/var/www/html/rsat/public_html/tmp/www-data/2026/03/18/compare-matrices_2026-03-18.165252_ChIgh5/compare-matrices.tab 
 compare-matrices  -v 1 -format1 transfac -file1 $RSAT/public_html/tmp/www-data/2026/03/18/compare-matrices_2026-03-18.165252_ChIgh5/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/2026/03/18/compare-matrices_2026-03-18.165252_ChIgh5/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/2026/03/18/compare-matrices_2026-03-18.165252_ChIgh5/compare-matrices_query_matrices.transfac
 Output files
	alignments_1ton_html	$RSAT/public_html/tmp/www-data/2026/03/18/compare-matrices_2026-03-18.165252_ChIgh5/compare-matrices_alignments_1ton.html
	alignments_1ton	$RSAT/public_html/tmp/www-data/2026/03/18/compare-matrices_2026-03-18.165252_ChIgh5/compare-matrices_alignments_1ton.tab
	html_index   	$RSAT/public_html/tmp/www-data/2026/03/18/compare-matrices_2026-03-18.165252_ChIgh5/compare-matrices_index.html
	prefix       	$RSAT/public_html/tmp/www-data/2026/03/18/compare-matrices_2026-03-18.165252_ChIgh5/compare-matrices
	match_table_txt	$RSAT/public_html/tmp/www-data/2026/03/18/compare-matrices_2026-03-18.165252_ChIgh5/compare-matrices.tab
	match_table_html	$RSAT/public_html/tmp/www-data/2026/03/18/compare-matrices_2026-03-18.165252_ChIgh5/compare-matrices.html
 Matrices
	file1	20 matrices	$RSAT/public_html/tmp/www-data/2026/03/18/compare-matrices_2026-03-18.165252_ChIgh5/compare-matrices_query_matrices.transfac
		file1	1	14	692	wwwAGGCCCATtwa
		file1	2	18	436	armmGrAGAAGAAGmrra
		file1	3	11	1798	wwTGGACCAww
		file1	4	12	1487	waAAACCGAAaw
		file1	5	20	433	raAvAgAgAGAAGAAgmraa
		file1	6	14	310	wwGCCACGTGGCww
		file1	7	15	475	tyCTCTTCTCcktyw
		file1	8	13	790	wwaAGGCCCAwww
		file1	9	20	298	wwykcTTCTTCTCTcTkyty
		file1	10	11	1961	raAGAGGAGaw
		file1	11	11	1447	wwAAACCGGww
		...	10 more matrices
	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
assembly_6 HY5_MA0551.1_JASPAR assembly_6 HY5:MA0551.1:JASPAR 0.966 0.846 7.575 0.984 0.96631 14 16 14 16 0.8750 1.0000 0.8750 D -1 wwGCCACGTGGCww .wtGmCACGTGkCaw. 31 9 80 16 29 33.0000 1
assembly_6 HY5_MA0551.2_JASPAR assembly_6 HY5:MA0551.2:JASPAR 0.966 0.828 7.574 0.981 0.96072 14 12 12 14 0.8571 0.8571 1.0000 D 1 .wGCCACGTGGCw. tGmCACGTGkCa 32 15 81 22 30 36.0000 2
assembly_8 ASR1_MA1812.1_JASPAR assembly_8 ASR1:MA1812.1:JASPAR 0.965 0.836 7.257 0.986 0.96708 13 15 13 15 0.8667 1.0000 0.8667 D 0 wwaAGGCCCAwww wwyAGGCCCAAww.. 33 12 115 14 25 39.8000 3
assembly_6 DPBF3_MA1338.2_JASPAR assembly_6 DPBF3:MA1338.2:JASPAR 0.950 0.782 7.319 0.980 0.96213 14 17 14 17 0.8235 1.0000 0.8235 D -2 wwGCCACGTGGCww ..wtGmCACGTGkCmw. 40 26 109 20 31 45.2000 4
assembly_6 BPE_MA1359.2_JASPAR assembly_6 BPE:MA1359.2:JASPAR 0.934 0.934 7.280 0.978 0.96055 14 14 14 14 1.0000 1.0000 1.0000 R 0 wwGCCACGTGGCww RTGCCACGTGGCWY 59 1 113 23 35 46.2000 5
assembly_1 ASR1_MA1812.1_JASPAR assembly_1 ASR1:MA1812.1:JASPAR 0.927 0.865 7.470 0.974 0.95692 14 15 14 15 0.9333 1.0000 0.9333 D 0 wwwAGGCCCATtwa wwyAGGCCCAAwww. 68 5 89 30 44 47.2000 6
assembly_8 ASR1_MA1812.2_JASPAR assembly_8 ASR1:MA1812.2:JASPAR 0.989 0.685 7.247 0.992 0.97092 13 9 9 13 0.6923 0.6923 1.0000 D 3 ...AGGCCCAww. AGGCCCAAw 12 124 117 8 11 54.4000 7
assembly_6 bZIP1:bZIP9_2_EEAD0107_EEADannot assembly_6 bZIP1:bZIP9_2:EEAD0107:EEADannot 0.940 0.739 7.511 0.971 0.94849 14 11 11 14 0.7857 0.7857 1.0000 D 1 .wGCCACGTGGC.. tGmCACGTGkm 51 54 86 42 52 57.0000 8
assembly_6 bZIP53:bZIP63_2_EEAD0129_EEADannot assembly_6 bZIP53:bZIP63_2:EEAD0129:EEADannot 0.927 0.729 7.221 0.966 0.94460 14 11 11 14 0.7857 0.7857 1.0000 D 2 ..GCCACGTGGCw. kmCACGTGkCa 67 61 123 52 69 74.4000 9
assembly_6 PIF3_PIF3_2__Athamap assembly_6 PIF3:PIF3:2)(Athamap 0.895 0.737 8.352 0.956 0.94381 14 17 14 17 0.8235 1.0000 0.8235 D -1 wwGCCACGTGGCww .drvCCACGTGGvmv.. 124 55 34 56 103 74.4000 10
assembly_6 bZIP3_2_EEAD0133_EEADannot assembly_6 bZIP3_2:EEAD0133:EEADannot 0.918 0.721 7.362 0.961 0.94037 14 11 11 14 0.7857 0.7857 1.0000 D 2 ..GCCACGTGGCw. kmCACGTGkCa 82 69 105 75 83 82.8000 11
assembly_6 PIF3_PIF3_ArabidopsisPBM assembly_6 PIF3:PIF3:ArabidopsisPBM 0.936 0.668 7.864 0.964 0.93969 14 10 10 14 0.7143 0.7143 1.0000 D 2 ..GCCACGTGGC.. sCCACGTGGs 55 153 56 81 79 84.8000 12
assembly_6 1500010105_M0364_1.02_CISBP assembly_6 1500010105:M0364_1.02:CISBP 0.976 0.697 5.691 0.990 0.96781 14 10 10 14 0.7143 0.7143 1.0000 D 0 wwGCCACGTG.... wyGCCACGTG 27 110 268 12 15 86.4000 13
assembly_6 BHLH74_MA1360.2_JASPAR assembly_6 BHLH74:MA1360.2:JASPAR 0.865 0.865 7.450 0.955 0.94348 14 14 14 14 1.0000 1.0000 1.0000 R 0 wwGCCACGTGGCww DWRBCACGTGVBWM 208 6 91 59 106 94.0000 14
assembly_6 BIM2_MA0965.2_JASPAR assembly_6 BIM2:MA0965.2:JASPAR 0.877 0.768 6.843 0.960 0.94643 14 16 14 16 0.8750 1.0000 0.8750 D -1 wwGCCACGTGGCww .wwgkCACGTGmcww. 161 33 165 46 89 98.8000 15
assembly_6 BZR1_MA0550.1_JASPAR assembly_6 BZR1:MA0550.1:JASPAR 0.871 0.871 6.906 0.956 0.94402 14 14 14 14 1.0000 1.0000 1.0000 D 0 wwGCCACGTGGCww mmkmCACGTGdvmm 187 2 158 53 101 100.2000 16
assembly_6 PIF3_PIF3_1__Athamap assembly_6 PIF3:PIF3:1)(Athamap 0.881 0.686 7.830 0.955 0.94326 14 18 14 18 0.7778 1.0000 0.7778 R -2 wwGCCACGTGGCww ..WSKYCACGTGKCCY.. 150 121 57 63 111 100.4000 17
assembly_6 PIF7_MA1364.1_JASPAR assembly_6 PIF7:MA1364.1:JASPAR 0.976 0.596 7.565 0.988 0.96686 14 15 11 18 0.6111 0.7857 0.7333 D -4 wwGCCACGTGG... ....rwsCCACGTGg 28 364 82 15 21 102.0000 18
assembly_6 bZIP53_1_EEAD0100_EEADannot assembly_6 bZIP53_1:EEAD0100:EEADannot 0.904 0.710 7.389 0.954 0.93523 14 11 11 14 0.7857 0.7857 1.0000 D 2 ..GCCACGTGGCw. gwsACGTGGCA 106 90 101 100 116 102.6000 19
assembly_6 ABI5_MA0931.1_JASPAR assembly_6 ABI5:MA0931.1:JASPAR 0.932 0.666 6.580 0.970 0.94541 14 10 10 14 0.7143 0.7143 1.0000 D 1 .wGCCACGTGG... bgmCACGTGk 61 164 189 48 57 103.8000 20
assembly_19 Dof2_MA0020.1_JASPAR assembly_19 Dof2:MA0020.1:JASPAR 0.980 0.588 8.049 0.987 0.95261 10 6 6 10 0.6000 0.6000 1.0000 D 3 ...AAAGCw. AAAGcm 21 397 44 33 24 103.8000 21
assembly_11 AT1G76870_MA1367.1_JASPAR assembly_11 AT1G76870:MA1367.1:JASPAR 0.924 0.726 5.513 0.972 0.94934 11 14 11 14 0.7857 1.0000 0.7857 D -3 wwAAACCGGww ...ywAAACCrsww 76 62 294 38 50 104.0000 22
assembly_12 Dof2_MA0020.1_JASPAR assembly_12 Dof2:MA0020.1:JASPAR 0.978 0.587 8.049 0.985 0.95075 10 6 6 10 0.6000 0.6000 1.0000 D 3 ...AAAGCw. AAAGcm 24 402 43 36 26 106.2000 23
assembly_6 PIF3_MA0560.1_JASPAR assembly_6 PIF3:MA0560.1:JASPAR 0.921 0.658 7.196 0.964 0.93976 14 10 10 14 0.7143 0.7143 1.0000 D 1 .wGCCACGTGG... dgCCACGTGr 79 176 125 80 78 107.6000 24
assembly_6 bZIP2:bZIP10_1_EEAD0114_EEADannot assembly_6 bZIP2:bZIP10_1:EEAD0114:EEADannot 0.923 0.659 6.979 0.964 0.94024 14 10 10 14 0.7143 0.7143 1.0000 D 1 .wGCCACGTGG... tGmCACGTsd 77 172 150 77 77 110.6000 25
assembly_1 ASR1_MA1812.2_JASPAR assembly_1 ASR1:MA1812.2:JASPAR 0.946 0.608 7.458 0.970 0.94270 14 9 9 14 0.6429 0.6429 1.0000 D 3 ...AGGCCCATt.. AGGCCCAAw 46 312 90 65 53 113.2000 26
assembly_6 bZIP11_1_EEAD0094_EEADannot assembly_6 bZIP11_1:EEAD0094:EEADannot 0.915 0.654 7.104 0.960 0.93688 14 10 10 14 0.7143 0.7143 1.0000 D 1 .wGCCACGTGG... tGmCACGTsd 84 183 135 90 88 116.0000 27
assembly_6 bZIP11:bZIP9_1_EEAD0112_EEADannot assembly_6 bZIP11:bZIP9_1:EEAD0112:EEADannot 0.921 0.658 6.664 0.965 0.94083 14 10 10 14 0.7143 0.7143 1.0000 D 3 ...CCACGTGGCw. hsACGTGkCa 78 175 185 73 73 116.8000 28
assembly_6 ABF1_MA0570.3_JASPAR assembly_6 ABF1:MA0570.3:JASPAR 0.927 0.662 6.454 0.964 0.94030 14 10 10 14 0.7143 0.7143 1.0000 D 3 ...CCACGTGGCw. aCACGTGkCA 66 168 199 76 76 117.0000 29
assembly_6 AREB3_MA1338.1_JASPAR assembly_6 AREB3:MA1338.1:JASPAR 0.875 0.711 7.500 0.946 0.93563 14 15 13 16 0.8125 0.9286 0.8667 D -2 wwGCCACGTGGCw. ..wggwsACGTGKCA 170 88 87 99 142 117.2000 30
assembly_6 bZIP11:bZIP10_1_EEAD0108_EEADannot assembly_6 bZIP11:bZIP10_1:EEAD0108:EEADannot 0.894 0.702 6.756 0.955 0.93601 14 11 11 14 0.7857 0.7857 1.0000 D 1 .wGCCACGTGGC.. tGmCACGTsdb 126 106 178 95 109 122.8000 31
assembly_6 TZP1_EEAD0061_EEADannot assembly_6 TZP1:EEAD0061:EEADannot 0.990 0.566 7.167 0.992 0.96907 14 8 8 14 0.5714 0.5714 1.0000 D 2 ..GCCACGTG.... GmCACGTG 11 478 131 10 12 128.4000 32
assembly_6 bZIP1:bZIP10_1_EEAD0102_EEADannot assembly_6 bZIP1:bZIP10_1:EEAD0102:EEADannot 0.908 0.649 7.005 0.957 0.93437 14 10 10 14 0.7143 0.7143 1.0000 D 1 .wGCCACGTGG... tGmCACGTsd 99 195 147 107 98 129.2000 33
assembly_6 BHLH125_ZmSPT1_B73_1_m1_EEAD0211_EEADannot assembly_6 BHLH125_ZmSPT1_B73_1_m1:EEAD0211:EEADannot 0.879 0.690 7.556 0.943 0.92775 14 11 11 14 0.7857 0.7857 1.0000 D 2 ..GCCACGTGGCw. gcCACGTGGGc 158 117 83 137 169 132.8000 34
assembly_6 bZIP53:bZIP9_1_EEAD0130_EEADannot assembly_6 bZIP53:bZIP9_1:EEAD0130:EEADannot 0.936 0.602 6.985 0.967 0.93929 14 9 9 14 0.6429 0.6429 1.0000 D 4 ....CACGTGGCw. sACGTGKCa 54 338 149 84 67 138.4000 35
assembly_6 ABF2.DAP_M0217_AthalianaCistrome assembly_6 ABF2.DAP:M0217:AthalianaCistrome 0.861 0.670 7.368 0.946 0.93785 14 18 14 18 0.7778 1.0000 0.7778 D -4 wwGCCACGTGGCww ....wTGMCACGTswccw 220 150 104 87 145 141.2000 36
assembly_6 BHLH125_ZmSPT1_Mo17_1_EEAD0212_EEADannot assembly_6 BHLH125_ZmSPT1_Mo17_1:EEAD0212:EEADannot 0.872 0.685 7.681 0.940 0.92624 14 11 11 14 0.7857 0.7857 1.0000 D 2 ..GCCACGTGGCw. gsCACGTGGGc 179 122 72 149 187 141.8000 37
assembly_6 ABF1_MA0570.1_JASPAR assembly_6 ABF1:MA0570.1:JASPAR 0.907 0.590 7.755 0.958 0.94287 14 19 13 20 0.6500 0.9286 0.6842 D 1 .wGCCACGTGGCww GgmCACGTGGCmc...... 101 390 64 64 96 143.0000 38
assembly_6 bZIP2:bZIP9_1_EEAD0118_EEADannot assembly_6 bZIP2:bZIP9_1:EEAD0118:EEADannot 0.872 0.685 7.000 0.944 0.92841 14 11 11 14 0.7857 0.7857 1.0000 D 2 ..GCCACGTGGCw. mwsACGTGKCa 182 125 148 134 162 150.2000 39
assembly_6 BZIP16_MA1349.2_JASPAR assembly_6 BZIP16:MA1349.2:JASPAR 0.896 0.640 7.284 0.945 0.92567 14 10 10 14 0.7143 0.7143 1.0000 D 3 ...CCACGTGGCw. ysACGTGGCA 121 213 112 159 153 151.6000 40
assembly_6 bHLH31_MA1359.1_JASPAR assembly_6 bHLH31:MA1359.1:JASPAR 0.888 0.592 7.158 0.963 0.94867 14 21 14 21 0.6667 1.0000 0.6667 D -3 wwGCCACGTGGCww ...gwgrCACGTGbsww.... 137 380 132 41 81 154.2000 41
assembly_12 CDF2_MA0973.1_JASPAR assembly_12 CDF2:MA0973.1:JASPAR 0.858 0.858 6.812 0.939 0.92178 10 10 10 10 1.0000 1.0000 1.0000 D 0 waAAAAGCww maWAAAGyrh 231 7 170 201 199 161.6000 42
assembly_12 CDF2_M0653_1.02_CISBP assembly_12 CDF2:M0653_1.02:CISBP 0.857 0.857 6.833 0.938 0.92155 10 10 10 10 1.0000 1.0000 1.0000 D 0 waAAAAGCww maWAAAGyrh 234 8 167 203 204 163.2000 43
assembly_6 GBF2_MA1672.1_JASPAR assembly_6 GBF2:MA1672.1:JASPAR 0.872 0.697 5.134 0.952 0.93662 14 13 12 15 0.8000 0.8571 0.9231 D 2 ..GCCACGTGGCww rhsACGTGGCAw. 180 109 358 92 122 172.2000 44
assembly_6 OJ1058_MA1033.1_JASPAR assembly_6 OJ1058:MA1033.1:JASPAR 0.947 0.541 7.427 0.968 0.93659 14 8 8 14 0.5714 0.5714 1.0000 R 3 ...CCACGTGG... MCACGTGK 43 565 96 93 64 172.2000 45
assembly_6 Os05g0437700_MA2401.1_JASPAR assembly_6 Os05g0437700:MA2401.1:JASPAR 0.947 0.541 7.394 0.968 0.93668 14 8 8 14 0.5714 0.5714 1.0000 D 3 ...CCACGTGG... mCACGTGk 44 566 100 91 62 172.6000 46
assembly_6 LOC_Os05g36160_M0329_1.02_CISBP assembly_6 LOC_Os05g36160:M0329_1.02:CISBP 0.946 0.541 7.470 0.967 0.93594 14 8 8 14 0.5714 0.5714 1.0000 D 3 ...CCACGTGG... mCACGTGk 45 568 88 97 66 172.8000 47
assembly_6 O11_MA1816.1_JASPAR assembly_6 O11:MA1816.1:JASPAR 0.838 0.718 6.970 0.939 0.92865 14 12 12 14 0.8571 0.8571 1.0000 R 1 .wGCCACGTGGCw. SSKCACGTGMSS 314 72 151 131 198 173.2000 48
assembly_6 ABI5_MA0931.2_JASPAR assembly_6 ABI5:MA0931.2:JASPAR 0.952 0.544 6.570 0.975 0.94358 14 8 8 14 0.5714 0.5714 1.0000 D 2 ..GCCACGTG.... gmCACGTG 39 555 191 57 41 176.6000 49
assembly_19 Dof2_MA0020.2_JASPAR assembly_19 Dof2:MA0020.2:JASPAR 0.981 0.491 8.048 0.985 0.94529 10 5 5 10 0.5000 0.5000 1.0000 D 3 ...AAAGC.. AAAGc 18 748 45 50 27 177.6000 50 
 Host name	rsat
 Job started	2026-03-18.165252
 Job done	2026-03-18.170506
 Seconds	187.95
	user	187.96
	system	160.42
	cuser	152.5
;	csystem	234.02