/var/www/html/rsat/public_html/tmp/www-data/2025/03/15/compare-matrices_2025-03-15.184101_b80NSA/compare-matrices.tab 
 compare-matrices  -v 1 -format1 transfac -file1 $RSAT/public_html/tmp/www-data/2025/03/15/compare-matrices_2025-03-15.184101_b80NSA/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/2025/03/15/compare-matrices_2025-03-15.184101_b80NSA/compare-matrices.tab
 Program version       	1.118
 Slow mode 
 Input files
	file1 	$RSAT/public_html/tmp/www-data/2025/03/15/compare-matrices_2025-03-15.184101_b80NSA/compare-matrices_query_matrices.transfac
	file2 	$RSAT/public_html/motif_databases/JASPAR/Jaspar_2024/JASPAR2024_CORE_vertebrates_non-redundant_pfms_transfac.txt
 Output files
	prefix       	$RSAT/public_html/tmp/www-data/2025/03/15/compare-matrices_2025-03-15.184101_b80NSA/compare-matrices
	alignments_1ton_html	$RSAT/public_html/tmp/www-data/2025/03/15/compare-matrices_2025-03-15.184101_b80NSA/compare-matrices_alignments_1ton.html
	match_table_html	$RSAT/public_html/tmp/www-data/2025/03/15/compare-matrices_2025-03-15.184101_b80NSA/compare-matrices.html
	html_index   	$RSAT/public_html/tmp/www-data/2025/03/15/compare-matrices_2025-03-15.184101_b80NSA/compare-matrices_index.html
	match_table_txt	$RSAT/public_html/tmp/www-data/2025/03/15/compare-matrices_2025-03-15.184101_b80NSA/compare-matrices.tab
	alignments_1ton	$RSAT/public_html/tmp/www-data/2025/03/15/compare-matrices_2025-03-15.184101_b80NSA/compare-matrices_alignments_1ton.tab
 Matrices
	file1	11 matrices	$RSAT/public_html/tmp/www-data/2025/03/15/compare-matrices_2025-03-15.184101_b80NSA/compare-matrices_query_matrices.transfac
		file1	1	13	225	srkCyGAGATsws
		file1	2	10	14	aaATATATtt
		file1	3	11	1474	aaAArAATtaw
		file1	4	13	6709	ysCCTCTsCCysg
		file1	5	19	6705	AAAAAAAAAAAAAAwwwwa
		file1	6	13	6706	sGCtCCTCMCTyC
		file1	7	11	138	AgAATTATsaa
		file1	8	12	750	yGgGAGGCyGsa
		file1	9	11	695	gaCACTGCAvm
		file1	10	10	465	mkCACATCyy
		file1	11	10	173	GTAGACATGG
		...	1 more matrices
	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
cluster_5 MA1577.2 cluster_5 TLX2 0.936 0.511 7.178 0.960 0.91868 11 6 6 11 0.5455 0.5455 1.0000 D 1 .gAATTA.... yAATTA 4 39 11 7 4 13.0000 1
cluster_5 MA1481.2 cluster_5 DRGX 0.926 0.505 5.881 0.959 0.91720 11 6 6 11 0.5455 0.5455 1.0000 D 1 .gAATTA.... yAATTA 5 42 46 8 5 21.2000 2
cluster_5 MA0718.2 cluster_5 RAX 0.921 0.502 5.859 0.955 0.91355 11 6 6 11 0.5455 0.5455 1.0000 D 1 .gAATTA.... yAATTA 6 44 48 13 9 24.0000 3
cluster_5 MA0654.2 cluster_5 ISX 0.913 0.498 6.688 0.947 0.90562 11 6 6 11 0.5455 0.5455 1.0000 D 1 .gAATTA.... yAATTA 12 52 21 25 22 26.4000 4
cluster_5 MA0894.2 cluster_5 HESX1 0.916 0.500 5.907 0.949 0.90760 11 6 6 11 0.5455 0.5455 1.0000 R 1 .gAATTA.... YAATTA 9 49 45 20 16 27.8000 5
cluster_5 MA0720.2 cluster_5 Shox2 0.915 0.499 5.723 0.952 0.91073 11 6 6 11 0.5455 0.5455 1.0000 D 1 .gAATTA.... yAATTA 10 50 52 17 13 28.4000 6
cluster_5 MA0890.2 cluster_5 GBX2 0.911 0.497 6.185 0.948 0.90654 11 6 6 11 0.5455 0.5455 1.0000 D 1 .gAATTA.... yAATTA 14 54 34 23 19 28.8000 7
cluster_5 MA0716.2 cluster_5 PRRX1 0.920 0.502 5.069 0.957 0.91556 11 6 6 11 0.5455 0.5455 1.0000 D 1 .gAATTA.... yAATTA 7 45 78 9 6 29.0000 8
cluster_5 MA0666.3 cluster_5 MSX1 0.902 0.492 6.414 0.941 0.90125 11 6 6 11 0.5455 0.5455 1.0000 D 1 .gAATTA.... yAATTA 21 69 26 29 26 34.2000 9
cluster_5 MA0709.2 cluster_5 Msx3 0.902 0.492 6.180 0.942 0.90176 11 6 6 11 0.5455 0.5455 1.0000 D 1 .gAATTA.... yAATTA 20 68 35 28 25 35.2000 10
cluster_1 MA1125.2 cluster_1 ZNF384 0.979 0.412 8.541 0.987 0.96033 19 8 8 19 0.4211 0.4211 1.0000 D 1 .AAAAAAAA.......... AAAAAAaa 1 175 4 1 1 36.4000 11
cluster_5 MA0027.3 cluster_5 EN1 0.904 0.493 5.678 0.946 0.90551 11 6 6 11 0.5455 0.5455 1.0000 D 1 .gAATTA.... yAATTA 19 65 55 26 23 37.6000 12
cluster_5 MA0630.2 cluster_5 SHOX 0.918 0.501 3.881 0.957 0.91546 11 6 6 11 0.5455 0.5455 1.0000 R 1 .gAATTA.... YAATTA 8 46 122 10 7 38.6000 13
cluster_5 MA0721.2 cluster_5 UNCX 0.915 0.499 4.078 0.955 0.91387 11 6 6 11 0.5455 0.5455 1.0000 D 1 .gAATTA.... yAATTA 11 51 113 12 8 39.0000 14
cluster_5 MA0882.2 cluster_5 DLX6 0.905 0.494 5.017 0.949 0.90764 11 6 6 11 0.5455 0.5455 1.0000 D 1 .gAATTA.... yAATTA 18 64 81 18 14 39.0000 15
cluster_5 MA0634.2 cluster_5 ALX3 0.912 0.497 4.157 0.954 0.91222 11 6 6 11 0.5455 0.5455 1.0000 D 1 .gAATTA.... yAATTA 13 53 107 14 10 39.4000 16
cluster_5 MA0612.3 cluster_5 EMX1 0.893 0.487 6.346 0.936 0.89661 11 6 6 11 0.5455 0.5455 1.0000 D 1 .gAATTA.... TAATTA 29 79 27 35 33 40.6000 17
cluster_5 MA0708.3 cluster_5 MSX2 0.895 0.488 6.072 0.939 0.89903 11 6 6 11 0.5455 0.5455 1.0000 D 1 .gAATTA.... YAATTA 28 78 39 30 29 40.8000 18
cluster_5 MA0717.2 cluster_5 RAX2 0.910 0.496 4.084 0.953 0.91141 11 6 6 11 0.5455 0.5455 1.0000 D 1 .gAATTA.... yAATTA 15 57 112 15 11 42.0000 19
cluster_5 MA0662.2 cluster_5 MIXL1 0.908 0.496 4.131 0.952 0.91077 11 6 6 11 0.5455 0.5455 1.0000 D 1 .gAATTA.... yAATTA 16 60 108 16 12 42.4000 20
cluster_5 MA0886.2 cluster_5 EMX2 0.890 0.486 6.106 0.935 0.89621 11 6 6 11 0.5455 0.5455 1.0000 D 1 .gAATTA.... TAATTA 31 82 38 37 35 44.6000 21
cluster_5 MA1519.2 cluster_5 LHX5 0.825 0.525 6.825 0.904 0.88267 11 7 7 11 0.6364 0.6364 1.0000 D 0 AgAATTA.... sYAATTA 58 31 17 55 65 45.2000 22
cluster_5 MA0132.3 cluster_5 PDX1 0.883 0.481 6.199 0.933 0.89445 11 6 6 11 0.5455 0.5455 1.0000 D 1 .gAATTA.... ymATTA 32 87 33 38 36 45.2000 23
cluster_2 MA1125.2 cluster_2 ZNF384 0.825 0.600 5.655 0.903 0.88988 11 8 8 11 0.7273 0.7273 1.0000 D 0 aaAArAAT... AAAAAAaa 57 5 56 42 68 45.6000 24
cluster_5 MA0889.2 cluster_5 GBX1 0.824 0.524 6.482 0.905 0.88372 11 7 7 11 0.6364 0.6364 1.0000 D 0 AgAATTA.... syAATTA 59 33 24 51 63 46.0000 25
cluster_5 MA0075.4 cluster_5 PRRX2 0.821 0.523 6.956 0.901 0.88098 11 7 7 11 0.6364 0.6364 1.0000 D 0 AgAATTA.... cyAATTA 60 34 13 65 70 48.4000 26
cluster_5 MA0125.2 cluster_5 Nobox 0.898 0.490 4.665 0.944 0.90302 11 6 6 11 0.5455 0.5455 1.0000 R 1 .gAATTA.... YAATTA 26 76 90 27 24 48.6000 27
cluster_5 MA0880.2 cluster_5 Dlx3 0.902 0.492 4.041 0.949 0.90762 11 6 6 11 0.5455 0.5455 1.0000 D 1 .gAATTA.... yAATTA 23 71 115 19 15 48.6000 28
cluster_6 MA2341.1 cluster_6 FEZF2 0.897 0.598 0.373 0.947 0.91882 12 8 8 12 0.6667 0.6667 1.0000 R 4 ....AGGCyGsa AGGCTGGG 27 6 183 6 21 48.6000 29
cluster_5 MA0881.2 cluster_5 Dlx4 0.900 0.491 4.390 0.947 0.90630 11 6 6 11 0.5455 0.5455 1.0000 D 1 .gAATTA.... yAATTA 25 74 103 24 20 49.2000 30
cluster_4 MA1652.2 cluster_4 ZKSCAN5 0.906 0.517 0.834 0.948 0.91922 13 9 8 14 0.5714 0.6154 0.8889 R 5 .....CTCMCTyC CTCACYTC. 17 35 176 5 18 50.2000 31
cluster_5 MA0699.2 cluster_5 LBX2 0.901 0.492 3.991 0.949 0.90749 11 6 6 11 0.5455 0.5455 1.0000 D 1 .gAATTA.... yAATTA 24 72 119 21 17 50.6000 32
cluster_6 MA2099.1 cluster_6 ZNF770 0.891 0.594 0.520 0.941 0.91414 12 8 8 12 0.6667 0.6667 1.0000 R 2 ..gGAGGCyG.. KGAGGCYG 30 8 182 11 27 51.6000 33
cluster_6 MA1596.1 cluster_6 ZNF460 0.870 0.653 0.602 0.931 0.92428 12 16 12 16 0.7500 1.0000 0.7500 R -2 yGgGAGGCyGsa ..YGGGAGGCKGAG.. 38 2 180 4 37 52.2000 34
cluster_5 MA2333.1 cluster_5 ZNF35 0.965 0.482 1.287 0.983 0.94627 11 7 6 12 0.5000 0.5455 0.8571 R -1 AgAATT..... .AGAATT 2 85 172 2 2 52.6000 35
cluster_5 MA0644.3 cluster_5 ESX1 0.813 0.517 6.049 0.902 0.88163 11 7 7 11 0.6364 0.6364 1.0000 D 0 AgAATTA.... yyAATTA 63 36 41 60 69 53.8000 36
cluster_5 MA0879.3 cluster_5 DLX1 0.880 0.480 4.842 0.936 0.89706 11 6 6 11 0.5455 0.5455 1.0000 D 1 .gAATTA.... yAATTA 34 91 86 32 31 54.8000 37
cluster_6 MA1965.2 cluster_6 SP5 0.964 0.482 0.216 0.970 0.92962 12 6 6 12 0.5000 0.5000 1.0000 R 1 .GgGAGG..... GGGAGG 3 86 185 3 3 56.0000 38
cluster_5 MA0700.3 cluster_5 LHX2 0.867 0.473 6.059 0.918 0.88307 11 6 6 11 0.5455 0.5455 1.0000 D 1 .gAATTA.... CAATTA 40 100 40 53 48 56.2000 39
cluster_5 MA0903.2 cluster_5 HOXB3 0.878 0.479 4.551 0.937 0.89715 11 6 6 11 0.5455 0.5455 1.0000 D 1 .gAATTA.... ymATTA 36 94 97 31 30 57.6000 40
cluster_5 MA0704.2 cluster_5 Lhx4 0.880 0.480 4.612 0.936 0.89692 11 6 6 11 0.5455 0.5455 1.0000 D 1 .gAATTA.... TAATTA 35 93 95 34 32 57.8000 41
cluster_5 MA0902.3 cluster_5 HOXB2 0.864 0.471 5.523 0.926 0.88916 11 6 6 11 0.5455 0.5455 1.0000 D 1 .gAATTA.... ymATTA 41 104 61 45 42 58.6000 42
cluster_2 MA2124.1 cluster_2 Hmga1 0.843 0.613 1.573 0.915 0.89699 11 8 8 11 0.7273 0.7273 1.0000 R 0 aaAArAAT... WTAAAAAT 51 4 164 33 52 60.8000 43
cluster_9 MA0148.5 cluster_9 FOXA1 0.792 0.634 6.816 0.873 0.87407 10 8 8 10 0.8000 0.8000 1.0000 D 0 GTAGACAT.. GTAAACAT 80 3 18 91 121 62.6000 44
cluster_5 MA0628.2 cluster_5 POU6F1 0.863 0.471 5.201 0.919 0.88408 11 6 6 11 0.5455 0.5455 1.0000 D 1 .gAATTA.... TAATTA 42 105 73 49 45 62.8000 45
cluster_5 MA0701.3 cluster_5 LHX9 0.797 0.507 6.477 0.889 0.87414 11 7 7 11 0.6364 0.6364 1.0000 D 0 AgAATTA.... CyAATTA 73 40 25 90 89 63.4000 46
cluster_5 MA0875.2 cluster_5 BARX1 0.852 0.465 5.607 0.919 0.88403 11 6 6 11 0.5455 0.5455 1.0000 D 1 .gAATTA.... cmATTA 47 116 59 50 46 63.6000 47
cluster_4 MA1965.2 cluster_4 SP5 0.881 0.407 8.859 0.916 0.88189 13 6 6 13 0.4615 0.4615 1.0000 D 4 ....CCTCMC... CCTCCC 33 181 1 59 49 64.6000 48
cluster_5 MA0887.2 cluster_5 EVX1 0.859 0.469 4.452 0.927 0.88982 11 6 6 11 0.5455 0.5455 1.0000 D 1 .gAATTA.... taATTA 45 108 101 43 40 67.4000 49
cluster_5 MA0888.2 cluster_5 EVX2 0.859 0.469 4.534 0.927 0.88950 11 6 6 11 0.5455 0.5455 1.0000 D 1 .gAATTA.... TaATTA 46 109 98 44 41 67.6000 50 
 Host name	rsat
 Job started	2025-03-15.184102
 Job done	2025-03-15.184313
 Seconds	36.67
	user	36.68
	system	9.98
	cuser	72.89
;	csystem	12.26