/home/rsat/rsat/public_html/tmp/wwwrun/2014/09/06/peak-motifs.2014-09-06.123915_2014-09-06.123915_sfIm4F/results/discovered_motifs/peak-motifs_motifs_disco_compa.tab
 compare-matrices  -v 1 -format transfac -file $RSAT/public_html/tmp/wwwrun/2014/09/06/peak-motifs.2014-09-06.123915_2014-09-06.123915_sfIm4F/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/wwwrun/2014/09/06/peak-motifs.2014-09-06.123915_2014-09-06.123915_sfIm4F/results/discovered_motifs/peak-motifs_motifs_disco_compa.tab
 Program version       	1.118
 Input files
	file2 	$RSAT/public_html/tmp/wwwrun/2014/09/06/peak-motifs.2014-09-06.123915_2014-09-06.123915_sfIm4F/results/discovered_motifs/peak-motifs_motifs_discovered.tf
	file1 	$RSAT/public_html/tmp/wwwrun/2014/09/06/peak-motifs.2014-09-06.123915_2014-09-06.123915_sfIm4F/results/discovered_motifs/peak-motifs_motifs_discovered.tf
 Output files
	alignments_1ton	$RSAT/public_html/tmp/wwwrun/2014/09/06/peak-motifs.2014-09-06.123915_2014-09-06.123915_sfIm4F/results/discovered_motifs/peak-motifs_motifs_disco_compa_alignments_1ton.tab
	match_table_txt	$RSAT/public_html/tmp/wwwrun/2014/09/06/peak-motifs.2014-09-06.123915_2014-09-06.123915_sfIm4F/results/discovered_motifs/peak-motifs_motifs_disco_compa.tab
	html_index   	$RSAT/public_html/tmp/wwwrun/2014/09/06/peak-motifs.2014-09-06.123915_2014-09-06.123915_sfIm4F/results/discovered_motifs/peak-motifs_motifs_disco_compa_index.html
	alignments_1ton_html	$RSAT/public_html/tmp/wwwrun/2014/09/06/peak-motifs.2014-09-06.123915_2014-09-06.123915_sfIm4F/results/discovered_motifs/peak-motifs_motifs_disco_compa_alignments_1ton.html
	match_table_html	$RSAT/public_html/tmp/wwwrun/2014/09/06/peak-motifs.2014-09-06.123915_2014-09-06.123915_sfIm4F/results/discovered_motifs/peak-motifs_motifs_disco_compa.html
	prefix       	$RSAT/public_html/tmp/wwwrun/2014/09/06/peak-motifs.2014-09-06.123915_2014-09-06.123915_sfIm4F/results/discovered_motifs/peak-motifs_motifs_disco_compa
 Matrices
	file1	15 matrices	$RSAT/public_html/tmp/wwwrun/2014/09/06/peak-motifs.2014-09-06.123915_2014-09-06.123915_sfIm4F/results/discovered_motifs/peak-motifs_motifs_discovered.tf
		file1	1	24	2	CrCCCTrsCCTGrCCyGGGkCACr
		file1	2	23	1	ATCCAAAGTCCAGAGCAGGGAAT
		file1	3	11	1513	mdGGGTCAGrr
		file1	4	24	1	GGCAGGGCAGCCGGGTCAGCCCTG
		file1	5	12	715	cmAAGGTCAGrr
		file1	6	24	2	TykGGCCAGyCCAAAGTCCArGAy
		file1	7	24	1	CACCTGCCCTTTGACCTGGCCACG
		file1	8	24	3	hdsGCmCmGGrCAkssyCAkGCCb
		file1	9	24	2	TmGGkCCAGkCCAAAGwCCAArwk
		file1	10	24	3	sdCCCAGCCAGrmCAkGGCwGGvk
		file1	11	21	18	ymAAGTCCAAAGTCCAGGGrw
		...	5 more matrices
	file2	15 matrices	$RSAT/public_html/tmp/wwwrun/2014/09/06/peak-motifs.2014-09-06.123915_2014-09-06.123915_sfIm4F/results/discovered_motifs/peak-motifs_motifs_discovered.tf
		file2		1		24		2		CrCCCTrsCCTGrCCyGGGkCACr
		file2		2		23		1		ATCCAAAGTCCAGAGCAGGGAAT
		file2		3		11		1513		mdGGGTCAGrr
		file2		4		24		1		GGCAGGGCAGCCGGGTCAGCCCTG
		file2		5		12		715		cmAAGGTCAGrr
		file2		6		24		2		TykGGCCAGyCCAAAGTCCArGAy
		file2		7		24		1		CACCTGCCCTTTGACCTGGCCACG
		file2		8		24		3		hdsGCmCmGGrCAkssyCAkGCCb
		file2		9		24		2		TmGGkCCAGkCCAAAGwCCAArwk
		file2		10		24		3		sdCCCAGCCAGrmCAkGGCwGGvk
		file2		11		21		18		ymAAGTCCAAAGTCCAGGGrw
		...	5 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_m1 oligos_7nt_test_vs_ctrl_m4 oligos_7nt_test_vs_ctrl_m1 oligos_7nt_test_vs_ctrl_m4 0.850 0.850 32.070 0.856 0.906 4.5000 0.93750 24 24 24 24 1.0000 1.0000 1.0000 D 0 TykGGCCAGyCCAAAGTCCArGAy TmGGkCCAGkCCAAAGwCCAArwk 2 1 1 1 1 6 3 2.1429 1
oligos_6nt_test_vs_ctrl_m5 oligos_8nt_test_vs_ctrl_m2 oligos_6nt_test_vs_ctrl_m5 oligos_8nt_test_vs_ctrl_m2 0.897 0.468 14.223 0.455 0.941 1.4080 0.93008 12 23 12 23 0.5217 1.0000 0.5217 D -11 cmAAGGTCAGrr ...........CAAAGGkCAGvh 1 7 3 5 2 1 1 2.8571 2
oligos_8nt_test_vs_ctrl_m1 oligos_8nt_test_vs_ctrl_m3 oligos_8nt_test_vs_ctrl_m1 oligos_8nt_test_vs_ctrl_m3 0.820 0.664 10.736 0.640 0.914 2.9086 0.92906 21 17 17 21 0.8095 0.8095 1.0000 D 4 ....GTCCAAAGTCCAGGGrw ksCCAGAGTCCAGGGwt 3 5 5 3 3 3 2 3.4286 3
oligos_6nt_test_vs_ctrl_m3 oligos_6nt_test_vs_ctrl_m5 oligos_6nt_test_vs_ctrl_m3 oligos_6nt_test_vs_ctrl_m5 0.767 0.703 11.593 0.705 0.878 2.6733 0.89490 11 12 11 12 0.9167 1.0000 0.9167 D -1 mdGGGTCAGrr .mAAGGTCAGrr 7 3 4 2 7 2 6 4.4286 4
oligos_8nt_test_vs_ctrl_m1 oligos_8nt_test_vs_ctrl_m4 oligos_8nt_test_vs_ctrl_m1 oligos_8nt_test_vs_ctrl_m4 0.779 0.741 2.169 -0.105 0.897 4.1315 0.92814 21 20 20 21 0.9524 0.9524 1.0000 R 1 .mAAGTCCAAAGTCCAGGGrw VBAGGGCAAAGTCCAGGGRD 5 2 6 6 4 5 5 4.7143 5
oligos_8nt_test_vs_ctrl_m3 oligos_8nt_test_vs_ctrl_m4 oligos_8nt_test_vs_ctrl_m3 oligos_8nt_test_vs_ctrl_m4 0.782 0.665 1.415 -0.138 0.897 3.4879 0.92232 17 20 17 20 0.8500 1.0000 0.8500 R -3 ksCCAGAGTCCAGGGwt ...GGGCAAAGTCCAGGGRD 4 4 7 7 5 4 4 5.0000 6
oligos_6nt_test_vs_ctrl_m2 oligos_8nt_test_vs_ctrl_m1 oligos_6nt_test_vs_ctrl_m2 oligos_8nt_test_vs_ctrl_m1 0.773 0.487 17.440 0.475 0.848 5.1605 0.90551 23 21 17 27 0.6296 0.7391 0.8095 D -4 ATCCAAAGTCCAGAGCA...... ....GTCCAAAGTCCAGGGrw 6 6 2 4 6 7 7 5.4286 7
 Host name	rsat
 Job started	2014-09-06.124804
 Job done	2014-09-06.124808
 Seconds	2.25
	user	2.25
	system	0.05
	cuser	1.97
;	csystem	0.11