compare-matrices  -v 1 -format transfac -file $RSAT/public_html/tmp/www-data/2025/05/21/peak-motifs.2025-05-21.033913_2025-05-21.033913_SwV7J2/results/discovered_motifs/peak-motifs_motifs_discovered.tf -distinct -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/peak-motifs_motifs_disco_compa.tab
 Program version       	1.118
 Quick mode 
 Input files
	file2 	$RSAT/public_html/tmp/www-data/2025/05/21/peak-motifs.2025-05-21.033913_2025-05-21.033913_SwV7J2/results/discovered_motifs/peak-motifs_motifs_discovered.tf
	file1 	$RSAT/public_html/tmp/www-data/2025/05/21/peak-motifs.2025-05-21.033913_2025-05-21.033913_SwV7J2/results/discovered_motifs/peak-motifs_motifs_discovered.tf
 Output files
	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/peak-motifs_motifs_disco_compa.tab
	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/peak-motifs_motifs_disco_compa_alignments_1ton.tab
	prefix       	$RSAT/public_html/tmp/www-data/2025/05/21/peak-motifs.2025-05-21.033913_2025-05-21.033913_SwV7J2/results/discovered_motifs/peak-motifs_motifs_disco_compa
	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/peak-motifs_motifs_disco_compa_index.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/peak-motifs_motifs_disco_compa.html
	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/peak-motifs_motifs_disco_compa_alignments_1ton.html
 Matrices
	file1	15 matrices	$RSAT/public_html/tmp/www-data/2025/05/21/peak-motifs.2025-05-21.033913_2025-05-21.033913_SwV7J2/results/discovered_motifs/peak-motifs_motifs_discovered.tf
		file1	1	12	59
		file1	2	10	55
		file1	3	10	52
		file1	4	11	125
		file1	5	11	101
		file1	6	12	46
		file1	7	12	49
		file1	8	12	42
		file1	9	12	39
		file1	10	12	43
		file1	11	11	80
		...	5 more matrices
	file2	15 matrices	$RSAT/public_html/tmp/www-data/2025/05/21/peak-motifs.2025-05-21.033913_2025-05-21.033913_SwV7J2/results/discovered_motifs/peak-motifs_motifs_discovered.tf
		file2		1		12		59
		file2		2		10		55
		file2		3		10		52
		file2		4		11		125
		file2		5		11		101
		file2		6		12		46
		file2		7		12		49
		file2		8		12		42
		file2		9		12		39
		file2		10		12		43
		file2		11		11		80
		...	5 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)

 Host name	rsat
 Job started	2025-05-21.033952
 Job done	2025-05-21.033959
 Seconds	0.34
	user	0.34
	system	0.22
	cuser	5.48
;	csystem	0.81