/var/www/html/rsat/public_html/tmp/www-data/2025/06/19/peak-motifs.2025-06-19.092322_2025-06-19.092322_shBOom/results/discovered_motifs/oligos_6-8nt_m2/peak-motifs_oligos_6-8nt_m2_vs_db_footprintDB-plants.tab 
 compare-matrices  -v 1 -mode matches -format1 transfac -file1 $RSAT/public_html/tmp/www-data/2025/06/19/peak-motifs.2025-06-19.092322_2025-06-19.092322_shBOom/results/discovered_motifs/oligos_6-8nt_m2/peak-motifs_oligos_6-8nt_m2.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/2025/06/19/peak-motifs.2025-06-19.092322_2025-06-19.092322_shBOom/results/discovered_motifs/oligos_6-8nt_m2/peak-motifs_oligos_6-8nt_m2_vs_db_footprintDB-plants
 Program version       	1.118
 Quick mode 
 Input files
	file2 	$RSAT/public_html/motif_databases/footprintDB/footprintDB.plants.motif.tf
	file1 	$RSAT/public_html/tmp/www-data/2025/06/19/peak-motifs.2025-06-19.092322_2025-06-19.092322_shBOom/results/discovered_motifs/oligos_6-8nt_m2/peak-motifs_oligos_6-8nt_m2.tf
 Output files
	match_table_html	$RSAT/public_html/tmp/www-data/2025/06/19/peak-motifs.2025-06-19.092322_2025-06-19.092322_shBOom/results/discovered_motifs/oligos_6-8nt_m2/peak-motifs_oligos_6-8nt_m2_vs_db_footprintDB-plants.html
	match_table_txt	$RSAT/public_html/tmp/www-data/2025/06/19/peak-motifs.2025-06-19.092322_2025-06-19.092322_shBOom/results/discovered_motifs/oligos_6-8nt_m2/peak-motifs_oligos_6-8nt_m2_vs_db_footprintDB-plants.tab
	html_index   	$RSAT/public_html/tmp/www-data/2025/06/19/peak-motifs.2025-06-19.092322_2025-06-19.092322_shBOom/results/discovered_motifs/oligos_6-8nt_m2/peak-motifs_oligos_6-8nt_m2_vs_db_footprintDB-plants_index.html
	prefix       	$RSAT/public_html/tmp/www-data/2025/06/19/peak-motifs.2025-06-19.092322_2025-06-19.092322_shBOom/results/discovered_motifs/oligos_6-8nt_m2/peak-motifs_oligos_6-8nt_m2_vs_db_footprintDB-plants
	alignments_1ton	$RSAT/public_html/tmp/www-data/2025/06/19/peak-motifs.2025-06-19.092322_2025-06-19.092322_shBOom/results/discovered_motifs/oligos_6-8nt_m2/peak-motifs_oligos_6-8nt_m2_vs_db_footprintDB-plants_alignments_1ton.tab
	alignments_1ton_html	$RSAT/public_html/tmp/www-data/2025/06/19/peak-motifs.2025-06-19.092322_2025-06-19.092322_shBOom/results/discovered_motifs/oligos_6-8nt_m2/peak-motifs_oligos_6-8nt_m2_vs_db_footprintDB-plants_alignments_1ton.html
 Matrices
	file1	1 matrices	$RSAT/public_html/tmp/www-data/2025/06/19/peak-motifs.2025-06-19.092322_2025-06-19.092322_shBOom/results/discovered_motifs/oligos_6-8nt_m2/peak-motifs_oligos_6-8nt_m2.tf
		file1	1	11	139
	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
oligos_6-8nt_m2 ZFHD10-3/EEAD0065/EEADannot oligos_6-8nt_m2 ZFHD10-3:EEAD0065:EEADannot 0.715 0.650 11 10 10 11 0.9091 0.9091 1.0000 D 0
oligos_6-8nt_m2 Zm00001d018571/MA1822.1/JASPAR oligos_6-8nt_m2 Zm00001d018571:MA1822.1:JASPAR 0.711 0.601 11 13 11 13 0.8462 1.0000 0.8462 D -2
oligos_6-8nt_m2 PRH/M1167_1.02/CISBP oligos_6-8nt_m2 PRH:M1167_1.02:CISBP 0.769 0.560 11 8 8 11 0.7273 0.7273 1.0000 D 3
oligos_6-8nt_m2 TRANSCRIPTION/1qn7_B/3D-footprint oligos_6-8nt_m2 TRANSCRIPTION:1qn7_B:3D-footprint 0.740 0.538 11 8 8 11 0.7273 0.7273 1.0000 R 2
oligos_6-8nt_m2 Zm00001d018571/MA1822.2/JASPAR oligos_6-8nt_m2 Zm00001d018571:MA1822.2:JASPAR 0.724 0.526 11 8 8 11 0.7273 0.7273 1.0000 D 1
oligos_6-8nt_m2 AHL13/MA2374.1/JASPAR oligos_6-8nt_m2 AHL13:MA2374.1:JASPAR 0.712 0.518 11 8 8 11 0.7273 0.7273 1.0000 D 3
oligos_6-8nt_m2 TFLG2-Zm00001d042777/MA1835.2/JASPAR oligos_6-8nt_m2 TFLG2-Zm00001d042777:MA1835.2:JASPAR 0.711 0.517 11 8 8 11 0.7273 0.7273 1.0000 D 1
oligos_6-8nt_m2 LOC_Os09g31400/M0683_1.02/CISBP oligos_6-8nt_m2 LOC_Os09g31400:M0683_1.02:CISBP 0.714 0.494 11 11 9 13 0.6923 0.8182 0.8182 R -2
oligos_6-8nt_m2 OsEIL3/MA2351.1/JASPAR oligos_6-8nt_m2 OsEIL3:MA2351.1:JASPAR 0.840 0.490 11 8 7 12 0.5833 0.6364 0.8750 D -1
oligos_6-8nt_m2 TEIL/TEIL/Athamap oligos_6-8nt_m2 TEIL:TEIL:Athamap 0.799 0.466 11 8 7 12 0.5833 0.6364 0.8750 R -1
oligos_6-8nt_m2 Q9ZWK1_TOBAC/M2889_1.02/CISBP oligos_6-8nt_m2 Q9ZWK1_TOBAC:M2889_1.02:CISBP 0.799 0.466 11 8 7 12 0.5833 0.6364 0.8750 R -1
oligos_6-8nt_m2 ARR18/MA0948.2/JASPAR oligos_6-8nt_m2 ARR18:MA0948.2:JASPAR 0.723 0.460 11 7 7 11 0.6364 0.6364 1.0000 D 3
oligos_6-8nt_m2 EIL3/MA1751.2/JASPAR oligos_6-8nt_m2 EIL3:MA1751.2:JASPAR 0.780 0.455 11 8 7 12 0.5833 0.6364 0.8750 D -1
oligos_6-8nt_m2 AT3G49930/UN0355.2/JASPAR oligos_6-8nt_m2 AT3G49930:UN0355.2:JASPAR 0.715 0.455 11 7 7 11 0.6364 0.6364 1.0000 D 2
oligos_6-8nt_m2 bZIP65/EEAD0071/EEADannot oligos_6-8nt_m2 bZIP65:EEAD0071:EEADannot 0.791 0.431 11 6 6 11 0.5455 0.5455 1.0000 D 2
oligos_6-8nt_m2 EIL1/M0681_1.02/CISBP oligos_6-8nt_m2 EIL1:M0681_1.02:CISBP 0.755 0.406 11 9 7 13 0.5385 0.6364 0.7778 R -2 
 Host name	rsat
 Job started	2025-06-19.092343
 Job done	2025-06-19.092345
 Seconds	1.37
	user	1.37
	system	0.07
	cuser	0.2
;	csystem	0.05