/vh/rsat/rsat/public_html/tmp/apache/2014/10/07/peak-motifs.2014-10-07.150329_2014-10-07.150329_sPZtpE/results/discovered_vs_db/peak-motifs_motifs_vs_db_jaspar_core_vertebrates.tab 
 compare-matrices  -v 1 -mode matches -format1 transfac -file1 $RSAT/public_html/tmp/apache/2014/10/07/peak-motifs.2014-10-07.150329_2014-10-07.150329_sPZtpE/results/discovered_motifs/peak-motifs_motifs_discovered.tf -format2 tf -file2 $RSAT/public_html/data/motif_databases/JASPAR/jaspar_core_vertebrates_2013-11.tf -mode matches -DR -uth offset_rank 1 -lth w 5 -lth Wr 0.3 -lth cor 0.75 -lth Ncor 0.4 -return matrix_name,matrix_id,cor,Ncor,logoDP,NIcor,NsEucl,SSD,NSW,match_rank,width,strand,offset,consensus,alignments_1ton -sort Ncor -o $RSAT/public_html/tmp/apache/2014/10/07/peak-motifs.2014-10-07.150329_2014-10-07.150329_sPZtpE/results/discovered_vs_db/peak-motifs_motifs_vs_db_jaspar_core_vertebrates.tab
 Program version       	1.118
 Input files
	file2 	$RSAT/public_html/data/motif_databases/JASPAR/jaspar_core_vertebrates_2013-11.tf
	file1 	$RSAT/public_html/tmp/apache/2014/10/07/peak-motifs.2014-10-07.150329_2014-10-07.150329_sPZtpE/results/discovered_motifs/peak-motifs_motifs_discovered.tf
 Output files
	alignments_1ton	$RSAT/public_html/tmp/apache/2014/10/07/peak-motifs.2014-10-07.150329_2014-10-07.150329_sPZtpE/results/discovered_vs_db/peak-motifs_motifs_vs_db_jaspar_core_vertebrates_alignments_1ton.tab
	match_table_txt	$RSAT/public_html/tmp/apache/2014/10/07/peak-motifs.2014-10-07.150329_2014-10-07.150329_sPZtpE/results/discovered_vs_db/peak-motifs_motifs_vs_db_jaspar_core_vertebrates.tab
	html_index   	$RSAT/public_html/tmp/apache/2014/10/07/peak-motifs.2014-10-07.150329_2014-10-07.150329_sPZtpE/results/discovered_vs_db/peak-motifs_motifs_vs_db_jaspar_core_vertebrates_index.html
	alignments_1ton_html	$RSAT/public_html/tmp/apache/2014/10/07/peak-motifs.2014-10-07.150329_2014-10-07.150329_sPZtpE/results/discovered_vs_db/peak-motifs_motifs_vs_db_jaspar_core_vertebrates_alignments_1ton.html
	match_table_html	$RSAT/public_html/tmp/apache/2014/10/07/peak-motifs.2014-10-07.150329_2014-10-07.150329_sPZtpE/results/discovered_vs_db/peak-motifs_motifs_vs_db_jaspar_core_vertebrates.html
	prefix       	$RSAT/public_html/tmp/apache/2014/10/07/peak-motifs.2014-10-07.150329_2014-10-07.150329_sPZtpE/results/discovered_vs_db/peak-motifs_motifs_vs_db_jaspar_core_vertebrates
 Matrices
	file1	15 matrices	$RSAT/public_html/tmp/apache/2014/10/07/peak-motifs.2014-10-07.150329_2014-10-07.150329_sPZtpE/results/discovered_motifs/peak-motifs_motifs_discovered.tf
		file1	1	16	1378	sssgCCGCCCCGCCss
		file1	2	22	619	ssgGCCGCCCCvGGGCaGggss
		file1	3	11	522	ssAGGGAGCcg
		file1	4	24	1224	sssssscgCGCCCCGCCCvsssss
		file1	5	24	653	sssccvGCCCCGCCCCvGggCsss
		file1	6	14	1267	csGCCCCaGGgcss
		file1	7	11	241	skCCTCAGGys
		file1	8	13	2032	ssCcCCGCCCCss
		file1	9	12	76	ssGmGGGmGGcG
		file1	10	12	102	CrCACACACACr
		file1	11	24	207	ssCtGCCCtssGGCCaggGCCcsg
		...	5 more matrices
	file2	263 matrices	$RSAT/public_html/data/motif_databases/JASPAR/jaspar_core_vertebrates_2013-11.tf
		file2		1		11		26		wwyTGyGGTww
		file2		2		9		185		GCCcbrrGs
		file2		3		6		20		CACGTG
		file2		4		6		24		yGCGTG
		file2		5		22		24		hwwrGmACryyvtGTwCchrms
		file2		6		11		40		CTAGGTGTGAA
		file2		7		20		12		drvkcasygrwGcRkrrCsr
		file2		8		14		13		TGAmCTTTGmmCyt
		file2		9		12		16		bbkGrTGACGym
		file2		10		12		39		rrrTGCAATmcc
		file2		11		8		10		TTTsGCGC
		...	253 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	logoDP       	Dot product between the logo matrices.
	8	NIcor        	Normalized Pearson correlation between the information content matrices. NIcor = Icor * Wr
	9	NSW          	Normalized Sandelin-Wasserman similarity. NSW = SW/w
	10	SSD          	sum of squared distance.
	11	NsEucl       	relative Euclidian similarity. NsEucl = (max(dEucl) - dEucl)/max(dEucl)
	12	w1           	Width of the first matrix
	13	w2           	Width of the second matrix
	14	w            	Alignment length (number of overlapping columns between matrix 1 and matrix 2, as a function of the offset)
	15	W            	Total alignment length (overlapping + non-overlapping columns). W = w1 + w2 - w
	16	Wr           	Relative alignment length (overlap divided by the total alignemnt length). Wr = w/W
	17	wr1          	Alignment length relative to the width of the first matrix. wr1 = w/w1
	18	wr2          	Alignment length relative to the width of the second matrix. wr2 = w/w2
	19	strand       	"strand", i.e. orientation of matrix 2 relative to matrix 1 (D=direct;  R=reverse)
	20	offset       	shift of the second matrix relative to the first matrix (negative:left; positive: right)
	21	consensus1   	IUPAC consensus of matrix 1 (dots represent non-aligned columns)
	22	consensus2   	IUPAC consensus of matrix 2 (dots represent non-aligned columns)
	23	rcor         	Matching rank for cor
	24	rNcor        	Matching rank for Ncor
	25	rlogoDP      	Matching rank for logoDP
	26	rNIcor       	Matching rank for NIcor
	27	rNsEucl      	Matching rank for NsEucl
	28	rSSD         	Matching rank for SSD
	29	rNSW         	Matching rank for NSW
	30	rank_mean    	Mean of the matching ranks on all selected metrics
	31	match_rank   	Rank of the match (sorting by rank_mean)
id1 id2 name1 name2 cor Ncor logoDP NIcor NSW SSD NsEucl w1 w2 w W Wr wr1 wr2 strand offset consensus1 consensus2 rcor rNcor rlogoDP rNIcor rNsEucl rSSD rNSW rank_mean match_rank
oligos_7nt_test_vs_ctrl_m3 MA0079.3 oligos_7nt_test_vs_ctrl_m3 SP1 0.901 0.763 4.496 0.760 0.959 0.8991 0.93905 13 11 11 13 0.8462 0.8462 1.0000 D 1 .sCcCCGCCCCs. gCCCCkCCCCy 1 1 7 1 3 3 3 2.7143 1
oligos_7nt_test_vs_ctrl_m1 MA0524.1 oligos_7nt_test_vs_ctrl_m1 TFAP2C 0.883 0.717 5.323 0.719 0.960 1.0482 0.94431 14 15 13 16 0.8125 0.9286 0.8667 D -2 csGCCCCaGGgcs. ..ydsCCyCAGGsca 7 3 5 3 1 9 2 4.2857 2
oligos_7nt_test_vs_ctrl_m3 MA0516.1 oligos_7nt_test_vs_ctrl_m3 SP2 0.886 0.665 4.462 0.671 0.957 1.0342 0.94008 13 15 12 16 0.7500 0.9231 0.8000 D 1 .sCcCCGCCCCss gyCCCGCCyCyy... 5 7 8 5 2 7 4 5.4286 3
dyads_test_vs_ctrl_m3 MA0003.1 dyads_test_vs_ctrl_m3 TFAP2A 0.890 0.534 4.042 0.521 0.961 0.7051 0.93403 15 9 9 15 0.6000 0.6000 1.0000 D 2 ..GCCbsvsGC.... GCCcbrrGs 3 17 10 13 9 1 1 7.7143 4
oligos_7nt_test_vs_ctrl_m2 MA0524.1 oligos_7nt_test_vs_ctrl_m2 TFAP2C 0.866 0.635 7.711 0.649 0.944 1.2248 0.92886 11 15 11 15 0.7333 1.0000 0.7333 D -3 skCCTCAGGys ...dsCCyCAGGsc. 10 10 1 7 14 10 12 9.1429 5
oligos_7nt_test_vs_ctrl_m1 MA0003.2 oligos_7nt_test_vs_ctrl_m1 TFAP2A 0.841 0.684 5.056 0.681 0.945 1.4415 0.93469 14 15 13 16 0.8125 0.9286 0.8667 D -2 csGCCCCaGGgcs. ..ywGCCysAGGsCa 16 4 6 4 7 20 11 9.7143 6
dyads_test_vs_ctrl_m2 MA0599.1 dyads_test_vs_ctrl_m2 KLF5 0.894 0.526 3.877 0.518 0.953 0.9356 0.93160 17 10 10 17 0.5882 0.5882 1.0000 D 2 ..gCCCCGCCCC..... gCCMCrCCCh 2 20 11 14 12 5 5 9.8571 7
oligos_7nt_test_vs_ctrl_m3 MA0079.2 oligos_7nt_test_vs_ctrl_m3 SP1 0.870 0.670 3.144 0.647 0.948 1.0344 0.92808 13 10 10 13 0.7692 0.7692 1.0000 D 2 ..CcCCGCCCCs. CCCCkCCCCC 9 6 18 8 17 8 8 10.5714 8
oligos_7nt_test_vs_ctrl_m3 MA0162.2 oligos_7nt_test_vs_ctrl_m3 EGR1 0.848 0.678 3.726 0.664 0.945 1.3197 0.93231 13 14 12 15 0.8000 0.9231 0.8571 D 1 .sCcCCGCCCCss sccCCgCCCMCk.. 15 5 14 6 11 16 10 11.0000 9
dyads_test_vs_ctrl_m2 MA0516.1 dyads_test_vs_ctrl_m2 SP2 0.822 0.725 3.755 0.720 0.943 1.6994 0.93855 17 15 15 17 0.8824 0.8824 1.0000 D 2 ..gCCCCGCCCCGCCss gyCCCGCCyCyyccs 20 2 13 2 4 25 13 11.2857 10
oligos_7nt_test_vs_ctrl_m3 MA0599.1 oligos_7nt_test_vs_ctrl_m3 KLF5 0.852 0.655 4.321 0.636 0.936 1.2795 0.92002 13 10 10 13 0.7692 0.7692 1.0000 D 1 .sCcCCGCCCC.. gCCMCrCCCh 13 8 9 9 21 13 18 13.0000 11
dyads_test_vs_ctrl_m2 MA0079.3 dyads_test_vs_ctrl_m2 SP1 0.857 0.554 3.841 0.551 0.942 1.2766 0.92737 17 11 11 17 0.6471 0.6471 1.0000 D 2 ..gCCCCGCCCCG.... gCCCCkCCCCy 11 15 12 11 18 12 15 13.4286 12
oligos_6nt_test_vs_ctrl_m5 MA0079.3 oligos_6nt_test_vs_ctrl_m5 SP1 0.887 0.406 3.477 0.405 0.953 1.0331 0.93466 24 11 11 24 0.4583 0.4583 1.0000 D 6 ......GCCCCGCCCCv....... gCCCCkCCCCy 4 37 16 23 8 6 6 14.2857 13
oligos_6nt_test_vs_ctrl_m3 MA0154.1 oligos_6nt_test_vs_ctrl_m3 EBF1 0.884 0.442 5.690 0.454 0.945 0.7658 0.91160 11 10 7 14 0.5000 0.6364 0.7000 D -3 ssAGGGA.... ...CmaGGGA 6 34 4 22 27 2 9 14.8571 14
oligos_7nt_test_vs_ctrl_m2 MA0003.2 oligos_7nt_test_vs_ctrl_m2 TFAP2A 0.829 0.608 7.182 0.609 0.929 1.5654 0.91957 11 15 11 15 0.7333 1.0000 0.7333 D -3 skCCTCAGGys ...wGCCysAGGsC. 19 12 2 10 22 22 24 15.8571 15
oligos_6nt_test_vs_ctrl_m1 MA0079.2 oligos_6nt_test_vs_ctrl_m1 SP1 0.875 0.463 2.457 0.468 0.949 0.9186 0.92470 16 10 9 17 0.5294 0.5625 0.9000 D 7 .......CCCCGCCss CCCCkCCCC. 8 30 26 21 19 4 7 16.4286 16
dyads_test_vs_ctrl_m2 MA0079.2 dyads_test_vs_ctrl_m2 SP1 0.835 0.491 2.940 0.484 0.935 1.2971 0.91947 17 10 10 17 0.5882 0.5882 1.0000 D 3 ...CCCCGCCCCG.... CCCCkCCCCC 18 27 21 18 23 14 19 20.0000 17
oligos_6nt_test_vs_ctrl_m1 MA0516.1 oligos_6nt_test_vs_ctrl_m1 SP2 0.856 0.408 2.853 0.401 0.938 1.2420 0.92119 16 15 10 21 0.4762 0.6250 0.6667 D 6 ......GCCCCGCCss gyCCCGCCyC..... 12 35 23 24 20 11 17 20.2857 18
oligos_7nt_test_vs_ctrl_m1 MA0003.1 oligos_7nt_test_vs_ctrl_m1 TFAP2A 0.818 0.526 3.671 0.485 0.925 1.3508 0.90869 14 9 9 14 0.6429 0.6429 1.0000 D 2 ..GCCCCaGGg... GCCcbrrGs 21 19 15 17 31 18 27 21.1429 19
oligos_6nt_test_vs_ctrl_m1 MA0079.3 oligos_6nt_test_vs_ctrl_m1 SP1 0.839 0.494 2.917 0.480 0.931 1.3728 0.91715 16 11 10 17 0.5882 0.6250 0.9091 D 6 ......GCCCCGCCss gCCCCkCCCC. 17 26 22 19 25 19 22 21.4286 20
oligos_6nt_test_vs_ctrl_m1 MA0599.1 oligos_6nt_test_vs_ctrl_m1 KLF5 0.817 0.510 2.976 0.498 0.923 1.5438 0.91214 16 10 10 16 0.6250 0.6250 1.0000 D 6 ......GCCCCGCCss gCCMCrCCCh 23 22 19 15 26 21 28 22.0000 21
oligos_7nt_test_vs_ctrl_m5 MA0472.1 oligos_7nt_test_vs_ctrl_m5 EGR2 0.797 0.548 7.036 0.541 0.907 2.0506 0.90795 12 15 11 16 0.6875 0.9167 0.7333 D -4 CrCACACACAC. ....CrCCCACrCac 27 16 3 12 32 35 33 22.5714 22
dyads_test_vs_ctrl_m2 MA0039.2 dyads_test_vs_ctrl_m2 Klf4 0.848 0.499 1.408 -0.011 0.934 1.3203 0.91875 17 10 10 17 0.5882 0.5882 1.0000 R 2 ..gCCCCGCCCC..... GCCMCRCCCW 14 24 29 31 24 17 20 22.7143 23
dyads_test_vs_ctrl_m1 MA0003.2 dyads_test_vs_ctrl_m1 TFAP2A 0.818 0.511 0.828 -0.130 0.943 1.7014 0.93851 24 15 15 24 0.6250 0.6250 1.0000 R 3 ...tGCCCtssGGCCagg...... TGSCCTSRGGCWRTK 22 21 34 37 5 26 14 22.7143 24
oligos_6nt_test_vs_ctrl_m4 MA0516.1 oligos_6nt_test_vs_ctrl_m4 SP2 0.772 0.482 2.970 0.488 0.932 2.0457 0.93258 24 15 15 24 0.6250 0.6250 1.0000 D 9 .........GCCCCGCCCvsssss gyCCCGCCyCyyccs 31 29 20 16 10 34 21 23.0000 25
oligos_6nt_test_vs_ctrl_m5 MA0516.1 oligos_6nt_test_vs_ctrl_m5 SP2 0.781 0.488 3.445 0.477 0.930 2.1074 0.93157 24 15 15 24 0.6250 0.6250 1.0000 D 6 ......GCCCCGCCCCvGggC... gyCCCGCCyCyyccs 30 28 17 20 13 36 23 23.8571 26
dyads_test_vs_ctrl_m1 MA0524.1 dyads_test_vs_ctrl_m1 TFAP2C 0.809 0.506 0.734 -0.143 0.941 1.7553 0.93754 24 15 15 24 0.6250 0.6250 1.0000 R 3 ...tGCCCtssGGCCagg...... TGSCCTGRGGSHRKD 25 23 37 38 6 29 16 24.8571 27
dyads_test_vs_ctrl_m1 MA0146.1 dyads_test_vs_ctrl_m1 Zfx 0.770 0.449 2.691 0.383 0.928 2.0124 0.92835 24 14 14 24 0.5833 0.5833 1.0000 R 9 .........ssGGCCaggGCCcs. SAGGCCBVGSCSSS 33 31 25 25 15 31 25 26.4286 28
dyads_test_vs_ctrl_m1 MA0146.2 dyads_test_vs_ctrl_m1 Zfx 0.769 0.449 2.697 0.383 0.928 2.0205 0.92821 24 14 14 24 0.5833 0.5833 1.0000 R 9 .........ssGGCCaggGCCcs. SAGGCCBVGSCSSS 34 32 24 26 16 32 26 27.1429 29
oligos_7nt_test_vs_ctrl_m3 MA0079.1 oligos_7nt_test_vs_ctrl_m3 SP1 0.770 0.592 0.961 -0.075 0.919 1.6276 0.90979 13 10 10 13 0.7692 0.7692 1.0000 R 1 .sCcCCGCCCC.. WCMMHSCCYM 32 13 32 33 29 23 29 27.2857 30
oligos_7nt_test_vs_ctrl_m3 MA0039.2 oligos_7nt_test_vs_ctrl_m3 Klf4 0.791 0.608 2.178 0.045 0.910 1.8046 0.90501 13 10 10 13 0.7692 0.7692 1.0000 R 1 .sCcCCGCCCC.. GCCMCRCCCW 29 11 28 27 34 30 32 27.2857 31
oligos_6nt_test_vs_ctrl_m1 MA0039.2 oligos_6nt_test_vs_ctrl_m1 Klf4 0.793 0.496 1.341 -0.002 0.913 1.7431 0.90664 16 10 10 16 0.6250 0.6250 1.0000 R 6 ......GCCCCGCCss GCCMCRCCCW 28 25 30 30 33 28 31 29.2857 32
oligos_7nt_test_vs_ctrl_m5 MA0006.1 oligos_7nt_test_vs_ctrl_m5 Arnt::Ahr 0.813 0.407 2.375 -0.002 0.891 1.3101 0.86511 12 6 6 12 0.5000 0.5000 1.0000 R 4 ....CACACA.. CACGCR 24 36 27 29 38 15 37 29.4286 33
oligos_7nt_test_vs_ctrl_m4 MA0162.2 oligos_7nt_test_vs_ctrl_m4 EGR1 0.761 0.652 0.942 -0.120 0.903 2.3323 0.91001 12 14 12 14 0.8571 1.0000 0.8571 R -1 ssGmGGGmGGcG .GMGKGGGCGGGG. 37 9 33 35 28 38 35 30.7143 34
dyads_test_vs_ctrl_m2 MA0079.1 dyads_test_vs_ctrl_m2 SP1 0.760 0.447 0.760 -0.066 0.918 1.6352 0.90958 17 10 10 17 0.5882 0.5882 1.0000 R 2 ..gCCCCGCCCC..... WCMMHSCCYM 38 33 36 32 30 24 30 31.8571 35
oligos_7nt_test_vs_ctrl_m4 MA0469.1 oligos_7nt_test_vs_ctrl_m4 E2F3 0.807 0.403 0.591 0.030 0.905 1.7049 0.89741 12 15 9 18 0.5000 0.7500 0.6000 R -6 ssGmGGGmG... ......GGGCGGGAR 26 38 38 28 35 27 34 32.2857 36
oligos_7nt_test_vs_ctrl_m4 MA0599.1 oligos_7nt_test_vs_ctrl_m4 KLF5 0.762 0.528 1.176 -0.082 0.888 2.0222 0.88827 12 10 9 13 0.6923 0.7500 0.9000 R 3 ...mGGGmGGcG DGGGYGKGG. 36 18 31 34 37 33 38 32.4286 37
oligos_7nt_test_vs_ctrl_m4 MA0079.3 oligos_7nt_test_vs_ctrl_m4 SP1 0.764 0.588 0.789 -0.121 0.892 2.1584 0.89612 12 11 10 13 0.7692 0.8333 0.9091 R 2 ..GmGGGmGGcG RGGGGMGGGG. 35 14 35 36 36 37 36 32.7143 38 
 Host name	biow
 Job started	2014-10-07.150933
 Job done	2014-10-07.151025
 Seconds	31.39
	user	31.39
	system	0.74
	cuser	18.11
;	csystem	1.74