/var/www/html/rsat/public_html/tmp/www-data/2026/03/29/compare-matrices_2026-03-29.153832_ejHBf9/compare-matrices.tab 
 compare-matrices  -v 1 -format1 transfac -file1 $RSAT/public_html/tmp/www-data/2026/03/29/compare-matrices_2026-03-29.153832_ejHBf9/compare-matrices_query_matrices.transfac -file2 $RSAT/public_html/motif_databases/footprintDB/footprintDB.plants.motif.tf -format2 tf -strand DR -lth cor 0.7 -lth Ncor 0.4 -uth match_rank 50 -return cor,Ncor,logoDP,NsEucl,NSW,match_rank,matrix_id,matrix_name,width,strand,offset,consensus,alignments_1ton -o $RSAT/public_html/tmp/www-data/2026/03/29/compare-matrices_2026-03-29.153832_ejHBf9/compare-matrices.tab
 Program version       	1.118
 Slow mode 
 Input files
	file1 	$RSAT/public_html/tmp/www-data/2026/03/29/compare-matrices_2026-03-29.153832_ejHBf9/compare-matrices_query_matrices.transfac
	file2 	$RSAT/public_html/motif_databases/footprintDB/footprintDB.plants.motif.tf
 Output files
	match_table_txt	$RSAT/public_html/tmp/www-data/2026/03/29/compare-matrices_2026-03-29.153832_ejHBf9/compare-matrices.tab
	match_table_html	$RSAT/public_html/tmp/www-data/2026/03/29/compare-matrices_2026-03-29.153832_ejHBf9/compare-matrices.html
	html_index   	$RSAT/public_html/tmp/www-data/2026/03/29/compare-matrices_2026-03-29.153832_ejHBf9/compare-matrices_index.html
	alignments_1ton_html	$RSAT/public_html/tmp/www-data/2026/03/29/compare-matrices_2026-03-29.153832_ejHBf9/compare-matrices_alignments_1ton.html
	prefix       	$RSAT/public_html/tmp/www-data/2026/03/29/compare-matrices_2026-03-29.153832_ejHBf9/compare-matrices
	alignments_1ton	$RSAT/public_html/tmp/www-data/2026/03/29/compare-matrices_2026-03-29.153832_ejHBf9/compare-matrices_alignments_1ton.tab
 Matrices
	file1	1 matrices	$RSAT/public_html/tmp/www-data/2026/03/29/compare-matrices_2026-03-29.153832_ejHBf9/compare-matrices_query_matrices.transfac
		file1	1	11	5039	wtCTTCTTCww
	file2	3463 matrices	$RSAT/public_html/motif_databases/footprintDB/footprintDB.plants.motif.tf
		file2		1		8		5		awmAGTTr
		file2		2		8		3		rkTAGTTr
		file2		3		8		5		wamaGTTr
		file2		4		8		1		GTTAGTTA
		file2		5		8		2		kwCwGTTr
		file2		6		8		2		GTTAGTTr
		file2		7		8		6		wwmaGTTr
		file2		8		8		2		rsTkGTTr
		file2		9		8		8		RkTwGKTr
		file2		10		8		1		TACTGTTG
		file2		11		8		4		WhhWGTTr
		...	3453 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	NSW          	Normalized Sandelin-Wasserman similarity. NSW = SW/w
	9	NsEucl       	relative Euclidian similarity. NsEucl = (max(dEucl) - dEucl)/max(dEucl)
	10	w1           	Width of the first matrix
	11	w2           	Width of the second matrix
	12	w            	Alignment length (number of overlapping columns between matrix 1 and matrix 2, as a function of the offset)
	13	W            	Total alignment length (overlapping + non-overlapping columns). W = w1 + w2 - w
	14	Wr           	Relative alignment length (overlap divided by the total alignemnt length). Wr = w/W
	15	wr1          	Alignment length relative to the width of the first matrix. wr1 = w/w1
	16	wr2          	Alignment length relative to the width of the second matrix. wr2 = w/w2
	17	strand       	"strand", i.e. orientation of matrix 2 relative to matrix 1 (D=direct;  R=reverse)
	18	offset       	shift of the second matrix relative to the first matrix (negative:left; positive: right)
	19	consensus1   	IUPAC consensus of matrix 1 (dots represent non-aligned columns)
	20	consensus2   	IUPAC consensus of matrix 2 (dots represent non-aligned columns)
	21	rcor         	Matching rank for cor
	22	rNcor        	Matching rank for Ncor
	23	rlogoDP      	Matching rank for logoDP
	24	rNsEucl      	Matching rank for NsEucl
	25	rNSW         	Matching rank for NSW
	26	rank_mean    	Mean of the matching ranks on all selected metrics
	27	match_rank   	Rank of the match (sorting by rank_mean)
id1 id2 name1 name2 cor Ncor logoDP NSW NsEucl w1 w2 w W Wr wr1 wr2 strand offset consensus1 consensus2 rcor rNcor rlogoDP rNsEucl rNSW rank_mean match_rank
oligos_7nt_mkv5_m5 NTM2.DAP_M0677_AthalianaCistrome oligos_7nt_mkv5_m5 NTM2.DAP:M0677:AthalianaCistrome 0.790 0.579 3.472 0.932 0.92142 11 15 11 15 0.7333 1.0000 0.7333 D 0 wtCTTCTTCww wmCTTsTtyaa.... 8 6 11 3 3 6.2000 1
oligos_7nt_mkv5_m5 ANAC004.DAP_M0664_AthalianaCistrome oligos_7nt_mkv5_m5 ANAC004.DAP:M0664:AthalianaCistrome 0.823 0.463 3.881 0.931 0.91223 11 14 9 16 0.5625 0.8182 0.6429 D 2 ..CTTCTTCww CTTsYtywr..... 2 17 4 7 6 7.2000 2
oligos_7nt_mkv5_m5 TGA5_2_EEAD0137_EEADannot oligos_7nt_mkv5_m5 TGA5_2:EEAD0137:EEADannot 0.821 0.602 0.325 0.938 0.92517 11 15 11 15 0.7333 1.0000 0.7333 R -2 wtCTTCTTCww ..WTCWYCWTCWY.. 3 4 33 1 1 8.4000 3
oligos_7nt_mkv5_m5 NAC005_MA1783.1_JASPAR oligos_7nt_mkv5_m5 NAC005:MA1783.1:JASPAR 0.788 0.456 3.519 0.932 0.92109 11 19 11 19 0.5789 1.0000 0.5789 D -1 wtCTTCTTCww .wrCTTsttywa....... 12 19 8 4 4 9.4000 4
oligos_7nt_mkv5_m5 ANAC005.DAP_M0659_AthalianaCistrome oligos_7nt_mkv5_m5 ANAC005.DAP:M0659:AthalianaCistrome 0.788 0.456 3.519 0.931 0.92106 11 19 11 19 0.5789 1.0000 0.5789 D -1 wtCTTCTTCww .wrCTTsttywa....... 13 20 9 5 5 10.4000 5
oligos_7nt_mkv5_m5 SND3.ampDAP_M0626_AthalianaCistrome oligos_7nt_mkv5_m5 SND3.ampDAP:M0626:AthalianaCistrome 0.804 0.402 2.955 0.937 0.92436 11 22 11 22 0.5000 1.0000 0.5000 D -2 wtCTTCTTCww ..wdCTTswtcyw......... 7 33 15 2 2 11.8000 6
oligos_7nt_mkv5_m5 SND2.DAP_M0707_AthalianaCistrome oligos_7nt_mkv5_m5 SND2.DAP:M0707:AthalianaCistrome 0.810 0.429 2.909 0.927 0.91008 11 15 9 17 0.5294 0.8182 0.6000 D 2 ..CTTCTTCww CTTswtcyw...... 4 24 17 8 7 12.0000 7
oligos_7nt_mkv5_m5 REM21_UN0408.1_JASPAR oligos_7nt_mkv5_m5 REM21:UN0408.1:JASPAR 0.752 0.552 5.709 0.902 0.90580 11 15 11 15 0.7333 1.0000 0.7333 D -3 wtCTTCTTCww ...tkyTTCATCwt. 21 7 1 12 19 12.0000 8
oligos_7nt_mkv5_m5 NAC073_MA1790.1_JASPAR oligos_7nt_mkv5_m5 NAC073:MA1790.1:JASPAR 0.810 0.429 2.909 0.927 0.91007 11 15 9 17 0.5294 0.8182 0.6000 D 2 ..CTTCTTCww CTTswtcyw...... 5 25 16 9 8 12.6000 9
oligos_7nt_mkv5_m5 ONAC127_UN0429.2_JASPAR oligos_7nt_mkv5_m5 ONAC127:UN0429.2:JASPAR 0.864 0.550 0.509 0.926 0.89721 11 7 7 11 0.6364 0.6364 1.0000 R 4 ....TCTTCww TCTTCCT 1 9 25 22 10 13.4000 10
oligos_7nt_mkv5_m5 NTL8.DAP_M0671_AthalianaCistrome oligos_7nt_mkv5_m5 NTL8.DAP:M0671:AthalianaCistrome 0.771 0.447 3.378 0.925 0.91764 11 19 11 19 0.5789 1.0000 0.5789 D -2 wtCTTCTTCww ..TyCTTCwyyyt...... 16 22 13 6 11 13.6000 11
oligos_7nt_mkv5_m5 ANAC075.DAP_M0685_AthalianaCistrome oligos_7nt_mkv5_m5 ANAC075.DAP:M0685:AthalianaCistrome 0.807 0.427 1.243 0.926 0.90939 11 15 9 17 0.5294 0.8182 0.6000 R 2 ..CTTCTTCww CTTSWTCWW...... 6 28 18 10 9 14.2000 12
oligos_7nt_mkv5_m5 NAC071_MA1789.1_JASPAR oligos_7nt_mkv5_m5 NAC071:MA1789.1:JASPAR 0.788 0.417 3.036 0.920 0.90566 11 15 9 17 0.5294 0.8182 0.6000 D 2 ..CTTCTTCww CTTswtyyt...... 9 29 14 14 12 15.6000 13
oligos_7nt_mkv5_m5 PEND_MA0127.1_JASPAR oligos_7nt_mkv5_m5 PEND:MA0127.1:JASPAR 0.737 0.670 3.461 0.897 0.89875 11 10 10 11 0.9091 0.9091 1.0000 D 1 .tCTTCTTCww AcTTCTTATk 24 1 12 20 22 15.8000 14
oligos_7nt_mkv5_m5 NTM1.DAP_M0646_AthalianaCistrome oligos_7nt_mkv5_m5 NTM1.DAP:M0646:AthalianaCistrome 0.732 0.457 3.527 0.906 0.90326 11 15 10 16 0.6250 0.9091 0.6667 D 1 .tCTTCTTCww aCTTsttymh..... 25 18 7 17 16 16.6000 15
oligos_7nt_mkv5_m5 ONAC127_UN0429.1_JASPAR oligos_7nt_mkv5_m5 ONAC127:UN0429.1:JASPAR 0.763 0.635 0.505 0.904 0.90207 11 11 10 12 0.8333 0.9091 0.9091 R -1 wtCTTCTTCw. .RTCTTCCTCY 19 3 26 18 18 16.8000 16
oligos_7nt_mkv5_m5 ANAC071.DAP_M0632_AthalianaCistrome oligos_7nt_mkv5_m5 ANAC071.DAP:M0632:AthalianaCistrome 0.788 0.417 1.190 0.920 0.90566 11 15 9 17 0.5294 0.8182 0.6000 R 2 ..CTTCTTCww CTTSWTYYT...... 10 30 20 15 13 17.6000 17
oligos_7nt_mkv5_m5 SND2.ampDAP_M0628_AthalianaCistrome oligos_7nt_mkv5_m5 SND2.ampDAP:M0628:AthalianaCistrome 0.788 0.417 1.210 0.920 0.90562 11 15 9 17 0.5294 0.8182 0.6000 R 2 ..CTTCTTCww CKTSWTCWW...... 11 31 19 16 14 18.2000 18
oligos_7nt_mkv5_m5 AT5G18090.DAP_M0009_AthalianaCistrome oligos_7nt_mkv5_m5 AT5G18090.DAP:M0009:AthalianaCistrome 0.752 0.552 0.301 0.902 0.90580 11 15 11 15 0.7333 1.0000 0.7333 R -3 wtCTTCTTCww ...TKYTTCATCWT. 22 8 34 13 20 19.4000 19
oligos_7nt_mkv5_m5 XP_013591813.1_RWPRK_1_AT1G74480_EEAD0667_EEADannot oligos_7nt_mkv5_m5 XP_013591813.1_RWPRK_1_AT1G74480:EEAD0667:EEADannot 0.739 0.475 3.794 0.880 0.88461 11 12 9 14 0.6429 0.8182 0.7500 D -3 wtCTTCTTC.. ...TTCrwCTTC 23 16 6 28 26 19.8000 20
oligos_7nt_mkv5_m5 ANAC096.DAP_M0645_AthalianaCistrome oligos_7nt_mkv5_m5 ANAC096.DAP:M0645:AthalianaCistrome 0.705 0.484 0.423 0.905 0.90707 11 16 11 16 0.6875 1.0000 0.6875 R -1 wtCTTCTTCww .TRCTTSWTYYT.... 32 14 28 11 17 20.4000 21
oligos_7nt_mkv5_m5 DcWRKY75_EEAD0058_EEADannot oligos_7nt_mkv5_m5 DcWRKY75:EEAD0058:EEADannot 0.766 0.487 0.985 0.901 0.88090 11 7 7 11 0.6364 0.6364 1.0000 R 0 wtCTTCT.... AVMTTCT 17 13 22 29 21 20.4000 22
oligos_7nt_mkv5_m5 AL2G34360.t1_RWPRK_1_AT1G74480_EEAD0584_EEADannot oligos_7nt_mkv5_m5 AL2G34360.t1_RWPRK_1_AT1G74480:EEAD0584:EEADannot 0.714 0.476 3.863 0.876 0.88866 11 14 10 15 0.6667 0.9091 0.7143 D -4 wtCTTCTTCw. ....TTCrwCTTCy 29 15 5 26 28 20.6000 23
oligos_7nt_mkv5_m5 NTL8_MA1678.2_JASPAR oligos_7nt_mkv5_m5 NTL8:MA1678.2:JASPAR 0.706 0.598 0.472 0.884 0.89741 11 13 11 13 0.8462 1.0000 0.8462 R -2 wtCTTCTTCww ..GGTTTCTTCAW 30 5 27 21 24 21.4000 24
oligos_7nt_mkv5_m5 AT5G18090_UN0847.1_JASPAR oligos_7nt_mkv5_m5 AT5G18090:UN0847.1:JASPAR 0.784 0.428 5.687 0.855 0.84435 11 6 6 11 0.5455 0.5455 1.0000 D 3 ...TTCTTC.. TTCATC 14 26 2 33 32 21.4000 25
oligos_7nt_mkv5_m5 REM21_UN0408.2_JASPAR oligos_7nt_mkv5_m5 REM21:UN0408.2:JASPAR 0.784 0.428 5.681 0.855 0.84435 11 6 6 11 0.5455 0.5455 1.0000 D 3 ...TTCTTC.. TTCATC 15 27 3 32 31 21.6000 26
oligos_7nt_mkv5_m5 SND3.DAP_M0629_AthalianaCistrome oligos_7nt_mkv5_m5 SND3.DAP:M0629:AthalianaCistrome 0.758 0.401 1.187 0.910 0.89998 11 15 9 17 0.5294 0.8182 0.6000 R 2 ..CTTCTTCww CKTSWTCHW...... 20 34 21 19 15 21.8000 27
oligos_7nt_mkv5_m5 Solyc03g116010.3.1_RWPRK_1_AT1G74480_EEAD0647_EEADannot oligos_7nt_mkv5_m5 Solyc03g116010.3.1_RWPRK_1_AT1G74480:EEAD0647:EEADannot 0.706 0.441 3.500 0.877 0.88900 11 15 10 16 0.6250 0.9091 0.6667 D -5 wtCTTCTTCw. .....TTCrwCTTCy 31 23 10 25 27 23.2000 28
oligos_7nt_mkv5_m5 Carub.0002s2128.1_RWPRK_1_AT1G74480_EEAD0605_EEADannot oligos_7nt_mkv5_m5 Carub.0002s2128.1_RWPRK_1_AT1G74480:EEAD0605:EEADannot 0.700 0.513 0.672 0.882 0.89633 11 15 11 15 0.7333 1.0000 0.7333 R -4 wtCTTCTTCww ....TTCRWCTTCYY 34 12 24 23 25 23.6000 29
oligos_7nt_mkv5_m5 CDF5_UN0360.1_JASPAR oligos_7nt_mkv5_m5 CDF5:UN0360.1:JASPAR 0.701 0.637 0.358 0.871 0.88661 11 10 10 11 0.9091 0.9091 1.0000 R 0 wtCTTCTTCw. YACTTTTTAW 33 2 31 27 29 24.4000 30
oligos_7nt_mkv5_m5 bZIP44_2_EEAD0099_EEADannot oligos_7nt_mkv5_m5 bZIP44_2:EEAD0099:EEADannot 0.723 0.452 0.395 0.890 0.89526 11 15 10 16 0.6250 0.9091 0.6667 R 1 .tCTTCTTCww TCATCATCAY..... 27 21 29 24 23 24.8000 31
oligos_7nt_mkv5_m5 ONAC127_UN0430.2_JASPAR oligos_7nt_mkv5_m5 ONAC127:UN0430.2:JASPAR 0.730 0.531 0.364 0.863 0.86912 11 8 8 11 0.7273 0.7273 1.0000 R 0 wtCTTCTT... CTTTTCTT 26 10 30 30 30 25.2000 32
oligos_7nt_mkv5_m5 NTL8_MA1678.3_JASPAR oligos_7nt_mkv5_m5 NTL8:MA1678.3:JASPAR 0.720 0.524 0.928 0.852 0.86418 11 8 8 11 0.7273 0.7273 1.0000 R 1 .tCTTCTTC.. GTTTCTTC 28 11 23 31 33 25.2000 33
oligos_7nt_mkv5_m5 DOF2.2_MA1272.3_JASPAR oligos_7nt_mkv5_m5 DOF2.2:MA1272.3:JASPAR 0.763 0.416 0.342 0.841 0.83724 11 6 6 11 0.5455 0.5455 1.0000 R 2 ..CTTCTT... CTTTTT 18 32 32 34 34 30.0000 34 
 Host name	rsat
 Job started	2026-03-29.153833
 Job done	2026-03-29.153850
 Seconds	10.65
	user	10.65
	system	0.87
	cuser	4.7
;	csystem	1.31