/vh/rsat/rsat/public_html/tmp/apache/2014/10/07/peak-motifs.2014-10-07.093009_2014-10-07.093009_rKpHEN/results/discovered_motifs/peak-motifs_motifs_disco_compa.tab 
 compare-matrices  -v 1 -format transfac -file $RSAT/public_html/tmp/apache/2014/10/07/peak-motifs.2014-10-07.093009_2014-10-07.093009_rKpHEN/results/discovered_motifs/peak-motifs_motifs_discovered.tf -distinct -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.2014-10-07.093009_2014-10-07.093009_rKpHEN/results/discovered_motifs/peak-motifs_motifs_disco_compa.tab
 Program version       	1.118
 Input files
	file2 	$RSAT/public_html/tmp/apache/2014/10/07/peak-motifs.2014-10-07.093009_2014-10-07.093009_rKpHEN/results/discovered_motifs/peak-motifs_motifs_discovered.tf
	file1 	$RSAT/public_html/tmp/apache/2014/10/07/peak-motifs.2014-10-07.093009_2014-10-07.093009_rKpHEN/results/discovered_motifs/peak-motifs_motifs_discovered.tf
 Output files
	alignments_1ton	$RSAT/public_html/tmp/apache/2014/10/07/peak-motifs.2014-10-07.093009_2014-10-07.093009_rKpHEN/results/discovered_motifs/peak-motifs_motifs_disco_compa_alignments_1ton.tab
	match_table_txt	$RSAT/public_html/tmp/apache/2014/10/07/peak-motifs.2014-10-07.093009_2014-10-07.093009_rKpHEN/results/discovered_motifs/peak-motifs_motifs_disco_compa.tab
	html_index   	$RSAT/public_html/tmp/apache/2014/10/07/peak-motifs.2014-10-07.093009_2014-10-07.093009_rKpHEN/results/discovered_motifs/peak-motifs_motifs_disco_compa_index.html
	alignments_1ton_html	$RSAT/public_html/tmp/apache/2014/10/07/peak-motifs.2014-10-07.093009_2014-10-07.093009_rKpHEN/results/discovered_motifs/peak-motifs_motifs_disco_compa_alignments_1ton.html
	match_table_html	$RSAT/public_html/tmp/apache/2014/10/07/peak-motifs.2014-10-07.093009_2014-10-07.093009_rKpHEN/results/discovered_motifs/peak-motifs_motifs_disco_compa.html
	prefix       	$RSAT/public_html/tmp/apache/2014/10/07/peak-motifs.2014-10-07.093009_2014-10-07.093009_rKpHEN/results/discovered_motifs/peak-motifs_motifs_disco_compa
 Matrices
	file1	25 matrices	$RSAT/public_html/tmp/apache/2014/10/07/peak-motifs.2014-10-07.093009_2014-10-07.093009_rKpHEN/results/discovered_motifs/peak-motifs_motifs_discovered.tf
		file1	1	10	1681	waATGTCAkw
		file1	2	10	748	ssCGCCCGss
		file1	3	10	527	wsAGACCAgm
		file1	4	11	977	cvAGGTCAGsg
		file1	5	11	705	ssGCTCTGCss
		file1	6	14	256	byCCAGGTCACasw
		file1	7	14	205	acCATGACCTGGbc
		file1	8	24	21	hwtTaAATTTTTTAAAAAAtTAgw
		file1	9	17	160	styaaCCTGACCTGgsy
		file1	10	13	417	wwAATGTCATGwy
		file1	11	11	495	cvCCACACCcg
		...	15 more matrices
	file2	25 matrices	$RSAT/public_html/tmp/apache/2014/10/07/peak-motifs.2014-10-07.093009_2014-10-07.093009_rKpHEN/results/discovered_motifs/peak-motifs_motifs_discovered.tf
		file2		1		10		1681		waATGTCAkw
		file2		2		10		748		ssCGCCCGss
		file2		3		10		527		wsAGACCAgm
		file2		4		11		977		cvAGGTCAGsg
		file2		5		11		705		ssGCTCTGCss
		file2		6		14		256		byCCAGGTCACasw
		file2		7		14		205		acCATGACCTGGbc
		file2		8		24		21		hwtTaAATTTTTTAAAAAAtTAgw
		file2		9		17		160		styaaCCTGACCTGgsy
		file2		10		13		417		wwAATGTCATGwy
		file2		11		11		495		cvCCACACCcg
		...	15 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
positions_6nt_m1 positions_7nt_m1 positions_6nt_m1 positions_7nt_m1 0.928 0.866 10.155 0.870 0.970 0.8431 0.95362 14 15 14 15 0.9333 1.0000 0.9333 D 0 byCCAGGTCACasw byCCAGGTCACCtk. 4 5 9 3 4 4 4 4.7143 1
dyads_m4 positions_7nt_m2 dyads_m4 positions_7nt_m2 0.958 0.831 10.520 0.820 0.980 0.5173 0.96088 13 15 13 15 0.8667 1.0000 0.8667 D -1 cyAAGGTCACCst .yCAAGGTCACCtt. 3 11 7 8 3 3 3 5.4286 2
positions_6nt_m2 positions_7nt_m3 positions_6nt_m2 positions_7nt_m3 0.991 0.925 4.998 0.415 0.996 0.1018 0.98388 14 15 14 15 0.9333 1.0000 0.9333 R -1 acCATGACCTGGbc .RGCATGACCTGGKS 1 1 29 28 1 1 1 8.8571 3
positions_7nt_m3 positions_7nt_m5 positions_7nt_m3 positions_7nt_m5 0.895 0.836 8.758 0.852 0.957 1.2036 0.94459 15 14 14 15 0.9333 0.9333 1.0000 D 0 smCCAGGTCATGcy. kbCCAGGTCAAGgt 10 9 20 4 8 11 9 10.1429 4
positions_6nt_m2 positions_6nt_m4 positions_6nt_m2 positions_6nt_m4 0.904 0.744 11.750 0.749 0.959 1.1474 0.94590 14 17 14 17 0.8235 1.0000 0.8235 D -3 acCATGACCTGGbc ...aaCCTGACCTGgsy 7 22 3 16 7 10 8 10.4286 5
dyads_m1 dyads_m2 dyads_m1 dyads_m2 0.892 0.836 12.003 0.826 0.947 1.5888 0.94058 16 15 15 16 0.9375 0.9375 1.0000 D 1 .wGTAAATATTTACwv wrCAAATATTTACwt 13 8 2 6 14 17 16 10.8571 6
positions_6nt_m4 positions_7nt_m4 positions_6nt_m4 positions_7nt_m4 0.961 0.848 4.057 0.241 0.984 0.4655 0.96784 17 15 15 17 0.8824 0.8824 1.0000 R 2 ..yaaCCTGACCTGgsy YGCCCTGACCTGGSS 2 6 33 31 2 2 2 11.1429 7
positions_7nt_m3 positions_7nt_m4 positions_7nt_m3 positions_7nt_m4 0.870 0.870 8.846 0.878 0.950 1.5097 0.94208 15 15 15 15 1.0000 1.0000 1.0000 D 0 smCCAGGTCATGcyg ssCCAGGTCAGGgcr 17 4 16 1 12 15 14 11.2857 8
positions_7nt_m4 positions_7nt_m5 positions_7nt_m4 positions_7nt_m5 0.892 0.833 8.417 0.834 0.956 1.2363 0.94384 15 14 14 15 0.9333 0.9333 1.0000 D 0 ssCCAGGTCAGGgc. kbCCAGGTCAAGgt 11 10 23 5 9 12 10 11.4286 9
positions_7nt_m1 positions_7nt_m2 positions_7nt_m1 positions_7nt_m2 0.872 0.872 8.103 0.873 0.950 1.4976 0.94231 15 15 15 15 1.0000 1.0000 1.0000 D 0 byCCAGGTCACCtkg byCAAGGTCACCttg 16 3 26 2 11 14 13 12.1429 10
positions_6nt_m2 positions_7nt_m5 positions_6nt_m2 positions_7nt_m5 0.918 0.918 3.784 0.233 0.966 0.9417 0.95099 14 14 14 14 1.0000 1.0000 1.0000 R 0 acCATGACCTGGbc ACCTTGACCTGGVM 6 2 38 34 5 6 5 13.7143 11
positions_6nt_m2 positions_7nt_m4 positions_6nt_m2 positions_7nt_m4 0.902 0.842 4.364 0.346 0.959 1.1451 0.94595 14 15 14 15 0.9333 1.0000 0.9333 R -1 acCATGACCTGGbc .GCCCTGACCTGGSS 9 7 31 29 6 9 7 14.0000 12
oligos_6nt_mkv4_m4 positions_7nt_m4 oligos_6nt_mkv4_m4 positions_7nt_m4 0.903 0.662 9.289 0.648 0.951 1.0680 0.93357 11 15 11 15 0.7333 1.0000 0.7333 D -2 cvAGGTCAGsg ..CCAGGTCAGGg.. 8 29 15 19 17 7 12 15.2857 13
positions_6nt_m1 positions_7nt_m2 positions_6nt_m1 positions_7nt_m2 0.857 0.800 9.743 0.793 0.940 1.6813 0.93451 14 15 14 15 0.9333 1.0000 0.9333 D 0 byCCAGGTCACasw byCAAGGTCACCtt. 19 16 11 11 16 18 18 15.5714 14
dyads_m4 positions_7nt_m1 dyads_m4 positions_7nt_m1 0.858 0.744 10.278 0.741 0.934 1.7283 0.92849 13 15 13 15 0.8667 1.0000 0.8667 D -1 cyAAGGTCACCst .yCCAGGTCACCtk. 18 23 8 17 20 19 19 17.7143 15
oligos_6nt_mkv4_m1 positions_6nt_m5 oligos_6nt_mkv4_m1 positions_6nt_m5 0.886 0.682 8.811 0.667 0.943 1.1308 0.92481 10 13 10 13 0.7692 1.0000 0.7692 D -1 waATGTCAkw .wAATGTCATG.. 14 28 17 18 25 8 17 18.1429 16
positions_7nt_m1 positions_7nt_m3 positions_7nt_m1 positions_7nt_m3 0.807 0.807 8.613 0.826 0.925 2.2403 0.92944 15 15 15 15 1.0000 1.0000 1.0000 D 0 byCCAGGTCACCtkg smCCAGGTCATGcyg 27 14 21 7 19 26 22 19.4286 17
positions_6nt_m4 positions_7nt_m3 positions_6nt_m4 positions_7nt_m3 0.872 0.770 4.727 0.321 0.949 1.5245 0.94180 17 15 15 17 0.8824 0.8824 1.0000 R 2 ..yaaCCTGACCTGgsy CRGCATGACCTGGKS 15 18 30 30 13 16 15 19.5714 18
positions_6nt_m4 positions_7nt_m5 positions_6nt_m4 positions_7nt_m5 0.892 0.735 4.016 0.236 0.955 1.2691 0.94310 17 14 14 17 0.8235 0.8235 1.0000 R 3 ...aaCCTGACCTGgsy ACCTTGACCTGGVM 12 26 34 33 10 13 11 19.8571 19
dyads_m4 positions_6nt_m1 dyads_m4 positions_6nt_m1 0.822 0.763 12.308 0.763 0.916 2.1895 0.91952 13 14 13 14 0.9286 1.0000 0.9286 D -1 cyAAGGTCACCst .yCCAGGTCACasw 23 20 1 14 31 24 28 20.1429 20
oligos_6nt_mkv4_m4 positions_6nt_m4 oligos_6nt_mkv4_m4 positions_6nt_m4 0.922 0.597 3.908 0.102 0.959 0.8958 0.93916 11 17 11 17 0.6471 1.0000 0.6471 R -2 cvAGGTCAGsg ..CCAGGTCAGGT.... 5 36 37 39 15 5 6 20.4286 21
positions_6nt_m1 positions_7nt_m5 positions_6nt_m1 positions_7nt_m5 0.800 0.800 9.506 0.818 0.917 2.3206 0.92306 14 14 14 14 1.0000 1.0000 1.0000 D 0 byCCAGGTCACasw kbCCAGGTCAAGgt 28 15 13 9 27 29 27 21.1429 22
positions_6nt_m1 positions_7nt_m3 positions_6nt_m1 positions_7nt_m3 0.808 0.754 10.086 0.768 0.919 2.2554 0.92415 14 15 14 15 0.9333 1.0000 0.9333 D 0 byCCAGGTCACasw smCCAGGTCATGcy. 26 21 10 12 26 27 26 21.1429 23
dyads_m3 dyads_m5 dyads_m3 dyads_m5 0.827 0.827 10.599 0.447 0.915 3.2159 0.93326 19 19 19 19 1.0000 1.0000 1.0000 R 0 ssGCCCAGGGCAsGGGGsg BBGCCCRGGSSYSGSGSMG 22 13 6 27 18 38 29 21.8571 24
positions_7nt_m1 positions_7nt_m4 positions_7nt_m1 positions_7nt_m4 0.793 0.793 8.326 0.812 0.920 2.4021 0.92694 15 15 15 15 1.0000 1.0000 1.0000 D 0 byCCAGGTCACCtkg ssCCAGGTCAGGgcr 33 17 24 10 24 33 24 23.5714 25
positions_6nt_m1 positions_6nt_m2 positions_6nt_m1 positions_6nt_m2 0.829 0.829 4.015 0.172 0.928 2.0139 0.92832 14 14 14 14 1.0000 1.0000 1.0000 R 0 byCCAGGTCACasw GVCCAGGTCATGGT 21 12 35 37 21 21 20 23.8571 26
oligos_6nt_mkv4_m4 positions_6nt_m1 oligos_6nt_mkv4_m4 positions_6nt_m1 0.812 0.638 11.055 0.638 0.906 2.0664 0.90759 11 14 11 14 0.7857 1.0000 0.7857 D -2 cvAGGTCAGsg ..CCAGGTCACas. 25 33 4 21 34 22 33 24.5714 27
positions_6nt_m1 positions_7nt_m4 positions_6nt_m1 positions_7nt_m4 0.797 0.744 9.618 0.754 0.915 2.3831 0.92203 14 15 14 15 0.9333 1.0000 0.9333 D 0 byCCAGGTCACasw ssCCAGGTCAGGgc. 30 24 12 15 29 32 31 24.7143 28
positions_6nt_m2 positions_7nt_m1 positions_6nt_m2 positions_7nt_m1 0.822 0.767 3.978 0.240 0.926 2.0742 0.92726 14 15 14 15 0.9333 1.0000 0.9333 R -1 acCATGACCTGGbc .MAGGTGACCTGGRV 24 19 36 32 22 23 21 25.2857 29
positions_7nt_m1 positions_7nt_m5 positions_7nt_m1 positions_7nt_m5 0.792 0.739 8.123 0.767 0.915 2.3797 0.92209 15 14 14 15 0.9333 0.9333 1.0000 D 0 byCCAGGTCACCtk. kbCCAGGTCAAGgt 34 25 25 13 28 30 30 26.4286 30
oligos_6nt_mkv4_m4 positions_6nt_m2 oligos_6nt_mkv4_m4 positions_6nt_m2 0.838 0.659 4.125 0.192 0.919 1.7711 0.91445 11 14 11 14 0.7857 1.0000 0.7857 R -2 cvAGGTCAGsg ..CCAGGTCATGG. 20 30 32 36 32 20 25 27.8571 31
oligos_6nt_mkv4_m4 positions_7nt_m5 oligos_6nt_mkv4_m4 positions_7nt_m5 0.795 0.624 8.762 0.615 0.900 2.1925 0.90482 11 14 11 14 0.7857 1.0000 0.7857 D -2 cvAGGTCAGsg ..CCAGGTCAAGg. 32 34 19 22 35 25 34 28.7143 32
dyads_m4 oligos_6nt_mkv4_m4 dyads_m4 oligos_6nt_mkv4_m4 0.776 0.656 10.928 0.642 0.882 2.5878 0.89659 13 11 11 13 0.8462 0.8462 1.0000 D 1 .yAAGGTCACCs. cvAGGTCAGsg 36 31 5 20 38 36 38 29.1429 33
oligos_6nt_mkv4_m4 positions_7nt_m3 oligos_6nt_mkv4_m4 positions_7nt_m3 0.791 0.580 9.316 0.573 0.897 2.2670 0.90321 11 15 11 15 0.7333 1.0000 0.7333 D -2 cvAGGTCAGsg ..CCAGGTCATGc.. 35 37 14 23 36 28 35 29.7143 34
positions_6nt_m4 positions_7nt_m1 positions_6nt_m4 positions_7nt_m1 0.800 0.706 3.589 0.141 0.921 2.3826 0.92724 17 15 15 17 0.8824 0.8824 1.0000 R 2 ..yaaCCTGACCTGgsy CMAGGTGACCTGGRV 29 27 39 38 23 31 23 30.0000 35
positions_6nt_m1 positions_6nt_m4 positions_6nt_m1 positions_6nt_m4 0.797 0.656 5.189 0.212 0.913 2.4341 0.92120 14 17 14 17 0.8235 1.0000 0.8235 R 0 byCCAGGTCACasw RSCCAGGTCAGGTT... 31 32 28 35 30 34 32 31.7143 36
oligos_6nt_mkv4_m4 positions_7nt_m1 oligos_6nt_mkv4_m4 positions_7nt_m1 0.771 0.565 8.799 0.554 0.888 2.4729 0.89891 11 15 11 15 0.7333 1.0000 0.7333 D -2 cvAGGTCAGsg ..CCAGGTCACCt.. 37 38 18 25 37 35 36 32.2857 37
dyads_m3 positions_7nt_m4 dyads_m3 positions_7nt_m4 0.756 0.597 8.077 0.569 0.884 3.4881 0.91196 19 15 15 19 0.7895 0.7895 1.0000 D 2 ..GCCCAGGGCAsGGGG.. ssCCAGGTCAGGgcr 38 35 27 24 33 39 37 33.2857 38
oligos_6nt_mkv4_m4 positions_7nt_m2 oligos_6nt_mkv4_m4 positions_7nt_m2 0.755 0.554 8.505 0.540 0.880 2.6500 0.89536 11 15 11 15 0.7333 1.0000 0.7333 D -2 cvAGGTCAGsg ..CAAGGTCACCt.. 39 39 22 26 39 37 39 34.4286 39 
 Host name	biow
 Job started	2014-10-07.093528
 Job done	2014-10-07.093541
 Seconds	2.63
	user	2.63
	system	0.21
	cuser	8.6
;	csystem	1.48