/var/www/html/rsat/public_html/tmp/www-data/2026/04/09/compare-matrices_2026-04-09.121048_nyKodL/compare-matrices.tab 
 compare-matrices  -v 1 -format1 transfac -file1 $RSAT/public_html/tmp/www-data/2026/04/09/compare-matrices_2026-04-09.121048_nyKodL/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/2026/04/09/compare-matrices_2026-04-09.121048_nyKodL/compare-matrices.tab
 Program version       	1.118
 Slow mode 
 Input files
	file1 	$RSAT/public_html/tmp/www-data/2026/04/09/compare-matrices_2026-04-09.121048_nyKodL/compare-matrices_query_matrices.transfac
	file2 	$RSAT/public_html/motif_databases/footprintDB/footprintDB.plants.motif.tf
 Output files
	alignments_1ton_html	$RSAT/public_html/tmp/www-data/2026/04/09/compare-matrices_2026-04-09.121048_nyKodL/compare-matrices_alignments_1ton.html
	match_table_txt	$RSAT/public_html/tmp/www-data/2026/04/09/compare-matrices_2026-04-09.121048_nyKodL/compare-matrices.tab
	alignments_1ton	$RSAT/public_html/tmp/www-data/2026/04/09/compare-matrices_2026-04-09.121048_nyKodL/compare-matrices_alignments_1ton.tab
	html_index   	$RSAT/public_html/tmp/www-data/2026/04/09/compare-matrices_2026-04-09.121048_nyKodL/compare-matrices_index.html
	match_table_html	$RSAT/public_html/tmp/www-data/2026/04/09/compare-matrices_2026-04-09.121048_nyKodL/compare-matrices.html
	prefix       	$RSAT/public_html/tmp/www-data/2026/04/09/compare-matrices_2026-04-09.121048_nyKodL/compare-matrices
 Matrices
	file1	1 matrices	$RSAT/public_html/tmp/www-data/2026/04/09/compare-matrices_2026-04-09.121048_nyKodL/compare-matrices_query_matrices.transfac
		file1	1	11	5649	wtCATCTTCwt
	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
oligos_7nt_mkv5_m5 bZIP11:bZIP9_2_EEAD0113_EEADannot oligos_7nt_mkv5_m5 bZIP11:bZIP9_2:EEAD0113:EEADannot 0.808 0.635 3.854 0.933 0.92193 11 14 11 14 0.7857 1.0000 0.7857 D -2 wtCATCTTCwt ..mTCaTCAtCaT. 7 1 11 2 4 5.0000 1
oligos_7nt_mkv5_m5 TGA5_2_EEAD0137_EEADannot oligos_7nt_mkv5_m5 TGA5_2:EEAD0137:EEADannot 0.849 0.622 0.413 0.949 0.93193 11 15 11 15 0.7333 1.0000 0.7333 R -2 wtCATCTTCwt ..WTCWYCWTCWY.. 5 2 25 1 2 7.0000 2
oligos_7nt_mkv5_m5 bZIP44_2_EEAD0099_EEADannot oligos_7nt_mkv5_m5 bZIP44_2:EEAD0099:EEADannot 0.791 0.580 0.535 0.929 0.91980 11 15 11 15 0.7333 1.0000 0.7333 R -2 wtCATCTTCwt ..ATCATCAYCRT.. 10 3 19 3 5 8.0000 3
oligos_7nt_mkv5_m5 AL2G34360.t1_RWPRK_1_AT1G74480_EEAD0584_EEADannot oligos_7nt_mkv5_m5 AL2G34360.t1_RWPRK_1_AT1G74480:EEAD0584:EEADannot 0.781 0.521 4.231 0.905 0.90279 11 14 10 15 0.6667 0.9091 0.7143 D -4 wtCATCTTCw. ....TTCrwCTTCy 12 12 8 10 8 10.0000 4
oligos_7nt_mkv5_m5 Carub.0002s2128.1_RWPRK_1_AT1G74480_EEAD0605_EEADannot oligos_7nt_mkv5_m5 Carub.0002s2128.1_RWPRK_1_AT1G74480:EEAD0605:EEADannot 0.763 0.560 0.493 0.907 0.90815 11 15 11 15 0.7333 1.0000 0.7333 R -4 wtCATCTTCwt ....TTCRWCTTCYY 16 4 20 4 7 10.2000 5
oligos_7nt_mkv5_m5 ONAC127_UN0429.2_JASPAR oligos_7nt_mkv5_m5 ONAC127:UN0429.2:JASPAR 0.869 0.553 0.433 0.928 0.89861 11 7 7 11 0.6364 0.6364 1.0000 R 4 ....TCTTCwt TCTTCCT 2 5 24 14 6 10.2000 6
oligos_7nt_mkv5_m5 NAC_3swp_A_3D-footprint oligos_7nt_mkv5_m5 NAC:3swp_A:3D-footprint 0.905 0.411 0.472 0.957 0.90755 11 5 5 11 0.4545 0.4545 1.0000 R 5 .....CTTCw. CTTCG 1 28 21 5 1 11.2000 7
oligos_7nt_mkv5_m5 TIFY2B_M0762_1.02_CISBP oligos_7nt_mkv5_m5 TIFY2B:M0762_1.02:CISBP 0.818 0.520 0.130 0.936 0.90471 11 7 7 11 0.6364 0.6364 1.0000 R 0 wtCATCT.... HWSATCT 6 13 28 7 3 11.4000 8
oligos_7nt_mkv5_m5 XP_013591813.1_RWPRK_1_AT1G74480_EEAD0667_EEADannot oligos_7nt_mkv5_m5 XP_013591813.1_RWPRK_1_AT1G74480:EEAD0667:EEADannot 0.793 0.510 4.150 0.905 0.89748 11 12 9 14 0.6429 0.8182 0.7500 D -3 wtCATCTTC.. ...TTCrwCTTC 8 16 9 15 9 11.4000 9
oligos_7nt_mkv5_m5 NAC28_B73_1_m1_EEAD0475_EEADannot oligos_7nt_mkv5_m5 NAC28_B73_1_m1:EEAD0475:EEADannot 0.735 0.539 4.753 0.888 0.89925 11 15 11 15 0.7333 1.0000 0.7333 D -2 wtCATCTTCwt ..ATCATCrTywy.. 19 7 4 13 18 12.2000 10
oligos_7nt_mkv5_m5 Solyc03g116010.3.1_RWPRK_1_AT1G74480_EEAD0647_EEADannot oligos_7nt_mkv5_m5 Solyc03g116010.3.1_RWPRK_1_AT1G74480:EEAD0647:EEADannot 0.772 0.483 3.758 0.905 0.90260 11 15 10 16 0.6250 0.9091 0.6667 D -5 wtCATCTTCw. .....TTCrwCTTCy 13 18 12 11 10 12.8000 11
oligos_7nt_mkv5_m5 ZML2.DAP_M0296_AthalianaCistrome oligos_7nt_mkv5_m5 ZML2.DAP:M0296:AthalianaCistrome 0.771 0.446 4.725 0.895 0.90233 11 19 11 19 0.5789 1.0000 0.5789 D -7 wtCATCTTCwt .......ATCATCATCAT. 15 24 5 12 16 14.4000 12
oligos_7nt_mkv5_m5 BHLH113_Mo17_1_EEAD0210_EEADannot oligos_7nt_mkv5_m5 BHLH113_Mo17_1:EEAD0210:EEADannot 0.714 0.524 5.525 0.881 0.89592 11 15 11 15 0.7333 1.0000 0.7333 D -4 wtCATCTTCwt ....tTCAyCATYAm 26 9 3 16 22 15.2000 13
oligos_7nt_mkv5_m5 ONAC127_UN0429.1_JASPAR oligos_7nt_mkv5_m5 ONAC127:UN0429.1:JASPAR 0.772 0.534 0.466 0.900 0.89454 11 11 9 13 0.6923 0.8182 0.8182 R 2 ..CATCTTCwt BRTCTTCCT.. 14 8 22 19 13 15.2000 14
oligos_7nt_mkv5_m5 ZML1.DAP_M0292_AthalianaCistrome oligos_7nt_mkv5_m5 ZML1.DAP:M0292:AthalianaCistrome 0.736 0.540 6.046 0.846 0.88164 11 15 11 15 0.7333 1.0000 0.7333 D -2 wtCATCTTCwt ..ATCATCATCAT.. 18 6 1 24 28 15.4000 15
oligos_7nt_mkv5_m5 AT5G18090_UN0847.1_JASPAR oligos_7nt_mkv5_m5 AT5G18090:UN0847.1:JASPAR 0.849 0.463 4.627 0.888 0.86321 11 6 6 11 0.5455 0.5455 1.0000 D 0 wtCATC..... TTCATC 3 20 6 28 20 15.4000 16
oligos_7nt_mkv5_m5 REM21_UN0408.2_JASPAR oligos_7nt_mkv5_m5 REM21:UN0408.2:JASPAR 0.849 0.463 4.621 0.888 0.86321 11 6 6 11 0.5455 0.5455 1.0000 D 0 wtCATC..... TTCATC 4 21 7 27 19 15.6000 17
oligos_7nt_mkv5_m5 AGL42_MA1201.1_JASPAR oligos_7nt_mkv5_m5 AGL42:MA1201.1:JASPAR 0.792 0.504 5.730 0.877 0.86734 11 7 7 11 0.6364 0.6364 1.0000 D 2 ..CATCTTC.. CATCATy 9 17 2 26 25 15.8000 18
oligos_7nt_mkv5_m5 GATA1.DAP_M0288_AthalianaCistrome oligos_7nt_mkv5_m5 GATA1.DAP:M0288:AthalianaCistrome 0.711 0.522 0.450 0.902 0.90574 11 15 11 15 0.7333 1.0000 0.7333 R -4 wtCATCTTCwt ....AYCAYCAYCAY 27 11 23 6 12 15.8000 19
oligos_7nt_mkv5_m5 RKD2.DAP_M0728_AthalianaCistrome oligos_7nt_mkv5_m5 RKD2.DAP:M0728:AthalianaCistrome 0.724 0.419 3.184 0.898 0.90376 11 19 11 19 0.5789 1.0000 0.5789 D -7 wtCATCTTCwt .......TTCrtCTTCCy. 22 25 15 8 14 16.8000 20
oligos_7nt_mkv5_m5 RKD2_UN0409.1_JASPAR oligos_7nt_mkv5_m5 RKD2:UN0409.1:JASPAR 0.724 0.419 3.185 0.898 0.90374 11 19 11 19 0.5789 1.0000 0.5789 D -7 wtCATCTTCwt .......TTCrtCTTCCy. 23 26 14 9 15 17.4000 21
oligos_7nt_mkv5_m5 NAC28_Mo17_1_EEAD0476_EEADannot oligos_7nt_mkv5_m5 NAC28_Mo17_1:EEAD0476:EEADannot 0.784 0.522 0.402 0.878 0.88965 11 14 10 15 0.6667 0.9091 0.7143 R 1 .tCATCTTCwt TCATCATCRT.... 11 10 26 21 24 18.4000 22
oligos_7nt_mkv5_m5 RKD2_UN0409.2_JASPAR oligos_7nt_mkv5_m5 RKD2:UN0409.2:JASPAR 0.724 0.453 3.183 0.889 0.89479 11 15 10 16 0.6250 0.9091 0.6667 D -5 wtCATCTTCw. .....TTCrtCTTCC 21 22 16 18 17 18.8000 23
oligos_7nt_mkv5_m5 TIFY2A_M0760_1.02_CISBP oligos_7nt_mkv5_m5 TIFY2A:M0760_1.02:CISBP 0.753 0.479 0.210 0.904 0.88268 11 7 7 11 0.6364 0.6364 1.0000 R 1 .tCATCTT... HSATCTD 17 19 27 23 11 19.4000 24
oligos_7nt_mkv5_m5 ARR5_Mo17_1_EEAD0206_EEADannot oligos_7nt_mkv5_m5 ARR5_Mo17_1:EEAD0206:EEADannot 0.727 0.519 2.302 0.864 0.88323 11 13 10 14 0.7143 0.9091 0.7692 R -3 wtCATCTTCw. ...TYCATCTTAT 20 14 17 22 27 20.0000 25
oligos_7nt_mkv5_m5 ARR2_MA0949.2_JASPAR oligos_7nt_mkv5_m5 ARR2:MA0949.2:JASPAR 0.703 0.511 4.133 0.866 0.87042 11 8 8 11 0.7273 0.7273 1.0000 D 0 wtCATCTT... mGwATCTT 28 15 10 25 26 20.8000 26
oligos_7nt_mkv5_m5 GATA15.DAP_M0283_AthalianaCistrome oligos_7nt_mkv5_m5 GATA15.DAP:M0283:AthalianaCistrome 0.716 0.415 3.393 0.880 0.89557 11 19 11 19 0.5789 1.0000 0.5789 D -7 wtCATCTTCwt .......ATCATCATCAT. 25 27 13 17 23 21.0000 27
oligos_7nt_mkv5_m5 RKD2.ampDAP_M0727_AthalianaCistrome oligos_7nt_mkv5_m5 RKD2.ampDAP:M0727:AthalianaCistrome 0.722 0.451 0.910 0.887 0.89353 11 15 10 16 0.6250 0.9091 0.6667 R -5 wtCATCTTCw. .....TTCRWCTTCC 24 23 18 20 21 21.2000 28 
 Host name	rsat
 Job started	2026-04-09.121048
 Job done	2026-04-09.121103
 Seconds	10.49
	user	10.49
	system	0.73
	cuser	3.5
;	csystem	0.98