/var/www/html/rsat/public_html/tmp/www-data/2025/09/18/compare-matrices_2025-09-18.151517_Y2L7CG/compare-matrices.tab 
 compare-matrices  -v 1 -format1 transfac -file1 $RSAT/public_html/tmp/www-data/2025/09/18/compare-matrices_2025-09-18.151517_Y2L7CG/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/2025/09/18/compare-matrices_2025-09-18.151517_Y2L7CG/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/2025/09/18/compare-matrices_2025-09-18.151517_Y2L7CG/compare-matrices_query_matrices.transfac
 Output files
	match_table_html	$RSAT/public_html/tmp/www-data/2025/09/18/compare-matrices_2025-09-18.151517_Y2L7CG/compare-matrices.html
	match_table_txt	$RSAT/public_html/tmp/www-data/2025/09/18/compare-matrices_2025-09-18.151517_Y2L7CG/compare-matrices.tab
	prefix       	$RSAT/public_html/tmp/www-data/2025/09/18/compare-matrices_2025-09-18.151517_Y2L7CG/compare-matrices
	html_index   	$RSAT/public_html/tmp/www-data/2025/09/18/compare-matrices_2025-09-18.151517_Y2L7CG/compare-matrices_index.html
	alignments_1ton	$RSAT/public_html/tmp/www-data/2025/09/18/compare-matrices_2025-09-18.151517_Y2L7CG/compare-matrices_alignments_1ton.tab
	alignments_1ton_html	$RSAT/public_html/tmp/www-data/2025/09/18/compare-matrices_2025-09-18.151517_Y2L7CG/compare-matrices_alignments_1ton.html
 Matrices
	file1	1 matrices	$RSAT/public_html/tmp/www-data/2025/09/18/compare-matrices_2025-09-18.151517_Y2L7CG/compare-matrices_query_matrices.transfac
		file1	1	10	951	waAGAAAGww
	file2	3346 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
		...	3336 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
assembly_14 ChFLCrsat_EEAD0164_EEADannot assembly_14 ChFLCrsat:EEAD0164:EEADannot 0.875 0.729 7.241 0.943 0.92445 10 12 10 12 0.8333 1.0000 0.8333 D -2 waAGAAAGww ..ATAGAAAGww 7 3 38 1 6 11.0000 1
assembly_14 CDF5_UN0360.1_JASPAR assembly_14 CDF5:UN0360.1:JASPAR 0.766 0.766 9.610 0.890 0.89531 10 10 10 10 1.0000 1.0000 1.0000 D 0 waAGAAAGww wtAAAAAGtr 28 1 1 22 29 16.2000 2
assembly_14 Dof2_MA0020.1_JASPAR assembly_14 Dof2:MA0020.1:JASPAR 0.926 0.556 7.700 0.961 0.91915 10 6 6 10 0.6000 0.6000 1.0000 D 4 ....AAAGww AAAGcm 4 42 30 4 3 16.6000 3
assembly_14 Dof3_MA0021.1_JASPAR assembly_14 Dof3:MA0021.1:JASPAR 0.918 0.551 7.704 0.956 0.91467 10 6 6 10 0.6000 0.6000 1.0000 D 4 ....AAAGww AAAGyv 5 43 28 5 5 17.2000 4
assembly_14 DOF2.2_MA1272.2_JASPAR assembly_14 DOF2.2:MA1272.2:JASPAR 0.764 0.764 9.596 0.889 0.89483 10 10 10 10 1.0000 1.0000 1.0000 D 0 waAGAAAGww wyAAAAAGtw 34 2 2 23 30 18.2000 5
assembly_14 Zm00001d027846_MA1823.1_JASPAR assembly_14 Zm00001d027846:MA1823.1:JASPAR 0.786 0.655 6.650 0.902 0.90100 10 12 10 12 0.8333 1.0000 0.8333 D -2 waAGAAAGww ..AAAGAAAAar 18 7 48 11 13 19.4000 6
assembly_14 MNB1A_MA0053.1_JASPAR assembly_14 MNB1A:MA0053.1:JASPAR 0.949 0.474 7.703 0.968 0.91968 10 5 5 10 0.5000 0.5000 1.0000 D 4 ....AAAGw. AAAGc 1 71 29 3 1 21.0000 7
assembly_14 PBF_MA0064.1_JASPAR assembly_14 PBF:MA0064.1:JASPAR 0.940 0.470 7.698 0.963 0.91357 10 5 5 10 0.5000 0.5000 1.0000 D 4 ....AAAGw. AAAGy 2 72 32 6 2 22.8000 8
assembly_14 Dof2_MA0020.2_JASPAR assembly_14 Dof2:MA0020.2:JASPAR 0.932 0.466 7.699 0.957 0.90696 10 5 5 10 0.5000 0.5000 1.0000 D 4 ....AAAGw. AAAGc 3 77 31 8 4 24.6000 9
assembly_14 dof4.5_MA1269.1_JASPAR assembly_14 dof4.5:MA1269.1:JASPAR 0.796 0.478 8.103 0.902 0.89588 10 14 9 15 0.6000 0.9000 0.6429 D 1 .aAGAAAGww rawAAAGtw..... 17 69 19 19 12 27.2000 10
assembly_14 At1g64620.ampDAP_M0251_AthalianaCistrome assembly_14 At1g64620.ampDAP:M0251:AthalianaCistrome 0.767 0.575 9.079 0.883 0.88605 10 11 9 12 0.7500 0.9000 0.8182 D 1 .aAGAAAGww sAAAAAGkw.. 25 31 4 40 41 28.2000 11
assembly_14 NAC053_MA2049.2_JASPAR assembly_14 NAC053:MA2049.2:JASPAR 0.837 0.586 7.262 0.900 0.88074 10 7 7 10 0.7000 0.7000 1.0000 D 0 waAGAAA... CAAGAAA 12 25 37 58 15 29.4000 12
assembly_14 NAC078_MA1677.2_JASPAR assembly_14 NAC078:MA1677.2:JASPAR 0.837 0.586 7.015 0.902 0.88164 10 7 7 10 0.7000 0.7000 1.0000 D 0 waAGAAA... CAAGAAA 11 24 43 57 14 29.8000 13
assembly_14 dof24.ampDAP_M0269_AthalianaCistrome assembly_14 dof24.ampDAP:M0269:AthalianaCistrome 0.760 0.507 8.843 0.892 0.89591 10 15 10 15 0.6667 1.0000 0.6667 D -4 waAGAAAGww ....acAWAAAGTd. 44 61 5 18 26 30.8000 14
assembly_14 OBP4.ampDAP_M0261_AthalianaCistrome assembly_14 OBP4.ampDAP:M0261:AthalianaCistrome 0.767 0.404 8.575 0.896 0.89786 10 19 10 19 0.5263 1.0000 0.5263 D -5 waAGAAAGww .....acAAAAAGtw.... 26 94 13 14 19 33.2000 15
assembly_14 FLC_MA0558.1_JASPAR assembly_14 FLC:MA0558.1:JASPAR 0.854 0.407 6.485 0.936 0.92008 10 21 10 21 0.4762 1.0000 0.4762 D -11 waAGAAAGww ...........AwrGAAAgww 10 93 54 2 7 33.2000 16
assembly_14 FLC_MA0558.2_JASPAR assembly_14 FLC:MA0558.2:JASPAR 0.856 0.428 6.474 0.923 0.90206 10 14 8 16 0.5000 0.8000 0.5714 D -6 waAGAAAG.. ......AwrGAAAg 9 88 56 9 9 34.2000 17
assembly_14 AT1G47655.ampDAP_M0271_AthalianaCistrome assembly_14 AT1G47655.ampDAP:M0271:AthalianaCistrome 0.813 0.542 0.278 0.920 0.91033 10 15 10 15 0.6667 1.0000 0.6667 R 0 waAGAAAGww ARAAAAAGAA..... 14 47 96 7 11 35.0000 18
assembly_14 AT3G12130.ampDAP_M0341_AthalianaCistrome assembly_14 AT3G12130.ampDAP:M0341:AthalianaCistrome 0.751 0.536 8.047 0.891 0.89580 10 14 10 14 0.7143 1.0000 0.7143 D -2 waAGAAAGww ..wsAAAAAGkw.. 58 51 23 20 27 35.8000 19
assembly_14 PHYPADRAFT_140773_MA0987.1_JASPAR assembly_14 PHYPADRAFT_140773:MA0987.1:JASPAR 0.763 0.624 3.843 0.887 0.88813 10 10 9 11 0.8182 0.9000 0.9000 D 1 .aAGAAAGww srwAAAGyd. 37 11 69 31 33 36.2000 20
assembly_14 ONAC127_UN0429.1_JASPAR assembly_14 ONAC127:UN0429.1:JASPAR 0.743 0.675 6.738 0.885 0.89272 10 11 10 11 0.9091 1.0000 0.9091 D 0 waAGAAAGww rgAGGAAGAy. 66 4 46 26 39 36.2000 21
assembly_14 NAC004_MA2043.2_JASPAR assembly_14 NAC004:MA2043.2:JASPAR 0.818 0.573 6.610 0.894 0.87670 10 7 7 10 0.7000 0.7000 1.0000 D 0 waAGAAA... CAAGAAA 13 33 51 62 22 36.2000 22
assembly_14 KHZ1_UN0404.1_JASPAR assembly_14 KHZ1:UN0404.1:JASPAR 0.751 0.536 8.047 0.891 0.89579 10 14 10 14 0.7143 1.0000 0.7143 D -2 waAGAAAGww ..wsAAAAAGkw.. 59 52 22 21 28 36.4000 23
assembly_14 Zm00001d027846_MA1823.2_JASPAR assembly_14 Zm00001d027846:MA1823.2:JASPAR 0.785 0.628 6.643 0.880 0.87731 10 8 8 10 0.8000 0.8000 1.0000 D 0 waAGAAAG.. AAAGAAAA 19 10 49 61 44 36.6000 24
assembly_14 At4g38000.ampDAP_M0275_AthalianaCistrome assembly_14 At4g38000.ampDAP:M0275:AthalianaCistrome 0.759 0.569 8.771 0.879 0.88417 10 11 9 12 0.7500 0.9000 0.8182 D 1 .aAGAAAGww sAWAAAGTw.. 48 34 11 45 47 37.0000 25
assembly_14 e_gw1.170.52.1_M0659_1.02_CISBP assembly_14 e_gw1.170.52.1:M0659_1.02:CISBP 0.761 0.623 3.870 0.887 0.88783 10 10 9 11 0.8182 0.9000 0.9000 D 1 .aAGAAAGww srwAAAGyd. 41 12 68 32 34 37.4000 26
assembly_14 dof45.ampDAP_M0280_AthalianaCistrome assembly_14 dof45.ampDAP:M0280:AthalianaCistrome 0.773 0.435 7.550 0.892 0.89037 10 15 9 16 0.5625 0.9000 0.6000 D 1 .aAGAAAGww aawAAAGtr...... 21 81 33 27 25 37.4000 27
assembly_14 At1g64620.DAP_M0263_AthalianaCistrome assembly_14 At1g64620.DAP:M0263:AthalianaCistrome 0.763 0.402 8.634 0.894 0.89683 10 19 10 19 0.5263 1.0000 0.5263 D -5 waAGAAAGww .....amAAAAAGkw.... 39 97 12 17 23 37.6000 28
assembly_14 CDF2_M0653_1.02_CISBP assembly_14 CDF2:M0653_1.02:CISBP 0.754 0.617 6.478 0.886 0.88734 10 10 9 11 0.8182 0.9000 0.9000 D 1 .aAGAAAGww maWAAAGyr. 53 13 55 33 35 37.8000 29
assembly_14 DOF4.5_MA1269.2_JASPAR assembly_14 DOF4.5:MA1269.2:JASPAR 0.798 0.426 8.102 0.893 0.88412 10 13 8 15 0.5333 0.8000 0.6154 D 2 ..AGAAAGww awAAAGtw..... 16 89 20 46 24 39.0000 30
assembly_14 DOF5.7_MA0984.2_JASPAR assembly_14 DOF5.7:MA0984.2:JASPAR 0.894 0.447 3.882 0.935 0.88627 10 5 5 10 0.5000 0.5000 1.0000 D 4 ....AAAGw. AAArr 6 80 67 37 8 39.6000 31
assembly_14 CDF2_MA0973.1_JASPAR assembly_14 CDF2:MA0973.1:JASPAR 0.753 0.616 6.435 0.885 0.88720 10 10 9 11 0.8182 0.9000 0.9000 D 1 .aAGAAAGww maWAAAGyr. 55 14 58 34 37 39.6000 32
assembly_14 AGL27_MA1012.1_JASPAR assembly_14 AGL27:MA1012.1:JASPAR 0.858 0.429 0.980 0.923 0.90197 10 14 8 16 0.5000 0.8000 0.5714 R -6 waAGAAAG.. ......ATRGAAAG 8 86 87 10 10 40.2000 33
assembly_14 NAC053_UN0376.1_JASPAR assembly_14 NAC053:UN0376.1:JASPAR 0.738 0.615 7.275 0.878 0.88954 10 12 10 12 0.8333 1.0000 0.8333 D -2 waAGAAAGww ..CAAGAAAymw 73 15 36 28 50 40.4000 34
assembly_14 AT2G28810.ampDAP_M0245_AthalianaCistrome assembly_14 AT2G28810.ampDAP:M0245:AthalianaCistrome 0.772 0.515 0.346 0.900 0.89999 10 15 10 15 0.6667 1.0000 0.6667 R -3 waAGAAAGww ...RSAWAAAGTR.. 23 60 93 12 16 40.8000 35
assembly_14 OBP4_MA1280.1_JASPAR assembly_14 OBP4:MA1280.1:JASPAR 0.762 0.457 8.790 0.882 0.88551 10 14 9 15 0.6000 0.9000 0.6429 D 1 .aAGAAAGww sAAAAAGkw..... 40 78 7 42 42 41.8000 36
assembly_14 DOF1.5_MA1279.2_JASPAR assembly_14 DOF1.5:MA1279.2:JASPAR 0.750 0.469 8.071 0.889 0.89444 10 16 10 16 0.6250 1.0000 0.6250 D -3 waAGAAAGww ...arAAAAAGtr... 60 73 21 24 32 42.0000 37
assembly_14 DAG2_MA1271.1_JASPAR assembly_14 DAG2:MA1271.1:JASPAR 0.751 0.564 8.477 0.878 0.88339 10 11 9 12 0.7500 0.9000 0.8182 D 1 .aAGAAAGww sAAAAAGkd.. 57 35 16 52 54 42.8000 38
assembly_14 AT3G52440_MA1276.1_JASPAR assembly_14 AT3G52440:MA1276.1:JASPAR 0.749 0.562 8.496 0.878 0.88335 10 11 9 12 0.7500 0.9000 0.8182 D 1 .aAGAAAGww sAwAAAGkd.. 61 36 14 53 55 43.8000 39
assembly_14 KHZ1_UN0404.2_JASPAR assembly_14 KHZ1:UN0404.2:JASPAR 0.765 0.556 8.044 0.874 0.87465 10 9 8 11 0.7273 0.8000 0.8889 D 2 ..AGAAAGww AAAAAGkw. 30 40 25 67 59 44.2000 40
assembly_14 C3H36_UN0844.1_JASPAR assembly_14 C3H36:UN0844.1:JASPAR 0.764 0.556 8.046 0.874 0.87461 10 9 8 11 0.7273 0.8000 0.8889 D 2 ..AGAAAGww AAAAAGkw. 32 41 24 68 60 45.0000 41
assembly_14 PI_MA0559.1_JASPAR assembly_14 PI:MA0559.1:JASPAR 0.800 0.400 5.008 0.896 0.88620 10 14 8 16 0.5000 0.8000 0.5714 D -6 waAGAAAG.. ......rwrGAAAr 15 98 60 38 17 45.6000 42
assembly_14 NAC078_MA1677.1_JASPAR assembly_14 NAC078:MA1677.1:JASPAR 0.731 0.609 7.036 0.875 0.88831 10 12 10 12 0.8333 1.0000 0.8333 D -2 waAGAAAGww ..CAAGAAAcmw 82 17 42 30 57 45.6000 43
assembly_14 DOF3.2_MA1270.2_JASPAR assembly_14 DOF3.2:MA1270.2:JASPAR 0.763 0.477 0.448 0.895 0.89744 10 16 10 16 0.6250 1.0000 0.6250 R -5 waAGAAAGww .....RSAAAAAGTW. 35 70 90 15 20 46.0000 44
assembly_14 PHYPADRAFT_153324_MA0989.1_JASPAR assembly_14 PHYPADRAFT_153324:MA0989.1:JASPAR 0.736 0.663 4.046 0.879 0.88423 10 9 9 10 0.9000 0.9000 1.0000 D 1 .aAGAAAGww vrwAAaGyd 76 5 63 43 45 46.4000 45
assembly_14 AT1G47655_MA1275.1_JASPAR assembly_14 AT1G47655:MA1275.1:JASPAR 0.707 0.643 7.352 0.872 0.88704 10 11 10 11 0.9091 1.0000 0.9091 D 0 waAGAAAGww rsawAAAGTr. 95 8 34 35 61 46.6000 46
assembly_14 AT5G63260.ampDAP_M0343_AthalianaCistrome assembly_14 AT5G63260.ampDAP:M0343:AthalianaCistrome 0.744 0.558 8.777 0.871 0.88028 10 11 9 12 0.7500 0.9000 0.8182 D 1 .aAGAAAGww sAAAAAGTd.. 63 38 10 59 64 46.8000 47
assembly_14 AT5G63260.DAP_M0340_AthalianaCistrome assembly_14 AT5G63260.DAP:M0340:AthalianaCistrome 0.743 0.558 8.295 0.874 0.88189 10 11 9 12 0.7500 0.9000 0.8182 D 1 .aAGAAAGww sAWAAAGKd.. 64 39 18 56 58 47.0000 48
assembly_14 e_gw1.392.16.1_M0660_1.02_CISBP assembly_14 e_gw1.392.16.1:M0660_1.02:CISBP 0.736 0.663 4.031 0.879 0.88417 10 9 9 10 0.9000 0.9000 1.0000 D 1 .aAGAAAGww vrwAAaGyd 77 6 64 44 46 47.4000 49
assembly_14 DAG2.ampDAP_M0266_AthalianaCistrome assembly_14 DAG2.ampDAP:M0266:AthalianaCistrome 0.753 0.484 8.823 0.877 0.88312 10 13 9 14 0.6429 0.9000 0.6923 D 1 .aAGAAAGww cAAAAAGkk.... 56 67 6 55 56 48.0000 50 
 Host name	rsat
 Job started	2025-09-18.151517
 Job done	2025-09-18.151547
 Seconds	10.21
	user	10.21
	system	2
	cuser	14.01
;	csystem	4.06