/var/www/html/rsat/public_html/tmp/www-data/2026/03/30/peak-motifs.2026-03-30.203840_2026-03-30.203840_4XF5yR/results/discovered_vs_db/peak-motifs_motifs_vs_db_Homer.tab 
 compare-matrices  -v 1 -mode matches -format1 transfac -file1 $RSAT/public_html/tmp/www-data/2026/03/30/peak-motifs.2026-03-30.203840_2026-03-30.203840_4XF5yR/results/discovered_motifs/peak-motifs_motifs_discovered.tf -format2 tf -file2 $RSAT/public_html/motif_databases/Homer/Homer_motifs.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/2026/03/30/peak-motifs.2026-03-30.203840_2026-03-30.203840_4XF5yR/results/discovered_vs_db/peak-motifs_motifs_vs_db_Homer.tab
 Program version       	1.118
 Quick mode 
 Input files
	file2 	$RSAT/public_html/motif_databases/Homer/Homer_motifs.tf
	file1 	$RSAT/public_html/tmp/www-data/2026/03/30/peak-motifs.2026-03-30.203840_2026-03-30.203840_4XF5yR/results/discovered_motifs/peak-motifs_motifs_discovered.tf
 Output files
	match_table_html	$RSAT/public_html/tmp/www-data/2026/03/30/peak-motifs.2026-03-30.203840_2026-03-30.203840_4XF5yR/results/discovered_vs_db/peak-motifs_motifs_vs_db_Homer.html
	alignments_1ton	$RSAT/public_html/tmp/www-data/2026/03/30/peak-motifs.2026-03-30.203840_2026-03-30.203840_4XF5yR/results/discovered_vs_db/peak-motifs_motifs_vs_db_Homer_alignments_1ton.tab
	alignments_1ton_html	$RSAT/public_html/tmp/www-data/2026/03/30/peak-motifs.2026-03-30.203840_2026-03-30.203840_4XF5yR/results/discovered_vs_db/peak-motifs_motifs_vs_db_Homer_alignments_1ton.html
	html_index   	$RSAT/public_html/tmp/www-data/2026/03/30/peak-motifs.2026-03-30.203840_2026-03-30.203840_4XF5yR/results/discovered_vs_db/peak-motifs_motifs_vs_db_Homer_index.html
	prefix       	$RSAT/public_html/tmp/www-data/2026/03/30/peak-motifs.2026-03-30.203840_2026-03-30.203840_4XF5yR/results/discovered_vs_db/peak-motifs_motifs_vs_db_Homer
	match_table_txt	$RSAT/public_html/tmp/www-data/2026/03/30/peak-motifs.2026-03-30.203840_2026-03-30.203840_4XF5yR/results/discovered_vs_db/peak-motifs_motifs_vs_db_Homer.tab
 Matrices
	file1	10 matrices	$RSAT/public_html/tmp/www-data/2026/03/30/peak-motifs.2026-03-30.203840_2026-03-30.203840_4XF5yR/results/discovered_motifs/peak-motifs_motifs_discovered.tf
		file1	1	11	417
		file1	2	11	359
		file1	3	15	291
		file1	4	11	308
		file1	5	10	247
		file1	6	11	302
		file1	7	13	173
		file1	8	11	177
		file1	9	11	194
		file1	10	11	212
	file2	332 matrices	$RSAT/public_html/motif_databases/Homer/Homer_motifs.tf
		file2		1		14		100.1
		file2		2		10		100.1
		file2		3		10		100.1
		file2		4		15		289
		file2		5		20		293.29
		file2		6		20		625.62
		file2		7		15		481.01
		file2		8		8		4075.01
		file2		9		10		100.1
		file2		10		10		100
		file2		11		10		100
		...	322 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_mkv4_m5 homer_185_AAGCACTTAA oligos_7nt_mkv4_m5 homer_185_AAGCACTTAA 0.842 0.765 11 10 10 11 0.9091 0.9091 1.0000 R 0
oligos_6nt_mkv3_m2 homer_323_ZNF416 oligos_6nt_mkv3_m2 homer_323_ZNF416 0.786 0.714 11 10 10 11 0.9091 0.9091 1.0000 R 1
oligos_7nt_mkv4_m5 homer_18_Bapx1 oligos_7nt_mkv4_m5 homer_18_Bapx1 0.784 0.713 11 10 10 11 0.9091 0.9091 1.0000 D 0
oligos_6nt_mkv3_m3 homer_266_Sp1 oligos_6nt_mkv3_m3 homer_266_Sp1 0.887 0.710 15 12 12 15 0.8000 0.8000 1.0000 D 2
oligos_6nt_mkv3_m3 homer_146_KLF3 oligos_6nt_mkv3_m3 homer_146_KLF3 0.794 0.694 15 15 14 16 0.8750 0.9333 0.9333 D 1
oligos_6nt_mkv3_m3 homer_145_KLF14 oligos_6nt_mkv3_m3 homer_145_KLF14 0.835 0.668 15 12 12 15 0.8000 0.8000 1.0000 R 3
oligos_7nt_mkv4_m5 homer_184_AASCACTCAA oligos_7nt_mkv4_m5 homer_184_AASCACTCAA 0.726 0.660 11 10 10 11 0.9091 0.9091 1.0000 R 0
oligos_6nt_mkv3_m4 homer_266_Sp1 oligos_6nt_mkv3_m4 homer_266_Sp1 0.795 0.611 11 12 10 13 0.7692 0.9091 0.8333 D 1
oligos_6nt_mkv3_m3 homer_149_Klf9 oligos_6nt_mkv3_m3 homer_149_Klf9 0.755 0.604 15 12 12 15 0.8000 0.8000 1.0000 D 3
oligos_7nt_mkv4_m2 homer_203_Otx2 oligos_7nt_mkv4_m2 homer_203_Otx2 0.774 0.596 13 10 10 13 0.7692 0.7692 1.0000 R 1
oligos_7nt_mkv4_m2 homer_225_Pitx1 oligos_7nt_mkv4_m2 homer_225_Pitx1 0.933 0.574 13 8 8 13 0.6154 0.6154 1.0000 R 1
oligos_6nt_mkv3_m2 homer_312_Zic oligos_6nt_mkv3_m2 homer_312_Zic 0.760 0.570 11 10 9 12 0.7500 0.8182 0.9000 R 2
oligos_6nt_mkv3_m1 homer_317_Znf263 oligos_6nt_mkv3_m1 homer_317_Znf263 0.746 0.559 11 10 9 12 0.7500 0.8182 0.9000 D -1
oligos_7nt_mkv4_m5 homer_182_RSCACTYRAG oligos_7nt_mkv4_m5 homer_182_RSCACTYRAG 0.745 0.559 11 10 9 12 0.7500 0.8182 0.9000 R -1
oligos_6nt_mkv3_m3 homer_148_KLF5 oligos_6nt_mkv3_m3 homer_148_KLF5 0.830 0.553 15 10 10 15 0.6667 0.6667 1.0000 R 3
oligos_6nt_mkv3_m2 homer_272_ATTTCCCAGVAKSCY oligos_6nt_mkv3_m2 homer_272_ATTTCCCAGVAKSCY 0.746 0.547 11 15 11 15 0.7333 1.0000 0.7333 D -1
oligos_7nt_mkv4_m2 homer_120_GSC oligos_7nt_mkv4_m2 homer_120_GSC 0.870 0.535 13 8 8 13 0.6154 0.6154 1.0000 D 2
oligos_7nt_mkv4_m5 homer_123_RTACGTGC oligos_7nt_mkv4_m5 homer_123_RTACGTGC 0.726 0.528 11 8 8 11 0.7273 0.7273 1.0000 D 0
oligos_7nt_mkv4_m5 homer_157_MafF oligos_7nt_mkv4_m5 homer_157_MafF 0.714 0.523 11 15 11 15 0.7333 1.0000 0.7333 R 0
oligos_6nt_mkv3_m5 homer_326_ZNF519 oligos_6nt_mkv3_m5 homer_326_ZNF519 0.895 0.482 10 10 7 13 0.5385 0.7000 0.7000 D -3
oligos_7nt_mkv4_m2 homer_42_CRX oligos_7nt_mkv4_m2 homer_42_CRX 0.769 0.473 13 8 8 13 0.6154 0.6154 1.0000 R 3
oligos_6nt_mkv3_m3 homer_160_Maz oligos_6nt_mkv3_m3 homer_160_Maz 0.882 0.470 15 8 8 15 0.5333 0.5333 1.0000 R 4
oligos_7nt_mkv4_m4 homer_289_Tcf4 oligos_7nt_mkv4_m4 homer_289_Tcf4 0.705 0.453 11 12 9 14 0.6429 0.8182 0.7500 D -3
oligos_6nt_mkv3_m1 homer_63_Egr2 oligos_6nt_mkv3_m1 homer_63_Egr2 0.705 0.453 11 12 9 14 0.6429 0.8182 0.7500 R 2
oligos_7nt_mkv4_m5 homer_16_Bach1 oligos_7nt_mkv4_m5 homer_16_Bach1 0.713 0.445 11 15 10 16 0.6250 0.9091 0.6667 D 1
oligos_7nt_mkv4_m5 homer_124_HIF2a oligos_7nt_mkv4_m5 homer_124_HIF2a 0.703 0.433 11 10 8 13 0.6154 0.7273 0.8000 R -2
oligos_6nt_mkv3_m3 homer_63_Egr2 oligos_6nt_mkv3_m3 homer_63_Egr2 0.724 0.426 15 12 10 17 0.5882 0.6667 0.8333 R 5
oligos_6nt_mkv3_m2 homer_245_Ronin oligos_6nt_mkv3_m2 homer_245_Ronin 0.764 0.420 11 20 11 20 0.5500 1.0000 0.5500 D -7
oligos_6nt_mkv3_m2 homer_147_Klf4 oligos_6nt_mkv3_m2 homer_147_Klf4 0.835 0.417 11 10 7 14 0.5000 0.6364 0.7000 D -3
oligos_7nt_mkv4_m4 homer_262_Sox3 oligos_7nt_mkv4_m4 homer_262_Sox3 0.710 0.414 11 8 7 12 0.5833 0.6364 0.8750 R -1
oligos_7nt_mkv4_m2 homer_214_Pax7 oligos_7nt_mkv4_m2 homer_214_Pax7 0.732 0.412 13 12 9 16 0.5625 0.6923 0.7500 R -3
oligos_6nt_mkv3_m2 homer_310_Zfp809 oligos_6nt_mkv3_m2 homer_310_Zfp809 0.777 0.412 11 15 9 17 0.5294 0.8182 0.6000 R 2
oligos_6nt_mkv3_m2 homer_74_CACAGCAGGGGG oligos_6nt_mkv3_m2 homer_74_CACAGCAGGGGG 0.767 0.409 11 12 8 15 0.5333 0.7273 0.6667 D 3
oligos_6nt_mkv3_m2 homer_111_CGGCTGCNGNNNNCAGATAA oligos_6nt_mkv3_m2 homer_111_CGGCTGCNGNNNNCAGATAA 0.742 0.408 11 20 11 20 0.5500 1.0000 0.5500 R -9
oligos_6nt_mkv3_m2 homer_115_AACTACAATTCCCAGAATGC oligos_6nt_mkv3_m2 homer_115_AACTACAATTCCCAGAATGC 0.730 0.402 11 20 11 20 0.5500 1.0000 0.5500 D -7
oligos_7nt_mkv4_m4 homer_290_TCFL2 oligos_7nt_mkv4_m4 homer_290_TCFL2 0.802 0.401 11 10 7 14 0.5000 0.6364 0.7000 D -3 
 Host name	rsat
 Job started	2026-03-30.203926
 Job done	2026-03-30.203937
 Seconds	1.17
	user	1.17
	system	0.6
	cuser	8.14
;	csystem	1.11