/var/www/html/rsat/public_html/tmp/www-data/2026/05/29/compare-matrices_2026-05-29.141919_T2t2ED/compare-matrices.tab 
 compare-matrices  -v 1 -format1 transfac -file1 $RSAT/public_html/tmp/www-data/2026/05/29/compare-matrices_2026-05-29.141919_T2t2ED/compare-matrices_query_matrices.transfac -file2 $RSAT/public_html/motif_databases/footprintDB/footprintDB.plants.motif.tf -format2 tf -strand DR -lth cor 0.4 -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/2026/05/29/compare-matrices_2026-05-29.141919_T2t2ED/compare-matrices.tab
 Program version       	1.118
 Slow mode 
 Input files
	file2 	$RSAT/public_html/motif_databases/footprintDB/footprintDB.plants.motif.tf
	file1 	$RSAT/public_html/tmp/www-data/2026/05/29/compare-matrices_2026-05-29.141919_T2t2ED/compare-matrices_query_matrices.transfac
 Output files
	match_table_html	$RSAT/public_html/tmp/www-data/2026/05/29/compare-matrices_2026-05-29.141919_T2t2ED/compare-matrices.html
	prefix       	$RSAT/public_html/tmp/www-data/2026/05/29/compare-matrices_2026-05-29.141919_T2t2ED/compare-matrices
	alignments_1ton_html	$RSAT/public_html/tmp/www-data/2026/05/29/compare-matrices_2026-05-29.141919_T2t2ED/compare-matrices_alignments_1ton.html
	html_index   	$RSAT/public_html/tmp/www-data/2026/05/29/compare-matrices_2026-05-29.141919_T2t2ED/compare-matrices_index.html
	match_table_txt	$RSAT/public_html/tmp/www-data/2026/05/29/compare-matrices_2026-05-29.141919_T2t2ED/compare-matrices.tab
	alignments_1ton	$RSAT/public_html/tmp/www-data/2026/05/29/compare-matrices_2026-05-29.141919_T2t2ED/compare-matrices_alignments_1ton.tab
 Matrices
	file1	1 matrices	$RSAT/public_html/tmp/www-data/2026/05/29/compare-matrices_2026-05-29.141919_T2t2ED/compare-matrices_query_matrices.transfac
		file1	1	12	21	rwCAGGCCGmmv
	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_6-8nt_m4 AT4G00270_M1620_1.02_CISBP oligos_6-8nt_m4 AT4G00270:M1620_1.02:CISBP 0.811 0.541 5.993 0.904 0.89033 12 8 8 12 0.6667 0.6667 1.0000 D 2 ..CAGGCCGm.. cCGGCCGc 11 15 9 47 30 22.4000 1
oligos_6-8nt_m4 GEBP_UN0399.1_JASPAR oligos_6-8nt_m4 GEBP:UN0399.1:JASPAR 0.811 0.541 4.955 0.904 0.89023 12 8 8 12 0.6667 0.6667 1.0000 R 2 ..CAGGCCGm.. CCGGCCGC 12 16 70 48 31 35.4000 2
oligos_6-8nt_m4 ERF13_MA1004.1_JASPAR oligos_6-8nt_m4 ERF13:MA1004.1:JASPAR 0.783 0.522 5.198 0.903 0.88990 12 8 8 12 0.6667 0.6667 1.0000 D 4 ....GGCCGmmv sGCCGcCr 27 22 57 50 33 37.8000 3
oligos_6-8nt_m4 ATERF13_M0020_1.02_CISBP oligos_6-8nt_m4 ATERF13:M0020_1.02:CISBP 0.782 0.521 5.135 0.903 0.88980 12 8 8 12 0.6667 0.6667 1.0000 D 4 ....GGCCGmmv sGCCGcCr 29 23 60 51 34 39.4000 4
oligos_6-8nt_m4 LOC_Os08g36920_M0044_1.02_CISBP oligos_6-8nt_m4 LOC_Os08g36920:M0044_1.02:CISBP 0.744 0.620 4.221 0.914 0.90719 12 10 10 12 0.8333 0.8333 1.0000 D 2 ..CAGGCCGmmv bscGsCGyma 51 1 133 6 17 41.6000 5
oligos_6-8nt_m4 RAP2.6_RAP2.6_2_ArabidopsisPBM oligos_6-8nt_m4 RAP2.6:RAP2.6_2:ArabidopsisPBM 0.759 0.525 4.682 0.905 0.89745 12 10 9 13 0.6923 0.7500 0.9000 D 3 ...AGGCCGmmv mrGCCGCmA. 44 20 94 22 29 41.8000 6
oligos_6-8nt_m4 DREB1F_MA1748.1_JASPAR oligos_6-8nt_m4 DREB1F:MA1748.1:JASPAR 0.802 0.493 4.407 0.917 0.89803 12 9 8 13 0.6154 0.6667 0.8889 D 4 ....GGCCGmmv yrCCGACa. 16 46 119 21 16 43.6000 7
oligos_6-8nt_m4 HRD_M0019_1.02_CISBP oligos_6-8nt_m4 HRD:M0019_1.02:CISBP 0.784 0.588 3.038 0.927 0.90971 12 9 9 12 0.7500 0.7500 1.0000 D 3 ...AGGCCGmmv ytrCCGaCa 25 3 188 1 4 44.2000 8
oligos_6-8nt_m4 DREB1G_MA1032.1_JASPAR oligos_6-8nt_m4 DREB1G:MA1032.1:JASPAR 0.747 0.517 5.669 0.884 0.88636 12 10 9 13 0.6923 0.7500 0.9000 D 3 ...AGGCCGmmv atGCCGACA. 48 26 18 68 66 45.2000 9
oligos_6-8nt_m4 AT1G22985_M0007_1.02_CISBP oligos_6-8nt_m4 AT1G22985:M0007_1.02:CISBP 0.772 0.579 3.086 0.923 0.90769 12 9 9 12 0.7500 0.7500 1.0000 D 3 ...AGGCCGmmv scGCCGcca 32 6 185 4 9 47.2000 10
oligos_6-8nt_m4 LOC_Os02g45450_M0042_1.02_CISBP oligos_6-8nt_m4 LOC_Os02g45450:M0042_1.02:CISBP 0.746 0.517 5.663 0.883 0.88620 12 10 9 13 0.6923 0.7500 0.9000 D 3 ...AGGCCGmmv atGCCGACA. 50 27 20 72 69 47.6000 11
oligos_6-8nt_m4 ERF069_MA0997.1_JASPAR oligos_6-8nt_m4 ERF069:MA0997.1:JASPAR 0.771 0.578 3.089 0.923 0.90743 12 9 9 12 0.7500 0.7500 1.0000 D 3 ...AGGCCGmmv scGCCGcca 34 7 184 5 10 48.0000 12
oligos_6-8nt_m4 DREB1G_MA1032.2_JASPAR oligos_6-8nt_m4 DREB1G:MA1032.2:JASPAR 0.773 0.515 5.667 0.883 0.87931 12 8 8 12 0.6667 0.6667 1.0000 D 4 ....GGCCGmmv tGCCGACA 31 28 19 97 67 48.4000 13
oligos_6-8nt_m4 DREB1C_MA1670.2_JASPAR oligos_6-8nt_m4 DREB1C:MA1670.2:JASPAR 0.840 0.452 4.887 0.914 0.88893 12 8 7 13 0.5385 0.5833 0.8750 D 5 .....GCCGmmv RCCGACA. 4 108 75 55 19 52.2000 14
oligos_6-8nt_m4 ERF11_M0009_1.02_CISBP oligos_6-8nt_m4 ERF11:M0009_1.02:CISBP 0.766 0.530 2.727 0.922 0.90666 12 10 9 13 0.6923 0.7500 0.9000 D 3 ...AGGCCGmmv scGCCGyma. 39 18 196 8 13 54.8000 15
oligos_6-8nt_m4 CRF3_M0041_1.02_CISBP oligos_6-8nt_m4 CRF3:M0041_1.02:CISBP 0.762 0.571 2.494 0.920 0.90589 12 9 9 12 0.7500 0.7500 1.0000 D 3 ...AGGCCGmmv scGCCgcca 42 10 205 9 14 56.0000 16
oligos_6-8nt_m4 Rap2.6L_M0036_1.02_CISBP oligos_6-8nt_m4 Rap2.6L:M0036_1.02:CISBP 0.767 0.531 2.358 0.922 0.90675 12 10 9 13 0.6923 0.7500 0.9000 D 3 ...AGGCCGmmv smGCCGyma. 38 17 207 7 12 56.2000 17
oligos_6-8nt_m4 DREB1B_MA1669.2_JASPAR oligos_6-8nt_m4 DREB1B:MA1669.2:JASPAR 0.835 0.450 5.010 0.908 0.88560 12 8 7 13 0.5385 0.5833 0.8750 D 5 .....GCCGmmv RCCGACA. 5 112 67 76 24 56.8000 18
oligos_6-8nt_m4 ERF11_MA1001.1_JASPAR oligos_6-8nt_m4 ERF11:MA1001.1:JASPAR 0.760 0.526 2.714 0.920 0.90560 12 10 9 13 0.6923 0.7500 0.9000 D 3 ...AGGCCGmmv scGCCGyma. 43 19 197 10 15 56.8000 19
oligos_6-8nt_m4 ERF025_MA1752.2_JASPAR oligos_6-8nt_m4 ERF025:MA1752.2:JASPAR 0.764 0.510 5.382 0.882 0.87870 12 8 8 12 0.6667 0.6667 1.0000 D 4 ....GGCCGmmv yGCCGACA 40 31 39 105 71 57.2000 20
oligos_6-8nt_m4 ATERF-7_M0023_1.02_CISBP oligos_6-8nt_m4 ATERF-7:M0023_1.02:CISBP 0.811 0.463 3.078 0.933 0.90845 12 10 8 14 0.5714 0.6667 0.8000 D 4 ....GGCCGmmv mGCCGyca.. 13 87 186 2 1 57.8000 21
oligos_6-8nt_m4 AT1G75490_M0015_1.02_CISBP oligos_6-8nt_m4 AT1G75490:M0015_1.02:CISBP 0.727 0.545 3.232 0.910 0.89991 12 9 9 12 0.7500 0.7500 1.0000 D 3 ...AGGCCGmmv scrCCGmyw 63 13 179 17 22 58.8000 22
oligos_6-8nt_m4 AT2G33710_M0018_1.02_CISBP oligos_6-8nt_m4 AT2G33710:M0018_1.02:CISBP 0.691 0.576 4.597 0.889 0.89454 12 10 10 12 0.8333 0.8333 1.0000 D 2 ..CAGGCCGmmv gscGCCGcca 91 8 105 30 61 59.0000 23
oligos_6-8nt_m4 ERF7_MA0993.1_JASPAR oligos_6-8nt_m4 ERF7:MA0993.1:JASPAR 0.809 0.462 3.054 0.932 0.90810 12 10 8 14 0.5714 0.6667 0.8000 D 4 ....GGCCGmmv mGCCGyca.. 14 89 187 3 2 59.0000 24
oligos_6-8nt_m4 ARF7_MA1698.2_JASPAR oligos_6-8nt_m4 ARF7:MA1698.2:JASPAR 0.865 0.432 4.213 0.931 0.90057 12 9 7 14 0.5000 0.5833 0.7778 D 5 .....GCCGmmv GCCGACr.. 1 149 134 15 3 60.4000 25
oligos_6-8nt_m4 ERF112_MA1002.1_JASPAR oligos_6-8nt_m4 ERF112:MA1002.1:JASPAR 0.691 0.576 4.492 0.889 0.89476 12 10 10 12 0.8333 0.8333 1.0000 D 2 ..CAGGCCGmmv gscGCCGcca 92 9 115 28 60 60.8000 26
oligos_6-8nt_m4 EREB36_ZmDREB1D_Mo17_1_EEAD0348_EEADannot oligos_6-8nt_m4 EREB36_ZmDREB1D_Mo17_1:EEAD0348:EEADannot 0.734 0.472 6.077 0.870 0.87999 12 11 9 14 0.6429 0.7500 0.8182 D 3 ...AGGCCGmmv yyGCCGACA.. 56 68 5 93 82 60.8000 27
oligos_6-8nt_m4 PK19363.1_M0004_1.02_CISBP oligos_6-8nt_m4 PK19363.1:M0004_1.02:CISBP 0.747 0.498 4.838 0.893 0.88457 12 8 8 12 0.6667 0.6667 1.0000 D 4 ....GGCCGmmv CGCCGcCr 49 41 81 80 54 61.0000 28
oligos_6-8nt_m4 ATERF-8_M0012_1.02_CISBP oligos_6-8nt_m4 ATERF-8:M0012_1.02:CISBP 0.793 0.453 3.470 0.925 0.90316 12 10 8 14 0.5714 0.6667 0.8000 D 4 ....GGCCGmmv cGCCGcca.. 20 105 168 12 5 62.0000 29
oligos_6-8nt_m4 AT5G43410_M0037_1.02_CISBP oligos_6-8nt_m4 AT5G43410:M0037_1.02:CISBP 0.728 0.504 3.963 0.900 0.89472 12 10 9 13 0.6923 0.7500 0.9000 D 3 ...AGGCCGmmv smGCCGcCa. 61 36 147 29 38 62.2000 30
oligos_6-8nt_m4 ERF096_MA0998.1_JASPAR oligos_6-8nt_m4 ERF096:MA0998.1:JASPAR 0.728 0.504 3.886 0.901 0.89493 12 10 9 13 0.6923 0.7500 0.9000 D 3 ...AGGCCGmmv smGCCGcCa. 60 34 154 27 37 62.4000 31
oligos_6-8nt_m4 ERF098_MA0999.1_JASPAR oligos_6-8nt_m4 ERF098:MA0999.1:JASPAR 0.771 0.514 2.162 0.914 0.89619 12 8 8 12 0.6667 0.6667 1.0000 D 3 ...AGGCCGmm. scGCCGcc 33 29 211 23 18 62.8000 32
oligos_6-8nt_m4 AT3G23230_M0024_1.02_CISBP oligos_6-8nt_m4 AT3G23230:M0024_1.02:CISBP 0.769 0.512 2.175 0.913 0.89585 12 8 8 12 0.6667 0.6667 1.0000 D 3 ...AGGCCGmm. smGCCGcC 36 30 210 24 20 64.0000 33
oligos_6-8nt_m4 ATERF-1_M0028_1.02_CISBP oligos_6-8nt_m4 ATERF-1:M0028_1.02:CISBP 0.727 0.545 2.427 0.910 0.89997 12 9 9 12 0.7500 0.7500 1.0000 D 3 ...AGGCCGmmv smGCCgyCm 64 14 206 16 21 64.2000 34
oligos_6-8nt_m4 ERF8_MA0994.1_JASPAR oligos_6-8nt_m4 ERF8:MA0994.1:JASPAR 0.790 0.452 3.408 0.924 0.90269 12 10 8 14 0.5714 0.6667 0.8000 D 4 ....GGCCGmmv cGCCGcca.. 23 109 169 14 7 64.4000 35
oligos_6-8nt_m4 ERF13_MA1004.2_JASPAR oligos_6-8nt_m4 ERF13:MA1004.2:JASPAR 0.792 0.462 5.195 0.895 0.87776 12 7 7 12 0.5833 0.5833 1.0000 D 4 ....GGCCGmm. sGCCGcC 21 91 58 108 49 65.4000 36
oligos_6-8nt_m4 ERF2_M0038_1.02_CISBP oligos_6-8nt_m4 ERF2:M0038_1.02:CISBP 0.720 0.600 1.734 0.906 0.90313 12 10 10 12 0.8333 0.8333 1.0000 D 2 ..CAGGCCGmmv hsmGCCGcCa 75 2 212 13 28 66.0000 37
oligos_6-8nt_m4 ATERF15_M0017_1.02_CISBP oligos_6-8nt_m4 ATERF15:M0017_1.02:CISBP 0.756 0.504 2.839 0.908 0.89261 12 8 8 12 0.6667 0.6667 1.0000 R 4 ....GGCCGmmv GGCCGSCG 46 35 193 33 25 66.4000 38
oligos_6-8nt_m4 0100010458_M0076_1.02_CISBP oligos_6-8nt_m4 0100010458:M0076_1.02:CISBP 0.731 0.487 5.491 0.872 0.87374 12 8 8 12 0.6667 0.6667 1.0000 D 4 ....GGCCGmmv cGCCGCCr 58 52 26 119 80 67.0000 39
oligos_6-8nt_m4 ERF027_MA1227.3_JASPAR oligos_6-8nt_m4 ERF027:MA1227.3:JASPAR 0.805 0.470 4.785 0.895 0.87743 12 7 7 12 0.5833 0.5833 1.0000 D 5 .....GCCGmmv rCCGACA 15 73 86 110 52 67.2000 40
oligos_6-8nt_m4 DREB1A_MA0971.1_JASPAR oligos_6-8nt_m4 DREB1A:MA0971.1:JASPAR 0.723 0.500 4.560 0.886 0.88725 12 10 9 13 0.6923 0.7500 0.9000 R 3 ...AGGCCGmmv YYRCCGACA. 71 38 110 63 65 69.4000 41
oligos_6-8nt_m4 AT4G16750_M0026_1.02_CISBP oligos_6-8nt_m4 AT4G16750:M0026_1.02:CISBP 0.719 0.498 3.951 0.896 0.89233 12 10 9 13 0.6923 0.7500 0.9000 R 3 ...AGGCCGmmv YYRCCGACA. 76 40 148 37 48 69.8000 42
oligos_6-8nt_m4 DREB1F_MA1748.2_JASPAR oligos_6-8nt_m4 DREB1F:MA1748.2:JASPAR 0.858 0.429 4.408 0.924 0.88744 12 6 6 12 0.5000 0.5000 1.0000 D 5 .....GCCGmm. rCCGAC 2 161 118 62 8 70.2000 43
oligos_6-8nt_m4 ERF039_MA0995.1_JASPAR oligos_6-8nt_m4 ERF039:MA0995.1:JASPAR 0.719 0.498 3.899 0.896 0.89240 12 10 9 13 0.6923 0.7500 0.9000 R 3 ...AGGCCGmmv YCRCCGACA. 77 42 152 36 47 70.8000 44
oligos_6-8nt_m4 ARF5_MA0943.2_JASPAR oligos_6-8nt_m4 ARF5:MA0943.2:JASPAR 0.798 0.466 4.351 0.899 0.87998 12 7 7 12 0.5833 0.5833 1.0000 D 5 .....GCCGmmv rCCGACA 17 80 124 94 40 71.0000 45
oligos_6-8nt_m4 ERF025_MA1752.1_JASPAR oligos_6-8nt_m4 ERF025:MA1752.1:JASPAR 0.615 0.492 5.406 0.861 0.89253 12 15 12 15 0.8000 1.0000 0.8000 D 0 rwCAGGCCGmmv yykyyGCCGACA... 145 48 34 34 96 71.4000 46
oligos_6-8nt_m4 ERF3_M0011_1.02_CISBP oligos_6-8nt_m4 ERF3:M0011_1.02:CISBP 0.728 0.485 5.284 0.875 0.87514 12 8 8 12 0.6667 0.6667 1.0000 D 4 ....GGCCGmmv CGCCGcCr 62 55 48 114 78 71.4000 47
oligos_6-8nt_m4 EREB127_MA2414.1_JASPAR oligos_6-8nt_m4 EREB127:MA2414.1:JASPAR 0.742 0.495 5.243 0.868 0.87145 12 8 8 12 0.6667 0.6667 1.0000 D 4 ....GGCCGmmv TRCCGACA 52 44 53 126 87 72.4000 48
oligos_6-8nt_m4 DREB1C_MA1670.1_JASPAR oligos_6-8nt_m4 DREB1C:MA1670.1:JASPAR 0.673 0.462 4.910 0.879 0.89508 12 15 11 16 0.6875 0.9167 0.7333 D 1 .wCAGGCCGmmv wwttRCCGACA.... 104 88 72 26 75 73.0000 49
oligos_6-8nt_m4 ERF3_MA1005.1_JASPAR oligos_6-8nt_m4 ERF3:MA1005.1:JASPAR 0.725 0.484 5.200 0.875 0.87483 12 8 8 12 0.6667 0.6667 1.0000 D 4 ....GGCCGmmv CGCCGcCr 65 56 56 116 79 74.4000 50 
 Host name	rsat
 Job started	2026-05-29.141920
 Job done	2026-05-29.142029
 Seconds	15.5
	user	15.5
	system	6.7
	cuser	37.25
;	csystem	9.88