/var/www/html/rsat/public_html/tmp/www-data/2026/01/09/compare-matrices_2026-01-09.163443_vrqq68/compare-matrices.tab 
 compare-matrices  -v 1 -format1 transfac -file1 $RSAT/public_html/tmp/www-data/2026/01/09/compare-matrices_2026-01-09.163443_vrqq68/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/2026/01/09/compare-matrices_2026-01-09.163443_vrqq68/compare-matrices.tab
 Program version       	1.118
 Slow mode 
 Input files
	file1 	$RSAT/public_html/tmp/www-data/2026/01/09/compare-matrices_2026-01-09.163443_vrqq68/compare-matrices_query_matrices.transfac
	file2 	$RSAT/public_html/motif_databases/footprintDB/footprintDB.plants.motif.tf
 Output files
	html_index   	$RSAT/public_html/tmp/www-data/2026/01/09/compare-matrices_2026-01-09.163443_vrqq68/compare-matrices_index.html
	match_table_txt	$RSAT/public_html/tmp/www-data/2026/01/09/compare-matrices_2026-01-09.163443_vrqq68/compare-matrices.tab
	prefix       	$RSAT/public_html/tmp/www-data/2026/01/09/compare-matrices_2026-01-09.163443_vrqq68/compare-matrices
	match_table_html	$RSAT/public_html/tmp/www-data/2026/01/09/compare-matrices_2026-01-09.163443_vrqq68/compare-matrices.html
	alignments_1ton_html	$RSAT/public_html/tmp/www-data/2026/01/09/compare-matrices_2026-01-09.163443_vrqq68/compare-matrices_alignments_1ton.html
	alignments_1ton	$RSAT/public_html/tmp/www-data/2026/01/09/compare-matrices_2026-01-09.163443_vrqq68/compare-matrices_alignments_1ton.tab
 Matrices
	file1	1 matrices	$RSAT/public_html/tmp/www-data/2026/01/09/compare-matrices_2026-01-09.163443_vrqq68/compare-matrices_query_matrices.transfac
		file1	1	10	350	waAACGTGww
	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
cluster_4 GBF1_MA2389.1_JASPAR cluster_4 GBF1:MA2389.1:JASPAR 0.902 0.632 5.452 0.949 0.91449 10 7 7 10 0.7000 0.7000 1.0000 D 3 ...ACGTGww ACGTGkm 6 43 108 3 5 33.0000 1
cluster_4 ZCW32_M0153_1.02_CISBP cluster_4 ZCW32:M0153_1.02:CISBP 0.829 0.747 4.970 0.917 0.90393 10 9 9 10 0.9000 0.9000 1.0000 D 0 waAACGTGw. sscACGTGs 15 13 120 9 9 33.2000 2
cluster_4 0300010311_M0363_1.02_CISBP cluster_4 0300010311:M0363_1.02:CISBP 0.781 0.710 9.048 0.903 0.90132 10 11 10 11 0.9091 1.0000 0.9091 D 0 waAACGTGww rtsACGTGgc. 56 18 37 23 35 33.8000 3
cluster_4 HYH_MA1425.1_JASPAR cluster_4 HYH:MA1425.1:JASPAR 0.785 0.654 8.325 0.907 0.90350 10 12 10 12 0.8333 1.0000 0.8333 D -1 waAACGTGww .rwsACGTGkc. 48 32 56 12 22 34.0000 4
cluster_4 BEE2_M0161_1.02_CISBP cluster_4 BEE2:M0161_1.02:CISBP 0.788 0.788 5.004 0.911 0.90566 10 10 10 10 1.0000 1.0000 1.0000 R 0 waAACGTGww WGCACGTGCD 45 1 119 7 14 37.2000 5
cluster_4 e_gw1.209.40.1_M0250_1.02_CISBP cluster_4 e_gw1.209.40.1:M0250_1.02:CISBP 0.775 0.775 6.755 0.905 0.90247 10 10 10 10 1.0000 1.0000 1.0000 D 0 waAACGTGww hgCACGTGcd 65 3 82 15 25 38.0000 6
cluster_4 BEE2_MA0956.1_JASPAR cluster_4 BEE2:MA0956.1:JASPAR 0.786 0.786 4.970 0.910 0.90528 10 10 10 10 1.0000 1.0000 1.0000 D 0 waAACGTGww hgCACGTGcd 47 2 121 8 15 38.6000 7
cluster_4 PHYPADRAFT_143875_MA0988.1_JASPAR cluster_4 PHYPADRAFT_143875:MA0988.1:JASPAR 0.773 0.773 6.787 0.904 0.90206 10 10 10 10 1.0000 1.0000 1.0000 D 0 waAACGTGww hgCACGTGcd 68 4 80 20 30 40.4000 8
cluster_4 AT1G29160_M0646_1.02_CISBP cluster_4 AT1G29160:M0646_1.02:CISBP 0.881 0.561 6.206 0.938 0.90603 10 8 7 11 0.6364 0.7000 0.8750 D -1 waAACGT... .wWAAmGT 7 106 97 5 6 44.2000 9
cluster_4 bZIP44:bZIP63_2_EEAD0123_EEADannot cluster_4 bZIP44:bZIP63_2:EEAD0123:EEADannot 0.962 0.577 4.317 0.975 0.93511 10 6 6 10 0.6000 0.6000 1.0000 R 3 ...ACGTGw. ACGTGK 1 94 132 1 1 45.8000 10
cluster_4 GLYMA-13G317000_MA2105.1_JASPAR cluster_4 GLYMA-13G317000:MA2105.1:JASPAR 0.924 0.554 5.217 0.950 0.90867 10 6 6 10 0.6000 0.6000 1.0000 R 3 ...ACGTGw. ACGTGT 4 110 116 4 4 47.6000 11
cluster_4 NFYB2_UN0689.2_JASPAR cluster_4 NFYB2:UN0689.2:JASPAR 0.933 0.560 4.888 0.956 0.91483 10 6 6 10 0.6000 0.6000 1.0000 R 3 ...ACGTGw. ACGTGT 3 107 125 2 2 47.8000 12
cluster_4 BIM3_MA0966.1_JASPAR cluster_4 BIM3:MA0966.1:JASPAR 0.763 0.763 6.605 0.900 0.90006 10 10 10 10 1.0000 1.0000 1.0000 D 0 waAACGTGww rgCACGTGcy 84 7 83 26 40 48.0000 13
cluster_4 MYC4_M0160_1.02_CISBP cluster_4 MYC4:M0160_1.02:CISBP 0.769 0.769 5.111 0.905 0.90240 10 10 10 10 1.0000 1.0000 1.0000 D 0 waAACGTGww mrCACGTGyk 75 5 118 16 27 48.2000 14
cluster_4 NFYB2_UN0689.1_JASPAR cluster_4 NFYB2:UN0689.1:JASPAR 0.805 0.659 4.907 0.905 0.89717 10 10 9 11 0.8182 0.9000 0.9000 R 1 .aAACGTGww MYACGTGTM. 27 30 124 36 26 48.6000 15
cluster_4 GLYMA-13G317000_UN0421.1_JASPAR cluster_4 GLYMA-13G317000:UN0421.1:JASPAR 0.803 0.657 5.237 0.903 0.89626 10 10 9 11 0.8182 0.9000 0.9000 R 1 .aAACGTGww MCACGTGTC. 30 31 114 40 32 49.4000 16
cluster_4 BIM3_M0164_1.02_CISBP cluster_4 BIM3:M0164_1.02:CISBP 0.762 0.762 6.584 0.900 0.89984 10 10 10 10 1.0000 1.0000 1.0000 R 0 waAACGTGww RGCACGTGCY 85 8 86 27 42 49.6000 17
cluster_4 MYC2_M0152_1.02_CISBP cluster_4 MYC2:M0152_1.02:CISBP 0.765 0.765 5.451 0.903 0.90145 10 10 10 10 1.0000 1.0000 1.0000 D 0 waAACGTGww hrCACGTGyd 82 6 110 22 34 50.8000 18
cluster_4 ABF3_MA0930.3_JASPAR cluster_4 ABF3:MA0930.3:JASPAR 0.843 0.590 6.146 0.917 0.89085 10 7 7 10 0.7000 0.7000 1.0000 D 3 ...ACGTGww aCGTGtC 9 81 100 58 11 51.8000 19
cluster_4 ABF1_M0257_1.02_CISBP cluster_4 ABF1:M0257_1.02:CISBP 0.768 0.698 4.921 0.904 0.90207 10 11 10 11 0.9091 1.0000 0.9091 D -1 waAACGTGww .dACACGTGkb 77 21 123 19 29 53.8000 20
cluster_4 O11_MA1816.1_JASPAR cluster_4 O11:MA1816.1:JASPAR 0.757 0.631 9.049 0.890 0.89525 10 12 10 12 0.8333 1.0000 0.8333 R -1 waAACGTGww .SKCACGTGMS. 89 45 36 42 63 55.0000 21
cluster_4 BIM2_MA0965.1_JASPAR cluster_4 BIM2:MA0965.1:JASPAR 0.751 0.751 6.888 0.894 0.89712 10 10 10 10 1.0000 1.0000 1.0000 D 0 waAACGTGww skCACGTGms 102 9 79 37 54 56.2000 22
cluster_4 BIM2_M0154_1.02_CISBP cluster_4 BIM2:M0154_1.02:CISBP 0.751 0.751 6.923 0.894 0.89706 10 10 10 10 1.0000 1.0000 1.0000 R 0 waAACGTGww SKCACGTGMS 103 10 77 38 56 56.8000 23
cluster_4 BIM1_M0163_1.02_CISBP cluster_4 BIM1:M0163_1.02:CISBP 0.781 0.639 5.391 0.900 0.89441 10 10 9 11 0.8182 0.9000 0.9000 D 1 .aAACGTGww bcaCGTGmy. 54 38 111 43 43 57.8000 24
cluster_4 PIL5_M0156_1.02_CISBP cluster_4 PIL5:M0156_1.02:CISBP 0.748 0.748 7.382 0.891 0.89582 10 10 10 10 1.0000 1.0000 1.0000 D 0 waAACGTGww rbCACGTGvy 106 11 69 41 62 57.8000 25
cluster_4 BIM1_MA0964.1_JASPAR cluster_4 BIM1:MA0964.1:JASPAR 0.778 0.637 5.293 0.899 0.89386 10 10 9 11 0.8182 0.9000 0.9000 D 1 .aAACGTGww bcaCGTGmy. 59 40 113 46 45 60.6000 26
cluster_4 NFYC2_UN0690.2_JASPAR cluster_4 NFYC2:UN0690.2:JASPAR 0.835 0.531 6.299 0.911 0.88728 10 8 7 11 0.6364 0.7000 0.8750 D 3 ...ACGTGww ACGTGGC. 12 119 96 72 13 62.4000 27
cluster_4 GBF3_MA1351.3_JASPAR cluster_4 GBF3:MA1351.3:JASPAR 0.833 0.530 6.424 0.909 0.88585 10 8 7 11 0.6364 0.7000 0.8750 D 3 ...ACGTGww ACGTGGC. 13 120 89 75 17 62.8000 28
cluster_4 LOC_Os02g49560_M0327_1.02_CISBP cluster_4 LOC_Os02g49560:M0327_1.02:CISBP 0.784 0.713 0.127 0.903 0.90153 10 11 10 11 0.9091 1.0000 0.9091 R 0 waAACGTGww RWCACGTGGM. 49 17 195 21 33 63.0000 29
cluster_4 bZIP11:bZIP9_1_EEAD0112_EEADannot cluster_4 bZIP11:bZIP9_1:EEAD0112:EEADannot 0.763 0.625 9.250 0.881 0.88488 10 10 9 11 0.8182 0.9000 0.9000 D 1 .aAACGTGww hsACGTGkC. 83 48 22 79 85 63.4000 30
cluster_4 TGA1a_TGA1a_Athamap cluster_4 TGA1a:TGA1a:Athamap 0.739 0.739 8.346 0.886 0.89330 10 10 10 10 1.0000 1.0000 1.0000 R 0 waAACGTGww SWSACGTSDS 132 16 55 48 72 64.6000 31
cluster_4 ATAREB1_M0256_1.02_CISBP cluster_4 ATAREB1:M0256_1.02:CISBP 0.783 0.602 0.217 0.907 0.90356 10 13 10 13 0.7692 1.0000 0.7692 R 0 waAACGTGww AMCACGTGTY... 51 65 189 11 21 67.4000 32
cluster_4 ABF4_MA1659.1_JASPAR cluster_4 ABF4:MA1659.1:JASPAR 0.755 0.629 6.103 0.893 0.89645 10 12 10 12 0.8333 1.0000 0.8333 R -1 waAACGTGww .RWSACGTGGM. 94 46 102 39 60 68.2000 33
cluster_4 ILR3_M0167_1.02_CISBP cluster_4 ILR3:M0167_1.02:CISBP 0.748 0.748 4.021 0.897 0.89846 10 10 10 10 1.0000 1.0000 1.0000 D 0 waAACGTGww rrCACGTGyh 107 12 142 32 50 68.6000 34
cluster_4 bZIP2:bZIP63_1_EEAD0116_EEADannot cluster_4 bZIP2:bZIP63_1:EEAD0116:EEADannot 0.738 0.671 9.244 0.878 0.88955 10 11 10 11 0.9091 1.0000 0.9091 D -1 waAACGTGww .vwsACGTGKm 133 28 23 65 94 68.6000 35
cluster_4 BHLH157_UN0853.1_JASPAR cluster_4 BHLH157:UN0853.1:JASPAR 0.782 0.460 6.912 0.907 0.90348 10 17 10 17 0.5882 1.0000 0.5882 D -1 waAACGTGww .gwgACGTrwh...... 53 176 78 13 23 68.6000 36
cluster_4 ABF2_MA0941.1_JASPAR cluster_4 ABF2:MA0941.1:JASPAR 0.782 0.602 0.215 0.907 0.90338 10 13 10 13 0.7692 1.0000 0.7692 R 0 waAACGTGww AMCACGTGTY... 52 67 190 14 24 69.4000 37
cluster_4 PHYPADRAFT_72483_MA1011.1_JASPAR cluster_4 PHYPADRAFT_72483:MA1011.1:JASPAR 0.742 0.742 4.449 0.895 0.89749 10 10 10 10 1.0000 1.0000 1.0000 D 0 waAACGTGww rkCACGTGmy 127 14 128 34 52 71.0000 38
cluster_4 POC1_M0151_1.02_CISBP cluster_4 POC1:M0151_1.02:CISBP 0.827 0.579 6.301 0.897 0.87864 10 7 7 10 0.7000 0.7000 1.0000 D 2 ..AACGTGw. cAYGTGs 18 90 94 109 49 72.0000 39
cluster_4 fgenesh1_pg.scaffold_37000071_M0251_1.02_CISBP cluster_4 fgenesh1_pg.scaffold_37000071:M0251_1.02:CISBP 0.741 0.741 4.450 0.895 0.89742 10 10 10 10 1.0000 1.0000 1.0000 R 0 waAACGTGww RKCACGTGMY 130 15 127 35 53 72.0000 40
cluster_4 CDF3_MA0974.2_JASPAR cluster_4 CDF3:MA0974.2:JASPAR 0.750 0.625 7.885 0.880 0.89032 10 12 10 12 0.8333 1.0000 0.8333 D -2 waAACGTGww ..AAAAAGTGww 104 47 64 61 88 72.8000 41
cluster_4 bZIP68_MA0968.1_JASPAR cluster_4 bZIP68:MA0968.1:JASPAR 0.769 0.692 3.765 0.893 0.89107 10 9 9 10 0.9000 0.9000 1.0000 D 1 .aAACGTGww hsacgTGkm 76 24 150 56 58 72.8000 42
cluster_4 bZIP2:bZIP9_1_EEAD0118_EEADannot cluster_4 bZIP2:bZIP9_1:EEAD0118:EEADannot 0.729 0.663 9.474 0.872 0.88693 10 11 10 11 0.9091 1.0000 0.9091 D 0 waAACGTGww mwsACGTGKC. 154 29 8 73 102 73.2000 43
cluster_4 GLYMA-13G317000_MA1811.2_JASPAR cluster_4 GLYMA-13G317000:MA1811.2:JASPAR 0.820 0.522 6.082 0.904 0.88285 10 8 7 11 0.6364 0.7000 0.8750 D 3 ...ACGTGww aCGTGGC. 20 126 103 87 31 73.4000 44
cluster_4 bZIP68_M0255_1.02_CISBP cluster_4 bZIP68:M0255_1.02:CISBP 0.768 0.691 3.723 0.893 0.89075 10 9 9 10 0.9000 0.9000 1.0000 D 1 .aAACGTGww hsacgTGkm 78 25 151 59 61 74.8000 45
cluster_4 BHLH74_MA1360.2_JASPAR cluster_4 BHLH74:MA1360.2:JASPAR 0.746 0.533 9.447 0.883 0.89197 10 14 10 14 0.7143 1.0000 0.7143 D -2 waAACGTGww ..vbCACGTGvy.. 112 118 10 53 81 74.8000 46
cluster_4 ABI5_M0261_1.02_CISBP cluster_4 ABI5:M0261_1.02:CISBP 0.779 0.637 3.878 0.889 0.88915 10 10 9 11 0.8182 0.9000 0.9000 R 1 .aAACGTGww MCACGTGKC. 58 39 149 66 64 75.2000 47
cluster_4 AtbZIP63_M0272_1.02_CISBP cluster_4 AtbZIP63:M0272_1.02:CISBP 0.737 0.614 7.900 0.885 0.89264 10 12 10 12 0.8333 1.0000 0.8333 D -2 waAACGTGww ..ctsACGTGgc 139 54 61 49 76 75.8000 48
cluster_4 bZIP2_2_EEAD0097_EEADannot cluster_4 bZIP2_2:EEAD0097:EEADannot 0.795 0.636 4.365 0.886 0.88045 10 8 8 10 0.8000 0.8000 1.0000 R 2 ..AACGTGww SACGTGKM 36 42 129 99 74 76.0000 49
cluster_4 ABI5_MA0931.1_JASPAR cluster_4 ABI5:MA0931.1:JASPAR 0.778 0.636 3.888 0.889 0.88886 10 10 9 11 0.8182 0.9000 0.9000 R 1 .aAACGTGww MCACGTGKC. 61 41 147 68 66 76.6000 50 
 Host name	rsat
 Job started	2026-01-09.163443
 Job done	2026-01-09.163534
 Seconds	12.09
	user	12.09
	system	4.58
	cuser	26.78
;	csystem	7.13