Myogenin_Rep2_motifs50/results/discovered_motifs/dyads_m25/peak-motifs_dyads_m25_vs_db_jaspar_core_nonredundant_vertebrates.tab 
 compare-matrices  -v 1 -mode matches -format1 transfac -file1 Myogenin_Rep2_motifs50/results/discovered_motifs/dyads_m25/peak-motifs_dyads_m25.tf -format2 tf -file2 $RSAT/public_html/motif_databases/JASPAR/Jaspar_2020/nonredundant/JASPAR2020_CORE_vertebrates_non-redundant_pfms.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 Myogenin_Rep2_motifs50/results/discovered_motifs/dyads_m25/peak-motifs_dyads_m25_vs_db_jaspar_core_nonredundant_vertebrates
 Program version       	1.118
 Quick mode 
 Input files
	file2 	$RSAT/public_html/motif_databases/JASPAR/Jaspar_2020/nonredundant/JASPAR2020_CORE_vertebrates_non-redundant_pfms.tf
	file1 	Myogenin_Rep2_motifs50/results/discovered_motifs/dyads_m25/peak-motifs_dyads_m25.tf
 Output files
	alignments_1ton	Myogenin_Rep2_motifs50/results/discovered_motifs/dyads_m25/peak-motifs_dyads_m25_vs_db_jaspar_core_nonredundant_vertebrates_alignments_1ton.tab
	match_table_txt	Myogenin_Rep2_motifs50/results/discovered_motifs/dyads_m25/peak-motifs_dyads_m25_vs_db_jaspar_core_nonredundant_vertebrates.tab
	html_index   	Myogenin_Rep2_motifs50/results/discovered_motifs/dyads_m25/peak-motifs_dyads_m25_vs_db_jaspar_core_nonredundant_vertebrates_index.html
	alignments_1ton_html	Myogenin_Rep2_motifs50/results/discovered_motifs/dyads_m25/peak-motifs_dyads_m25_vs_db_jaspar_core_nonredundant_vertebrates_alignments_1ton.html
	match_table_html	Myogenin_Rep2_motifs50/results/discovered_motifs/dyads_m25/peak-motifs_dyads_m25_vs_db_jaspar_core_nonredundant_vertebrates.html
	prefix       	Myogenin_Rep2_motifs50/results/discovered_motifs/dyads_m25/peak-motifs_dyads_m25_vs_db_jaspar_core_nonredundant_vertebrates
 Matrices
	file1	1 matrices	Myogenin_Rep2_motifs50/results/discovered_motifs/dyads_m25/peak-motifs_dyads_m25.tf
		file1	1	10	419
	file2	746 matrices	$RSAT/public_html/motif_databases/JASPAR/Jaspar_2020/nonredundant/JASPAR2020_CORE_vertebrates_non-redundant_pfms.tf
		file2		1		6		24
		file2		2		17		100
		file2		3		10		9897
		file2		4		17		101
		file2		5		17		3851
		file2		6		10		25318
		file2		7		6		27
		file2		8		11		1001
		file2		9		14		101
		file2		10		6		20
		file2		11		8		104
		...	736 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
dyads_m25 MA0067.1 dyads_m25dyads_m25 Pax2 0.831 0.665 10 8 8 10 0.8000 0.8000 1.0000 R 1
dyads_m25 MA1110.1 dyads_m25dyads_m25 NR1H4 0.712 0.647 10 11 10 11 0.9091 1.0000 0.9091 D 0
dyads_m25 MA0498.2 dyads_m25dyads_m25 MEIS1 0.816 0.571 10 7 7 10 0.7000 0.7000 1.0000 D 3
dyads_m25 MA0782.2 dyads_m25dyads_m25 PKNOX1 0.840 0.560 10 15 10 15 0.6667 1.0000 0.6667 D -2
dyads_m25 MA0775.1 dyads_m25dyads_m25 MEIS3 0.832 0.530 10 8 7 11 0.6364 0.7000 0.8750 D 3
dyads_m25 MA0774.1 dyads_m25dyads_m25 MEIS2 0.777 0.495 10 8 7 11 0.6364 0.7000 0.8750 D 3
dyads_m25 MA1114.1 dyads_m25dyads_m25 PBX3 0.821 0.483 10 17 10 17 0.5882 1.0000 0.5882 D -3
dyads_m25 MA0160.1 dyads_m25dyads_m25 NR4A2 0.727 0.463 10 8 7 11 0.6364 0.7000 0.8750 R 3
dyads_m25 MA0609.2 dyads_m25dyads_m25 CREM 0.707 0.442 10 16 10 16 0.6250 1.0000 0.6250 D 0
dyads_m25 MA1535.1 dyads_m25dyads_m25 NR2C1 0.746 0.435 10 9 7 12 0.5833 0.7000 0.7778 R 3
dyads_m25 MA0673.1 dyads_m25dyads_m25 NKX2-8 0.711 0.415 10 9 7 12 0.5833 0.7000 0.7778 R -2
dyads_m25 MA1143.1 dyads_m25dyads_m25 FOSL1::JUND(var.2) 0.744 0.401 10 10 7 13 0.5385 0.7000 0.7000 D 3 
 Host name	pedagogix
 Job started	2020-04-14.000404
 Job done	2020-04-14.000417
 Seconds	2.25
	user	2.25
	system	0.3
	cuser	9.86
;	csystem	0.71