/var/www/html/rsat/public_html/tmp/www-data/2025/02/25/peak-motifs.2025-02-25.153813_2025-02-25.153813_MpHLQf/results/discovered_motifs/oligos_6nt_mkv1_m4/peak-motifs_oligos_6nt_mkv1_m4_vs_db_ArabidopsisPBM.tab 
 compare-matrices  -v 1 -mode matches -format1 transfac -file1 $RSAT/public_html/tmp/www-data/2025/02/25/peak-motifs.2025-02-25.153813_2025-02-25.153813_MpHLQf/results/discovered_motifs/oligos_6nt_mkv1_m4/peak-motifs_oligos_6nt_mkv1_m4.tf -format2 tf -file2 $RSAT/public_html/motif_databases/ArabidopsisPBM/ArabidopsisPBM_2015-11-06.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/2025/02/25/peak-motifs.2025-02-25.153813_2025-02-25.153813_MpHLQf/results/discovered_motifs/oligos_6nt_mkv1_m4/peak-motifs_oligos_6nt_mkv1_m4_vs_db_ArabidopsisPBM
 Program version       	1.118
 Quick mode 
 Input files
	file2 	$RSAT/public_html/motif_databases/ArabidopsisPBM/ArabidopsisPBM_2015-11-06.tf
	file1 	$RSAT/public_html/tmp/www-data/2025/02/25/peak-motifs.2025-02-25.153813_2025-02-25.153813_MpHLQf/results/discovered_motifs/oligos_6nt_mkv1_m4/peak-motifs_oligos_6nt_mkv1_m4.tf
 Output files
	alignments_1ton_html	$RSAT/public_html/tmp/www-data/2025/02/25/peak-motifs.2025-02-25.153813_2025-02-25.153813_MpHLQf/results/discovered_motifs/oligos_6nt_mkv1_m4/peak-motifs_oligos_6nt_mkv1_m4_vs_db_ArabidopsisPBM_alignments_1ton.html
	match_table_html	$RSAT/public_html/tmp/www-data/2025/02/25/peak-motifs.2025-02-25.153813_2025-02-25.153813_MpHLQf/results/discovered_motifs/oligos_6nt_mkv1_m4/peak-motifs_oligos_6nt_mkv1_m4_vs_db_ArabidopsisPBM.html
	match_table_txt	$RSAT/public_html/tmp/www-data/2025/02/25/peak-motifs.2025-02-25.153813_2025-02-25.153813_MpHLQf/results/discovered_motifs/oligos_6nt_mkv1_m4/peak-motifs_oligos_6nt_mkv1_m4_vs_db_ArabidopsisPBM.tab
	alignments_1ton	$RSAT/public_html/tmp/www-data/2025/02/25/peak-motifs.2025-02-25.153813_2025-02-25.153813_MpHLQf/results/discovered_motifs/oligos_6nt_mkv1_m4/peak-motifs_oligos_6nt_mkv1_m4_vs_db_ArabidopsisPBM_alignments_1ton.tab
	html_index   	$RSAT/public_html/tmp/www-data/2025/02/25/peak-motifs.2025-02-25.153813_2025-02-25.153813_MpHLQf/results/discovered_motifs/oligos_6nt_mkv1_m4/peak-motifs_oligos_6nt_mkv1_m4_vs_db_ArabidopsisPBM_index.html
	prefix       	$RSAT/public_html/tmp/www-data/2025/02/25/peak-motifs.2025-02-25.153813_2025-02-25.153813_MpHLQf/results/discovered_motifs/oligos_6nt_mkv1_m4/peak-motifs_oligos_6nt_mkv1_m4_vs_db_ArabidopsisPBM
 Matrices
	file1	1 matrices	$RSAT/public_html/tmp/www-data/2025/02/25/peak-motifs.2025-02-25.153813_2025-02-25.153813_MpHLQf/results/discovered_motifs/oligos_6nt_mkv1_m4/peak-motifs_oligos_6nt_mkv1_m4.tf
		file1	1	10	18
	file2	108 matrices	$RSAT/public_html/motif_databases/ArabidopsisPBM/ArabidopsisPBM_2015-11-06.tf
		file2		1		10		100
		file2		2		10		100
		file2		3		10		100
		file2		4		10		100
		file2		5		10		100
		file2		6		10		100
		file2		7		10		100
		file2		8		10		100
		file2		9		10		100
		file2		10		10		100
		file2		11		10		100
		...	98 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_6nt_mkv1_m4 7265_STY1_2_ArabidopsisPBM_20140210_ oligos_6nt_mkv1_m4 7265_STY1_2_ArabidopsisPBM_20140210_ 0.707 0.579 10 10 9 11 0.8182 0.9000 0.9000 R -1
oligos_6nt_mkv1_m4 7237_MYB111_2_ArabidopsisPBM_20140210_ oligos_6nt_mkv1_m4 7237_MYB111_2_ArabidopsisPBM_20140210_ 0.790 0.527 10 10 8 12 0.6667 0.8000 0.8000 D 2
oligos_6nt_mkv1_m4 7236_MYB111_ArabidopsisPBM_20140210_ oligos_6nt_mkv1_m4 7236_MYB111_ArabidopsisPBM_20140210_ 0.760 0.507 10 10 8 12 0.6667 0.8000 0.8000 D -2
oligos_6nt_mkv1_m4 7238_MYB46_ArabidopsisPBM_20140210_ oligos_6nt_mkv1_m4 7238_MYB46_ArabidopsisPBM_20140210_ 0.749 0.500 10 10 8 12 0.6667 0.8000 0.8000 D -2
oligos_6nt_mkv1_m4 7242_MYB55_ArabidopsisPBM_20140210_ oligos_6nt_mkv1_m4 7242_MYB55_ArabidopsisPBM_20140210_ 0.757 0.408 10 10 7 13 0.5385 0.7000 0.7000 R -3 
 Host name	rsat
 Job started	2025-02-25.153841
 Job done	2025-02-25.153842
 Seconds	0.15
	user	0.15
	system	0.05
	cuser	0.71
;	csystem	0.11