non-redundant.tab
	match_table_html	$RSAT/public_html/tmp/www-data/2025/11/07/peak-motifs.2025-11-07.144553_2025-11-07.144553_0jTHd8/results/discovered_motifs/oligos_7nt_mkv1_m4/peak-motifs_oligos_7nt_mkv1_m4_vs_db_JASPAR2024_CORE_plants_non-redundant.html
	prefix       	$RSAT/public_html/tmp/www-data/2025/11/07/peak-motifs.2025-11-07.144553_2025-11-07.144553_0jTHd8/results/discovered_motifs/oligos_7nt_mkv1_m4/peak-motifs_oligos_7nt_mkv1_m4_vs_db_JASPAR2024_CORE_plants_non-redundant
	alignments_1ton_html	$RSAT/public_html/tmp/www-data/2025/11/07/peak-motifs.2025-11-07.144553_2025-11-07.144553_0jTHd8/results/discovered_motifs/oligos_7nt_mkv1_m4/peak-motifs_oligos_7nt_mkv1_m4_vs_db_JASPAR2024_CORE_plants_non-redundant_alignments_1ton.html
	alignments_1ton	$RSAT/public_html/tmp/www-data/2025/11/07/peak-motifs.2025-11-07.144553_2025-11-07.144553_0jTHd8/results/discovered_motifs/oligos_7nt_mkv1_m4/peak-motifs_oligos_7nt_mkv1_m4_vs_db_JASPAR2024_CORE_plants_non-redundant_alignments_1ton.tab
	html_index   	$RSAT/public_html/tmp/www-data/2025/11/07/peak-motifs.2025-11-07.144553_2025-11-07.144553_0jTHd8/results/discovered_motifs/oligos_7nt_mkv1_m4/peak-motifs_oligos_7nt_mkv1_m4_vs_db_JASPAR2024_CORE_plants_non-redundant_index.html
 Matrices
	file1	1 matrices	$RSAT/public_html/tmp/www-data/2025/11/07/peak-motifs.2025-11-07.144553_2025-11-07.144553_0jTHd8/results/discovered_motifs/oligos_7nt_mkv1_m4/peak-motifs_oligos_7nt_mkv1_m4.tf
		file1	1	11	4
	file2	805 matrices	$RSAT/public_html/motif_databases/JASPAR/Jaspar_2024/JASPAR2024_CORE_plants_non-redundant_pfms_transfac.txt
		file2		1		6		21
		file2		2		5		15
		file2		3		9		70
		file2		4		5		16
		file2		5		7		35
		file2		6		12		33
		file2		7		10		49
		file2		8		8		13
		file2		9		7		15
		file2		10		14		558
		file2		11		8		101
		...	795 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
oligos_7nt_mkv1_m4 MA1415.2 oligos_7nt_mkv1_m4 REF6 0.746 0.610 11 9 9 11 0.8182 0.8182 1.0000 D 0
oligos_7nt_mkv1_m4 MA0974.3 oligos_7nt_mkv1_m4 CDF3 0.775 0.564 11 8 8 11 0.7273 0.7273 1.0000 D 1
oligos_7nt_mkv1_m4 MA0977.1 oligos_7nt_mkv1_m4 DOF2.5 0.715 0.520 11 8 8 11 0.7273 0.7273 1.0000 D 1
oligos_7nt_mkv1_m4 MA0973.2 oligos_7nt_mkv1_m4 CDF2 0.795 0.506 11 7 7 11 0.6364 0.6364 1.0000 D 1
oligos_7nt_mkv1_m4 MA1272.3 oligos_7nt_mkv1_m4 DOF2.2 0.898 0.490 11 6 6 11 0.5455 0.5455 1.0000 D 1
oligos_7nt_mkv1_m4 MA1280.2 oligos_7nt_mkv1_m4 DOF5.4 0.759 0.483 11 7 7 11 0.6364 0.6364 1.0000 D 1
oligos_7nt_mkv1_m4 MA1276.2 oligos_7nt_mkv1_m4 DOF3.5 0.734 0.467 11 7 7 11 0.6364 0.6364 1.0000 D 1
oligos_7nt_mkv1_m4 MA2069.1 oligos_7nt_mkv1_m4 PK10955.1 0.967 0.439 11 5 5 11 0.4545 0.4545 1.0000 R 2
oligos_7nt_mkv1_m4 MA2084.1 oligos_7nt_mkv1_m4 PK23009.1 0.959 0.436 11 5 5 11 0.4545 0.4545 1.0000 R 2
oligos_7nt_mkv1_m4 MA2085.1 oligos_7nt_mkv1_m4 PK23763.1 0.946 0.430 11 5 5 11 0.4545 0.4545 1.0000 R 2
oligos_7nt_mkv1_m4 MA2356.1 oligos_7nt_mkv1_m4 PK20555.1 0.944 0.429 11 5 5 11 0.4545 0.4545 1.0000 R 2
oligos_7nt_mkv1_m4 MA2058.1 oligos_7nt_mkv1_m4 PK03929.1 0.943 0.428 11 5 5 11 0.4545 0.4545 1.0000 R 2
oligos_7nt_mkv1_m4 MA2383.1 oligos_7nt_mkv1_m4 e_gw1.392.16.1 0.940 0.427 11 5 5 11 0.4545 0.4545 1.0000 R 2
oligos_7nt_mkv1_m4 MA0989.2 oligos_7nt_mkv1_m4 PHYPADRAFT_153324 0.940 0.427 11 5 5 11 0.4545 0.4545 1.0000 D 2
oligos_7nt_mkv1_m4 MA2081.1 oligos_7nt_mkv1_m4 PK20317.1 0.922 0.419 11 5 5 11 0.4545 0.4545 1.0000 R 2
oligos_7nt_mkv1_m4 MA0021.1 oligos_7nt_mkv1_m4 Dof3 0.767 0.418 11 6 6 11 0.5455 0.5455 1.0000 D 3
oligos_7nt_mkv1_m4 MA1661.2 oligos_7nt_mkv1_m4 GTL1 0.907 0.418 11 8 6 13 0.4615 0.5455 0.7500 D -2 
 Host name	rsat
 Job started	2025-11-07.144630
 Job done	2025-11-07.144633
 Seconds	0.59
	user	0.59
	system	0.12
	cuser	2.23
;	csystem	0.34