Myogenin_Rep2_motifs50/results/discovered_motifs/dyads_m1/peak-motifs_dyads_m1_vs_db_jaspar_core_nonredundant_vertebrates.tab 
 compare-matrices  -v 1 -mode matches -format1 transfac -file1 Myogenin_Rep2_motifs50/results/discovered_motifs/dyads_m1/peak-motifs_dyads_m1.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_m1/peak-motifs_dyads_m1_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_m1/peak-motifs_dyads_m1.tf
 Output files
	alignments_1ton	Myogenin_Rep2_motifs50/results/discovered_motifs/dyads_m1/peak-motifs_dyads_m1_vs_db_jaspar_core_nonredundant_vertebrates_alignments_1ton.tab
	match_table_txt	Myogenin_Rep2_motifs50/results/discovered_motifs/dyads_m1/peak-motifs_dyads_m1_vs_db_jaspar_core_nonredundant_vertebrates.tab
	html_index   	Myogenin_Rep2_motifs50/results/discovered_motifs/dyads_m1/peak-motifs_dyads_m1_vs_db_jaspar_core_nonredundant_vertebrates_index.html
	alignments_1ton_html	Myogenin_Rep2_motifs50/results/discovered_motifs/dyads_m1/peak-motifs_dyads_m1_vs_db_jaspar_core_nonredundant_vertebrates_alignments_1ton.html
	match_table_html	Myogenin_Rep2_motifs50/results/discovered_motifs/dyads_m1/peak-motifs_dyads_m1_vs_db_jaspar_core_nonredundant_vertebrates.html
	prefix       	Myogenin_Rep2_motifs50/results/discovered_motifs/dyads_m1/peak-motifs_dyads_m1_vs_db_jaspar_core_nonredundant_vertebrates
 Matrices
	file1	1 matrices	Myogenin_Rep2_motifs50/results/discovered_motifs/dyads_m1/peak-motifs_dyads_m1.tf
		file1	1	19	72
	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_m1 MA0499.2 dyads_m1dyads_m1 MYOD1 0.796 0.544 19 13 13 19 0.6842 0.6842 1.0000 R 1
dyads_m1 MA0832.1 dyads_m1dyads_m1 Tcf21 0.739 0.544 19 14 14 19 0.7368 0.7368 1.0000 D 1
dyads_m1 MA1485.1 dyads_m1dyads_m1 FERD3L 0.726 0.535 19 14 14 19 0.7368 0.7368 1.0000 R 1
dyads_m1 MA0500.2 dyads_m1dyads_m1 MYOG 0.820 0.518 19 12 12 19 0.6316 0.6316 1.0000 D 2
dyads_m1 MA0521.1 dyads_m1dyads_m1 Tcf12 0.872 0.505 19 11 11 19 0.5789 0.5789 1.0000 D 3
dyads_m1 MA1641.1 dyads_m1dyads_m1 MYF5 0.783 0.494 19 12 12 19 0.6316 0.6316 1.0000 D 2
dyads_m1 MA1619.1 dyads_m1dyads_m1 Ptf1a(var.2) 0.776 0.490 19 12 12 19 0.6316 0.6316 1.0000 D 2
dyads_m1 MA1467.1 dyads_m1dyads_m1 ATOH1(var.2) 0.889 0.468 19 10 10 19 0.5263 0.5263 1.0000 R 3
dyads_m1 MA0816.1 dyads_m1dyads_m1 Ascl2 0.870 0.458 19 10 10 19 0.5263 0.5263 1.0000 R 3
dyads_m1 MA1472.1 dyads_m1dyads_m1 BHLHA15(var.2) 0.861 0.453 19 10 10 19 0.5263 0.5263 1.0000 R 3
dyads_m1 MA1100.2 dyads_m1dyads_m1 ASCL1 0.851 0.448 19 10 10 19 0.5263 0.5263 1.0000 R 3
dyads_m1 MA1635.1 dyads_m1dyads_m1 BHLHE22(var.2) 0.839 0.441 19 10 10 19 0.5263 0.5263 1.0000 D 3
dyads_m1 MA0665.1 dyads_m1dyads_m1 MSC 0.815 0.429 19 10 10 19 0.5263 0.5263 1.0000 D 3
dyads_m1 MA0691.1 dyads_m1dyads_m1 TFAP4 0.790 0.416 19 10 10 19 0.5263 0.5263 1.0000 R 3
dyads_m1 MA0048.2 dyads_m1dyads_m1 NHLH1 0.785 0.413 19 10 10 19 0.5263 0.5263 1.0000 D 3
dyads_m1 MA1648.1 dyads_m1dyads_m1 TCF12(var.2) 0.701 0.406 19 11 11 19 0.5789 0.5789 1.0000 D 3
dyads_m1 MA0667.1 dyads_m1dyads_m1 MYF6 0.766 0.403 19 10 10 19 0.5263 0.5263 1.0000 R 3 
 Host name	pedagogix
 Job started	2020-04-13.235640
 Job done	2020-04-13.235657
 Seconds	2.72
	user	2.72
	system	0.29
	cuser	13.12
;	csystem	0.9