Myogenin_Rep3_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_Rep3_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_Rep3_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_Rep3_motifs50/results/discovered_motifs/dyads_m1/peak-motifs_dyads_m1.tf
 Output files
	alignments_1ton	Myogenin_Rep3_motifs50/results/discovered_motifs/dyads_m1/peak-motifs_dyads_m1_vs_db_jaspar_core_nonredundant_vertebrates_alignments_1ton.tab
	match_table_txt	Myogenin_Rep3_motifs50/results/discovered_motifs/dyads_m1/peak-motifs_dyads_m1_vs_db_jaspar_core_nonredundant_vertebrates.tab
	html_index   	Myogenin_Rep3_motifs50/results/discovered_motifs/dyads_m1/peak-motifs_dyads_m1_vs_db_jaspar_core_nonredundant_vertebrates_index.html
	alignments_1ton_html	Myogenin_Rep3_motifs50/results/discovered_motifs/dyads_m1/peak-motifs_dyads_m1_vs_db_jaspar_core_nonredundant_vertebrates_alignments_1ton.html
	match_table_html	Myogenin_Rep3_motifs50/results/discovered_motifs/dyads_m1/peak-motifs_dyads_m1_vs_db_jaspar_core_nonredundant_vertebrates.html
	prefix       	Myogenin_Rep3_motifs50/results/discovered_motifs/dyads_m1/peak-motifs_dyads_m1_vs_db_jaspar_core_nonredundant_vertebrates
 Matrices
	file1	1 matrices	Myogenin_Rep3_motifs50/results/discovered_motifs/dyads_m1/peak-motifs_dyads_m1.tf
		file1	1	16	28
	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 MA1571.1 dyads_m1dyads_m1 TGIF2LX 0.923 0.692 16 12 12 16 0.7500 0.7500 1.0000 R 2
dyads_m1 MA0796.1 dyads_m1dyads_m1 TGIF1 0.921 0.691 16 12 12 16 0.7500 0.7500 1.0000 D 2
dyads_m1 MA1572.1 dyads_m1dyads_m1 TGIF2LY 0.914 0.686 16 12 12 16 0.7500 0.7500 1.0000 R 2
dyads_m1 MA0797.1 dyads_m1dyads_m1 TGIF2 0.906 0.679 16 12 12 16 0.7500 0.7500 1.0000 D 2
dyads_m1 MA1641.1 dyads_m1dyads_m1 MYF5 0.879 0.659 16 12 12 16 0.7500 0.7500 1.0000 R 2
dyads_m1 MA0783.1 dyads_m1dyads_m1 PKNOX2 0.863 0.647 16 12 12 16 0.7500 0.7500 1.0000 R 2
dyads_m1 MA1619.1 dyads_m1dyads_m1 Ptf1a(var.2) 0.861 0.646 16 12 12 16 0.7500 0.7500 1.0000 D 2
dyads_m1 MA0832.1 dyads_m1dyads_m1 Tcf21 0.712 0.623 16 14 14 16 0.8750 0.8750 1.0000 R 1
dyads_m1 MA0500.2 dyads_m1dyads_m1 MYOG 0.822 0.617 16 12 12 16 0.7500 0.7500 1.0000 R 2
dyads_m1 MA0499.2 dyads_m1dyads_m1 MYOD1 0.723 0.587 16 13 13 16 0.8125 0.8125 1.0000 D 2
dyads_m1 MA0521.1 dyads_m1dyads_m1 Tcf12 0.834 0.573 16 11 11 16 0.6875 0.6875 1.0000 D 3
dyads_m1 MA1467.1 dyads_m1dyads_m1 ATOH1(var.2) 0.903 0.565 16 10 10 16 0.6250 0.6250 1.0000 D 3
dyads_m1 MA1620.1 dyads_m1dyads_m1 Ptf1a(var.3) 0.727 0.545 16 12 12 16 0.7500 0.7500 1.0000 D 2
dyads_m1 MA1472.1 dyads_m1dyads_m1 BHLHA15(var.2) 0.853 0.533 16 10 10 16 0.6250 0.6250 1.0000 D 3
dyads_m1 MA1593.1 dyads_m1dyads_m1 ZNF317 0.709 0.531 16 12 12 16 0.7500 0.7500 1.0000 R 2
dyads_m1 MA1635.1 dyads_m1dyads_m1 BHLHE22(var.2) 0.845 0.528 16 10 10 16 0.6250 0.6250 1.0000 D 3
dyads_m1 MA1100.2 dyads_m1dyads_m1 ASCL1 0.821 0.513 16 10 10 16 0.6250 0.6250 1.0000 D 3
dyads_m1 MA0691.1 dyads_m1dyads_m1 TFAP4 0.802 0.501 16 10 10 16 0.6250 0.6250 1.0000 D 3
dyads_m1 MA0665.1 dyads_m1dyads_m1 MSC 0.796 0.497 16 10 10 16 0.6250 0.6250 1.0000 D 3
dyads_m1 MA0816.1 dyads_m1dyads_m1 Ascl2 0.794 0.496 16 10 10 16 0.6250 0.6250 1.0000 R 3
dyads_m1 MA0667.1 dyads_m1dyads_m1 MYF6 0.765 0.478 16 10 10 16 0.6250 0.6250 1.0000 R 3
dyads_m1 MA0820.1 dyads_m1dyads_m1 FIGLA 0.701 0.438 16 10 10 16 0.6250 0.6250 1.0000 R 3
dyads_m1 MA0774.1 dyads_m1dyads_m1 MEIS2 0.812 0.406 16 8 8 16 0.5000 0.5000 1.0000 R 7 
 Host name	pedagogix
 Job started	2020-04-13.204702
 Job done	2020-04-13.204718
 Seconds	2.18
	user	2.18
	system	0.32
	cuser	12.2
;	csystem	1.11