/var/www/html/rsat/public_html/tmp/www-data/2026/03/30/compare-matrices_2026-03-30.174248_p7BlRJ/compare-matrices.tab 
 compare-matrices  -v 1 -format1 transfac -file1 $RSAT/public_html/tmp/www-data/2026/03/30/compare-matrices_2026-03-30.174248_p7BlRJ/compare-matrices_query_matrices.transfac -file2 $RSAT/public_html/motif_databases/JASPAR/Jaspar_2024/JASPAR2024_CORE_vertebrates_non-redundant_pfms_transfac.txt -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/2026/03/30/compare-matrices_2026-03-30.174248_p7BlRJ/compare-matrices.tab
 Program version       	1.118
 Slow mode 
 Input files
	file2 	$RSAT/public_html/motif_databases/JASPAR/Jaspar_2024/JASPAR2024_CORE_vertebrates_non-redundant_pfms_transfac.txt
	file1 	$RSAT/public_html/tmp/www-data/2026/03/30/compare-matrices_2026-03-30.174248_p7BlRJ/compare-matrices_query_matrices.transfac
 Output files
	match_table_html	$RSAT/public_html/tmp/www-data/2026/03/30/compare-matrices_2026-03-30.174248_p7BlRJ/compare-matrices.html
	html_index   	$RSAT/public_html/tmp/www-data/2026/03/30/compare-matrices_2026-03-30.174248_p7BlRJ/compare-matrices_index.html
	alignments_1ton_html	$RSAT/public_html/tmp/www-data/2026/03/30/compare-matrices_2026-03-30.174248_p7BlRJ/compare-matrices_alignments_1ton.html
	match_table_txt	$RSAT/public_html/tmp/www-data/2026/03/30/compare-matrices_2026-03-30.174248_p7BlRJ/compare-matrices.tab
	alignments_1ton	$RSAT/public_html/tmp/www-data/2026/03/30/compare-matrices_2026-03-30.174248_p7BlRJ/compare-matrices_alignments_1ton.tab
	prefix       	$RSAT/public_html/tmp/www-data/2026/03/30/compare-matrices_2026-03-30.174248_p7BlRJ/compare-matrices
 Matrices
	file1	5 matrices	$RSAT/public_html/tmp/www-data/2026/03/30/compare-matrices_2026-03-30.174248_p7BlRJ/compare-matrices_query_matrices.transfac
		file1	1	12	15	rvATATCTAGch
		file1	2	11	55	ktCAGAGACwk
		file1	3	10	15	wvAGTGATth
		file1	4	11	58	krAAAATGTwa
		file1	5	10	25	gsCCAGGArg
	file2	879 matrices	$RSAT/public_html/motif_databases/JASPAR/Jaspar_2024/JASPAR2024_CORE_vertebrates_non-redundant_pfms_transfac.txt
		file2		1		6		20		CACGTG
		file2		2		14		43		TTyACGCwTsAvTk
		file2		3		10		25		wwcwAGGTCA
		file2		4		15		10		RGGTCAwcGrGTTCA
		file2		5		10		17		sGGrmwTTCC
		file2		6		10		18		gGGraTTTCC
		file2		7		17		25		AAAGGTCAAAGGTCAAc
		file2		8		15		33		gsmmCCyWrGGkkkm
		file2		9		14		16		TGGCAssrwGCCAA
		file2		10		6		16		mTCCAC
		file2		11		15		1369		ywTTswyATGCAaAt
		...	869 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_5 MA1992.2 assembly_5 Ikzf3 0.895 0.522 7.011 0.940 0.90766 10 9 7 12 0.5833 0.7000 0.7778 D 3 ...CAGGArg CAGGAAG.. 1 13 4 3 2 4.6000 1
assembly_5 MA0473.4 assembly_5 ELF1 0.880 0.513 6.742 0.931 0.90090 10 9 7 12 0.5833 0.7000 0.7778 D 3 ...CAGGArg CAGGAAG.. 2 16 6 5 4 6.6000 2
assembly_5 MA2330.1 assembly_5 ZBTB24 0.832 0.681 5.293 0.920 0.90600 10 10 9 11 0.8182 0.9000 0.9000 D 1 .sCCAGGArg cCCAGGACC. 11 2 14 4 7 7.6000 3
assembly_2 MA1731.2 assembly_2 ZNF768 0.858 0.702 1.102 0.930 0.91182 11 9 9 11 0.8182 0.8182 1.0000 R 2 ..CAGAGACwk CAGAGAGGS 6 1 34 2 5 9.6000 4
assembly_5 MA2326.1 assembly_5 IKZF2 0.861 0.517 7.121 0.907 0.87529 10 6 6 10 0.6000 0.6000 1.0000 D 4 ....AGGArg AGGAAG 5 14 3 19 14 11.0000 5
assembly_5 MA0761.3 assembly_5 ETV1 0.774 0.563 7.199 0.875 0.87502 10 9 8 11 0.7273 0.8000 0.8889 D 2 ..CCAGGArg aCAGGAAG. 17 8 1 20 17 12.6000 6
assembly_4 MA0095.4 assembly_4 Yy1 0.790 0.575 5.367 0.889 0.88214 11 8 8 11 0.7273 0.7273 1.0000 D 1 .rAAAATGT.. CAAAATGG 15 6 13 14 16 12.8000 7
assembly_5 MA0640.3 assembly_5 ELF3 0.857 0.500 1.192 0.921 0.89404 10 9 7 12 0.5833 0.7000 0.7778 R 3 ...CAGGArg CAGGAAG.. 7 19 32 8 6 14.4000 8
assembly_5 MA0598.4 assembly_5 EHF 0.850 0.496 1.332 0.919 0.89210 10 9 7 12 0.5833 0.7000 0.7778 R 3 ...CAGGArg CAGGAAG.. 9 21 30 9 8 15.4000 9
assembly_4 MA1707.2 assembly_4 DMRTA1 0.861 0.431 0.542 0.946 0.91215 11 10 7 14 0.5000 0.6364 0.7000 R 4 ....AATGTwa AWTGTAW... 4 35 37 1 1 15.6000 10
assembly_5 MA0474.4 assembly_5 Erg 0.764 0.509 7.184 0.869 0.87205 10 10 8 12 0.6667 0.8000 0.8000 D 2 ..CCAGGArg aCAGGAAG.. 20 17 2 22 22 16.6000 11
assembly_5 MA2332.1 assembly_5 ZNF175 0.754 0.549 6.245 0.866 0.87070 10 9 8 11 0.7273 0.8000 0.8889 D 2 ..CCAGGArg aCAGGAAG. 22 9 9 24 25 17.8000 12
assembly_4 MA2124.1 assembly_4 Hmga1 0.849 0.495 1.118 0.907 0.88479 11 8 7 12 0.5833 0.6364 0.8750 R -1 krAAAAT.... .TAAAAAT 10 22 33 11 13 17.8000 13
assembly_5 MA1972.1 assembly_5 ZFP14 0.730 0.487 4.722 0.893 0.89636 10 15 10 15 0.6667 1.0000 0.6667 D -4 gsCCAGGArg ....GcmctGGAry. 28 25 17 6 15 18.2000 14
assembly_3 MA0914.2 assembly_3 ISL2 0.821 0.492 1.426 0.910 0.87719 10 6 6 10 0.6000 0.6000 1.0000 R 0 wvAGTG.... TAAKTG 14 23 29 17 11 18.8000 15
assembly_2 MA1726.2 assembly_2 ZNF331 0.705 0.640 5.486 0.864 0.88318 11 10 10 11 0.9091 0.9091 1.0000 D 0 ktCAGAGACw. TGCAGAGCCc 42 4 12 13 27 19.6000 16
assembly_3 MA0063.3 assembly_3 NKX2-5 0.851 0.464 0.461 0.916 0.88175 10 7 6 11 0.5455 0.6000 0.8571 R -1 wvAGTG.... .TGAGTG 8 26 41 15 9 19.8000 17
assembly_3 MA0038.3 assembly_3 GFI1 0.744 0.677 0.849 0.866 0.88421 10 11 10 11 0.9091 1.0000 0.9091 R -1 wvAGTGATth .GCHGTGATTK 24 3 36 12 26 20.2000 18
assembly_3 MA1639.2 assembly_3 MEIS1 0.870 0.402 0.255 0.934 0.89505 10 9 6 13 0.4615 0.6000 0.6667 R 4 ....TGATth TGATTK... 3 45 44 7 3 20.4000 19
assembly_3 MA1523.2 assembly_3 MSANTD3 0.831 0.453 0.507 0.910 0.87773 10 7 6 11 0.5455 0.6000 0.8571 R -1 wvAGTG.... .TGAGTG 12 29 39 16 10 21.2000 20
assembly_5 MA1715.1 assembly_5 ZNF707 0.745 0.497 1.315 0.869 0.88546 10 15 10 15 0.6667 1.0000 0.6667 R -1 gsCCAGGArg .TACCAGRAGT.... 23 20 31 10 23 21.4000 21
assembly_4 MA0160.3 assembly_4 NR4A2 0.729 0.530 4.197 0.868 0.87137 11 8 8 11 0.7273 0.7273 1.0000 D 3 ...AAATGTwa AAAGGTCA 29 11 21 23 24 21.6000 22
assembly_3 MA2336.1 assembly_3 ZSCAN21 0.765 0.536 2.185 0.858 0.85776 10 7 7 10 0.7000 0.7000 1.0000 R 2 ..AGTGATt. AGTGCTT 19 10 23 29 28 21.8000 23
assembly_3 MA2339.1 assembly_3 Nanog 0.826 0.450 0.943 0.908 0.87603 10 7 6 11 0.5455 0.6000 0.8571 R 4 ....TGATth TGATTG. 13 31 35 18 12 21.8000 24
assembly_5 MA1729.2 assembly_5 ZNF680 0.744 0.458 6.815 0.855 0.86546 10 11 8 13 0.6154 0.8000 0.7273 D 2 ..CCAGGArg CCAAGAAG... 25 28 5 26 30 22.8000 25
assembly_5 MA0062.4 assembly_5 GABPA 0.761 0.507 0.464 0.870 0.87270 10 10 8 12 0.6667 0.8000 0.8000 R 2 ..CCAGGArg ACAGGAAG.. 21 18 40 21 21 24.2000 26
assembly_4 MA1112.3 assembly_4 NR4A1 0.720 0.523 4.344 0.854 0.86468 11 8 8 11 0.7273 0.7273 1.0000 D 3 ...AAATGTwa AAAGGTCA 32 12 20 27 31 24.4000 27
assembly_5 MA1508.2 assembly_5 IKZF1 0.706 0.565 6.698 0.835 0.85656 10 8 8 10 0.8000 0.8000 1.0000 D 1 .sCCAGGAr. AACAGGAA 40 7 7 30 42 25.2000 28
assembly_5 MA0671.2 assembly_5 NFIX 0.741 0.445 4.911 0.871 0.85320 10 6 6 10 0.6000 0.6000 1.0000 D 0 gsCCAG.... tGCCAr 26 34 16 35 20 26.2000 29
assembly_3 MA1644.2 assembly_3 NFYC 0.769 0.420 1.578 0.874 0.85482 10 7 6 11 0.5455 0.6000 0.8571 R 4 ....TGATth TGATTG. 18 38 27 31 18 26.4000 30
assembly_5 MA0136.4 assembly_5 Elf5 0.726 0.462 6.346 0.844 0.85065 10 8 7 11 0.6364 0.7000 0.8750 D 3 ...CAGGArg AAGGAAG. 30 27 8 36 36 27.4000 31
assembly_3 MA1994.2 assembly_3 Nkx2-1 0.779 0.425 0.438 0.872 0.85367 10 7 6 11 0.5455 0.6000 0.8571 R -1 wvAGTG.... .CAAGTG 16 36 42 34 19 29.4000 32
assembly_3 MA0122.4 assembly_3 Nkx3-2 0.708 0.579 0.154 0.849 0.87060 10 10 9 11 0.8182 0.9000 0.9000 R -1 wvAGTGATt. .TAAGTGKTT 38 5 45 25 35 29.6000 33
assembly_2 MA1998.2 assembly_2 Prdm14 0.708 0.515 0.357 0.851 0.86363 11 8 8 11 0.7273 0.7273 1.0000 R 2 ..CAGAGACw. TAGAGACC 37 15 43 28 33 31.2000 34
assembly_1 MA1153.2 assembly_1 Smad4 0.724 0.423 5.882 0.837 0.84747 12 7 7 12 0.5833 0.5833 1.0000 D 3 ...TATCTAG.. yGTCTrG 31 37 11 39 39 31.4000 35
assembly_3 MA0673.2 assembly_3 NKX2-8 0.710 0.452 1.554 0.852 0.85469 10 8 7 11 0.6364 0.7000 0.8750 R -1 wvAGTGA... .SRAGTGS 36 30 28 32 32 31.6000 36
assembly_5 MA0750.3 assembly_5 ZBTB7A 0.718 0.419 5.912 0.841 0.84950 10 9 7 12 0.5833 0.7000 0.7778 D 3 ...CAGGArg CCGGAAG.. 33 39 10 38 38 31.6000 37
assembly_3 MA2003.2 assembly_3 NKX2-4 0.707 0.450 1.694 0.851 0.85413 10 8 7 11 0.6364 0.7000 0.8750 R -1 wvAGTGA... .SAAGTGG 39 32 26 33 34 32.8000 38
assembly_3 MA0610.2 assembly_3 DMRT3 0.737 0.402 3.000 0.856 0.84490 10 7 6 11 0.5455 0.6000 0.8571 R 4 ....TGATth TGATAC. 27 44 22 43 29 33.0000 39
assembly_1 MA0036.4 assembly_1 GATA2 0.711 0.415 4.517 0.843 0.85008 12 7 7 12 0.5833 0.5833 1.0000 D 1 .vATATCT.... CTTATCT 35 41 19 37 37 33.8000 40
assembly_3 MA0124.3 assembly_3 Nkx3-1 0.702 0.491 4.674 0.826 0.84238 10 7 7 10 0.7000 0.7000 1.0000 R 0 wvAGTGA... TAAGTGG 45 24 18 45 45 35.4000 41
assembly_3 MA0672.2 assembly_3 NKX2-3 0.706 0.449 2.012 0.837 0.84731 10 8 7 11 0.6364 0.7000 0.8750 R -1 wvAGTGA... .YAAGTGS 41 33 24 41 41 36.0000 42
assembly_2 MA1579.2 assembly_2 ZBTB26 0.703 0.410 5.040 0.837 0.84739 11 8 7 12 0.5833 0.6364 0.8750 D -1 ktCAGAG.... .TCCAGAA 44 43 15 40 40 36.4000 43
assembly_5 MA2329.1 assembly_5 ZBTB11 0.704 0.411 1.702 0.832 0.84494 10 9 7 12 0.5833 0.7000 0.7778 R 3 ...CAGGArg CCGGAAG.. 43 42 25 42 43 39.0000 44
assembly_5 MA0076.3 assembly_5 ELK4 0.712 0.415 0.528 0.831 0.84483 10 9 7 12 0.5833 0.7000 0.7778 R 3 ...CAGGArg CCGGAAG.. 34 40 38 44 44 40.0000 45 
 Host name	rsat
 Job started	2026-03-30.174248
 Job done	2026-03-30.174316
 Seconds	10.91
	user	10.92
	system	1.51
	cuser	14.36
;	csystem	1.98