/var/www/html/rsat/public_html/tmp/www-data/2026/04/09/compare-matrices_2026-04-09.113058_zR7Iry/compare-matrices.tab 
 compare-matrices  -v 1 -format1 transfac -file1 $RSAT/public_html/tmp/www-data/2026/04/09/compare-matrices_2026-04-09.113058_zR7Iry/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_2026-04-09.113058_zR7Iry/compare-matrices.tab
 Program version       	1.118
 Slow mode 
 Input files
	file1 	$RSAT/public_html/tmp/www-data/2026/04/09/compare-matrices_2026-04-09.113058_zR7Iry/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/2026/04/09/compare-matrices_2026-04-09.113058_zR7Iry/compare-matrices_index.html
	prefix       	$RSAT/public_html/tmp/www-data/2026/04/09/compare-matrices_2026-04-09.113058_zR7Iry/compare-matrices
	alignments_1ton	$RSAT/public_html/tmp/www-data/2026/04/09/compare-matrices_2026-04-09.113058_zR7Iry/compare-matrices_alignments_1ton.tab
	match_table_html	$RSAT/public_html/tmp/www-data/2026/04/09/compare-matrices_2026-04-09.113058_zR7Iry/compare-matrices.html
	match_table_txt	$RSAT/public_html/tmp/www-data/2026/04/09/compare-matrices_2026-04-09.113058_zR7Iry/compare-matrices.tab
	alignments_1ton_html	$RSAT/public_html/tmp/www-data/2026/04/09/compare-matrices_2026-04-09.113058_zR7Iry/compare-matrices_alignments_1ton.html
 Matrices
	file1	1 matrices	$RSAT/public_html/tmp/www-data/2026/04/09/compare-matrices_2026-04-09.113058_zR7Iry/compare-matrices_query_matrices.transfac
		file1	1	10	4455	kaCACGTGtm
	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_6nt_mkv4_m3 O11_MA1816.1_JASPAR oligos_6nt_mkv4_m3 O11:MA1816.1:JASPAR 0.980 0.817 6.976 0.990 0.96867 10 12 10 12 0.8333 1.0000 0.8333 D -1 kaCACGTGtm .skCACGTGms. 20 47 48 15 20 30.0000 1
oligos_6nt_mkv4_m3 PIL5_M0156_1.02_CISBP oligos_6nt_mkv4_m3 PIL5:M0156_1.02:CISBP 0.975 0.975 5.764 0.991 0.96939 10 10 10 10 1.0000 1.0000 1.0000 D 0 kaCACGTGtm rbCACGTGvy 27 3 113 11 16 34.0000 2
oligos_6nt_mkv4_m3 AT1G01260_M0150_1.02_CISBP oligos_6nt_mkv4_m3 AT1G01260:M0150_1.02:CISBP 0.975 0.780 7.608 0.982 0.95239 10 8 8 10 0.8000 0.8000 1.0000 R 1 .aCACGTGt. MCACGTGS 28 56 5 46 45 36.0000 3
oligos_6nt_mkv4_m3 MYC2_M0152_1.02_CISBP oligos_6nt_mkv4_m3 MYC2:M0152_1.02:CISBP 0.976 0.976 4.243 0.991 0.97034 10 10 10 10 1.0000 1.0000 1.0000 R 0 kaCACGTGtm HRCACGTGYK 26 2 158 9 13 41.6000 4
oligos_6nt_mkv4_m3 e_gw1.209.40.1_M0250_1.02_CISBP oligos_6nt_mkv4_m3 e_gw1.209.40.1:M0250_1.02:CISBP 0.973 0.973 5.024 0.991 0.96927 10 10 10 10 1.0000 1.0000 1.0000 D 0 kaCACGTGtm hgCACGTGcd 32 6 141 12 17 41.6000 5
oligos_6nt_mkv4_m3 PHYPADRAFT_143875_MA0988.1_JASPAR oligos_6nt_mkv4_m3 PHYPADRAFT_143875:MA0988.1:JASPAR 0.973 0.973 5.049 0.991 0.96921 10 10 10 10 1.0000 1.0000 1.0000 D 0 kaCACGTGtm hgCACGTGcd 33 7 137 13 19 41.8000 6
oligos_6nt_mkv4_m3 BIM2_M0154_1.02_CISBP oligos_6nt_mkv4_m3 BIM2:M0154_1.02:CISBP 0.969 0.969 5.253 0.989 0.96632 10 10 10 10 1.0000 1.0000 1.0000 D 0 kaCACGTGtm skCACGTGms 38 9 130 23 28 45.6000 7
oligos_6nt_mkv4_m3 BIM2_MA0965.1_JASPAR oligos_6nt_mkv4_m3 BIM2:MA0965.1:JASPAR 0.968 0.968 5.232 0.988 0.96595 10 10 10 10 1.0000 1.0000 1.0000 D 0 kaCACGTGtm skCACGTGms 39 10 131 26 30 47.2000 8
oligos_6nt_mkv4_m3 BPE_MA1359.2_JASPAR oligos_6nt_mkv4_m3 BPE:MA1359.2:JASPAR 0.978 0.699 7.224 0.988 0.96562 10 14 10 14 0.7143 1.0000 0.7143 D -2 kaCACGTGtm ..gcCACGTGgc.. 22 124 34 27 31 47.6000 9
oligos_6nt_mkv4_m3 BHLH74_MA1360.2_JASPAR oligos_6nt_mkv4_m3 BHLH74:MA1360.2:JASPAR 0.973 0.695 7.467 0.986 0.96257 10 14 10 14 0.7143 1.0000 0.7143 R -2 kaCACGTGtm ..RBCACGTGVB.. 31 125 18 35 36 49.0000 10
oligos_6nt_mkv4_m3 PHYPADRAFT_72483_MA1011.1_JASPAR oligos_6nt_mkv4_m3 PHYPADRAFT_72483:MA1011.1:JASPAR 0.975 0.975 3.557 0.989 0.96756 10 10 10 10 1.0000 1.0000 1.0000 D 0 kaCACGTGtm rkCACGTGmy 29 4 176 17 23 49.8000 11
oligos_6nt_mkv4_m3 BZR1_MA0550.1_JASPAR oligos_6nt_mkv4_m3 BZR1:MA0550.1:JASPAR 0.979 0.699 6.850 0.989 0.96647 10 14 10 14 0.7143 1.0000 0.7143 D -2 kaCACGTGtm ..kmCACGTGdv.. 21 123 57 22 27 50.0000 12
oligos_6nt_mkv4_m3 MYC4_M0160_1.02_CISBP oligos_6nt_mkv4_m3 MYC4:M0160_1.02:CISBP 0.972 0.972 3.855 0.989 0.96741 10 10 10 10 1.0000 1.0000 1.0000 D 0 kaCACGTGtm mrCACGTGyk 35 8 165 19 25 50.4000 13
oligos_6nt_mkv4_m3 fgenesh1_pg.scaffold_37000071_M0251_1.02_CISBP oligos_6nt_mkv4_m3 fgenesh1_pg.scaffold_37000071:M0251_1.02:CISBP 0.975 0.975 3.577 0.989 0.96748 10 10 10 10 1.0000 1.0000 1.0000 R 0 kaCACGTGtm RKCACGTGMY 30 5 175 18 24 50.4000 14
oligos_6nt_mkv4_m3 bHLH74_MA1360.3_JASPAR oligos_6nt_mkv4_m3 bHLH74:MA1360.3:JASPAR 0.997 0.598 7.466 0.993 0.96529 10 6 6 10 0.6000 0.6000 1.0000 D 2 ..CACGTG.. CACGTG 5 190 19 29 10 50.6000 15
oligos_6nt_mkv4_m3 BIM2_MA0965.3_JASPAR oligos_6nt_mkv4_m3 BIM2:MA0965.3:JASPAR 0.998 0.599 6.926 0.995 0.97087 10 6 6 10 0.6000 0.6000 1.0000 R 2 ..CACGTG.. CACGTG 3 188 52 7 6 51.2000 16
oligos_6nt_mkv4_m3 ILR3_M0167_1.02_CISBP oligos_6nt_mkv4_m3 ILR3:M0167_1.02:CISBP 0.980 0.980 3.262 0.989 0.96629 10 10 10 10 1.0000 1.0000 1.0000 D 0 kaCACGTGtm rrCACGTGyy 19 1 184 24 29 51.4000 17
oligos_6nt_mkv4_m3 BPE_MA1359.3_JASPAR oligos_6nt_mkv4_m3 BPE:MA1359.3:JASPAR 0.997 0.598 7.223 0.993 0.96650 10 6 6 10 0.6000 0.6000 1.0000 D 2 ..CACGTG.. CACGTG 7 192 35 21 8 52.6000 18
oligos_6nt_mkv4_m3 UNE10_MA1074.1_JASPAR oligos_6nt_mkv4_m3 UNE10:MA1074.1:JASPAR 0.963 0.771 7.608 0.976 0.94480 10 8 8 10 0.8000 0.8000 1.0000 D 1 .aCACGTGt. cCACGTGm 52 71 8 66 68 53.0000 19
oligos_6nt_mkv4_m3 O11_MA1816.2_JASPAR oligos_6nt_mkv4_m3 O11:MA1816.2:JASPAR 0.997 0.598 6.975 0.994 0.96914 10 6 6 10 0.6000 0.6000 1.0000 D 2 ..CACGTG.. CACGTG 6 191 49 14 7 53.4000 20
oligos_6nt_mkv4_m3 BIM2_MA0965.2_JASPAR oligos_6nt_mkv4_m3 BIM2:MA0965.2:JASPAR 0.983 0.615 6.927 0.991 0.97021 10 16 10 16 0.6250 1.0000 0.6250 D -3 kaCACGTGtm ...gkCACGTGmc... 15 177 51 10 15 53.6000 21
oligos_6nt_mkv4_m3 UNE10_M0158_1.02_CISBP oligos_6nt_mkv4_m3 UNE10:M0158_1.02:CISBP 0.963 0.770 7.608 0.975 0.94465 10 8 8 10 0.8000 0.8000 1.0000 D 1 .aCACGTGt. cCACGTGm 53 72 9 68 70 54.4000 22
oligos_6nt_mkv4_m3 BIM3_MA0966.1_JASPAR oligos_6nt_mkv4_m3 BIM3:MA0966.1:JASPAR 0.964 0.964 4.866 0.987 0.96450 10 10 10 10 1.0000 1.0000 1.0000 D 0 kaCACGTGtm rgCACGTGcy 49 13 149 30 32 54.6000 23
oligos_6nt_mkv4_m3 UNE10_MA1074.2_JASPAR oligos_6nt_mkv4_m3 UNE10:MA1074.2:JASPAR 0.976 0.683 7.607 0.980 0.94703 10 7 7 10 0.7000 0.7000 1.0000 D 2 ..CACGTGt. CACGTGm 25 131 10 63 48 55.4000 24
oligos_6nt_mkv4_m3 PIF1_MA0552.2_JASPAR oligos_6nt_mkv4_m3 PIF1:MA0552.2:JASPAR 0.995 0.597 7.065 0.993 0.96621 10 6 6 10 0.6000 0.6000 1.0000 R 2 ..CACGTG.. CACGTG 8 194 45 25 9 56.2000 25
oligos_6nt_mkv4_m3 BIM3_M0164_1.02_CISBP oligos_6nt_mkv4_m3 BIM3:M0164_1.02:CISBP 0.963 0.963 4.904 0.987 0.96393 10 10 10 10 1.0000 1.0000 1.0000 R 0 kaCACGTGtm RGCACGTGCY 55 14 148 32 33 56.4000 26
oligos_6nt_mkv4_m3 LOC_Os02g49560_M0327_1.02_CISBP oligos_6nt_mkv4_m3 LOC_Os02g49560:M0327_1.02:CISBP 0.948 0.862 6.442 0.978 0.95306 10 11 10 11 0.9091 1.0000 0.9091 D -1 kaCACGTGtm .kcCACGTGwy 80 24 77 45 56 56.4000 27
oligos_6nt_mkv4_m3 NF-YB9_UN0822.1_JASPAR oligos_6nt_mkv4_m3 NF-YB9:UN0822.1:JASPAR 0.999 0.600 6.270 0.998 0.98404 10 6 6 10 0.6000 0.6000 1.0000 R 2 ..CACGTG.. CACGTG 1 186 96 2 2 57.4000 28
oligos_6nt_mkv4_m3 BHLH49_MA1740.1_JASPAR oligos_6nt_mkv4_m3 BHLH49:MA1740.1:JASPAR 0.938 0.938 7.605 0.968 0.94312 10 10 10 10 1.0000 1.0000 1.0000 D 0 kaCACGTGtm arCACGTGCc 100 15 11 74 96 59.2000 29
oligos_6nt_mkv4_m3 BEE2_MA0956.1_JASPAR oligos_6nt_mkv4_m3 BEE2:MA0956.1:JASPAR 0.966 0.966 3.519 0.986 0.96313 10 10 10 10 1.0000 1.0000 1.0000 D 0 kaCACGTGtm hgCACGTGcd 45 11 178 33 34 60.2000 30
oligos_6nt_mkv4_m3 BEE2_M0161_1.02_CISBP oligos_6nt_mkv4_m3 BEE2:M0161_1.02:CISBP 0.965 0.965 3.510 0.986 0.96288 10 10 10 10 1.0000 1.0000 1.0000 R 0 kaCACGTGtm HGCACGTGCW 46 12 180 34 35 61.4000 31
oligos_6nt_mkv4_m3 SPCH_UN0823.1_JASPAR oligos_6nt_mkv4_m3 SPCH:UN0823.1:JASPAR 0.998 0.599 5.836 0.998 0.98353 10 6 6 10 0.6000 0.6000 1.0000 R 2 ..CACGTG.. CACGTG 4 189 109 3 3 61.6000 32
oligos_6nt_mkv4_m3 OJ1058_MA1033.1_JASPAR oligos_6nt_mkv4_m3 OJ1058:MA1033.1:JASPAR 0.963 0.771 7.219 0.973 0.94227 10 8 8 10 0.8000 0.8000 1.0000 R 1 .aCACGTGt. MCACGTGK 50 69 36 80 74 61.8000 33
oligos_6nt_mkv4_m3 At5g46760_MA0568.1_JASPAR oligos_6nt_mkv4_m3 At5g46760:MA0568.1:JASPAR 0.967 0.774 5.290 0.985 0.95713 10 8 8 10 0.8000 0.8000 1.0000 D 1 .aCACGTGt. vCACGTGb 42 64 125 42 39 62.4000 34
oligos_6nt_mkv4_m3 Os05g0437700_MA2401.1_JASPAR oligos_6nt_mkv4_m3 Os05g0437700:MA2401.1:JASPAR 0.963 0.771 7.186 0.973 0.94237 10 8 8 10 0.8000 0.8000 1.0000 D 1 .aCACGTGt. mCACGTGk 51 70 39 79 73 62.4000 35
oligos_6nt_mkv4_m3 URI_MA2342.1_JASPAR oligos_6nt_mkv4_m3 URI:MA2342.1:JASPAR 0.999 0.599 5.300 0.999 0.98769 10 6 6 10 0.6000 0.6000 1.0000 R 2 ..CACGTG.. CACGTG 2 187 124 1 1 63.0000 36
oligos_6nt_mkv4_m3 LOC_Os05g36160_M0329_1.02_CISBP oligos_6nt_mkv4_m3 LOC_Os05g36160:M0329_1.02:CISBP 0.962 0.770 7.242 0.972 0.94131 10 8 8 10 0.8000 0.8000 1.0000 R 1 .aCACGTGt. MCACGTGK 58 73 29 83 78 64.2000 37
oligos_6nt_mkv4_m3 gw1.270.82.1_M0252_1.02_CISBP oligos_6nt_mkv4_m3 gw1.270.82.1:M0252_1.02:CISBP 0.956 0.765 7.342 0.972 0.94122 10 8 8 10 0.8000 0.8000 1.0000 D 1 .aCACGTGt. cCACGTGc 62 78 23 85 80 65.6000 38
oligos_6nt_mkv4_m3 PHYPADRAFT_48267_MA1021.1_JASPAR oligos_6nt_mkv4_m3 PHYPADRAFT_48267:MA1021.1:JASPAR 0.955 0.764 7.190 0.972 0.94135 10 8 8 10 0.8000 0.8000 1.0000 D 1 .aCACGTGt. cCACGTGc 64 79 38 82 77 68.0000 39
oligos_6nt_mkv4_m3 bHLH31_MA1359.1_JASPAR oligos_6nt_mkv4_m3 bHLH31:MA1359.1:JASPAR 0.986 0.470 7.078 0.992 0.97234 10 21 10 21 0.4762 1.0000 0.4762 D -5 kaCACGTGtm .....grCACGTGbs...... 12 275 44 6 11 69.6000 40
oligos_6nt_mkv4_m3 ABI5_M0261_1.02_CISBP oligos_6nt_mkv4_m3 ABI5:M0261_1.02:CISBP 0.951 0.778 6.301 0.976 0.94846 10 10 9 11 0.8182 0.9000 0.9000 D -1 kaCACGTGt. .gmCACGTGk 73 61 93 58 64 69.8000 41
oligos_6nt_mkv4_m3 SPT_MA1061.1_JASPAR oligos_6nt_mkv4_m3 SPT:MA1061.1:JASPAR 0.944 0.850 5.167 0.978 0.95043 10 9 9 10 0.9000 0.9000 1.0000 D 0 kaCACGTGt. csCACGTGc 83 26 132 53 58 70.4000 42
oligos_6nt_mkv4_m3 PHYPADRAFT_143875_MA0988.2_JASPAR oligos_6nt_mkv4_m3 PHYPADRAFT_143875:MA0988.2:JASPAR 0.993 0.596 5.048 0.996 0.97325 10 6 6 10 0.6000 0.6000 1.0000 D 2 ..CACGTG.. CACGTG 10 196 138 5 5 70.8000 43
oligos_6nt_mkv4_m3 ABI5_MA0931.1_JASPAR oligos_6nt_mkv4_m3 ABI5:MA0931.1:JASPAR 0.950 0.777 6.305 0.976 0.94796 10 10 9 11 0.8182 0.9000 0.9000 D -1 kaCACGTGt. .gmCACGTGk 77 62 90 61 67 71.4000 44
oligos_6nt_mkv4_m3 PHYPA_008731_MA2393.1_JASPAR oligos_6nt_mkv4_m3 PHYPA_008731:MA2393.1:JASPAR 0.967 0.677 7.329 0.975 0.94082 10 7 7 10 0.7000 0.7000 1.0000 D 2 ..CACGTGt. CACGTGc 41 135 24 86 71 71.4000 45
oligos_6nt_mkv4_m3 BIM3_MA0966.2_JASPAR oligos_6nt_mkv4_m3 BIM3:MA0966.2:JASPAR 0.993 0.596 4.864 0.996 0.97422 10 6 6 10 0.6000 0.6000 1.0000 D 2 ..CACGTG.. CACGTG 9 195 150 4 4 72.4000 46
oligos_6nt_mkv4_m3 SPT_M0162_1.02_CISBP oligos_6nt_mkv4_m3 SPT:M0162_1.02:CISBP 0.943 0.849 5.136 0.978 0.95000 10 9 9 10 0.9000 0.9000 1.0000 D 0 kaCACGTGt. csCACGTGc 89 28 134 55 59 73.0000 47
oligos_6nt_mkv4_m3 ABF1_M0257_1.02_CISBP oligos_6nt_mkv4_m3 ABF1:M0257_1.02:CISBP 0.946 0.860 3.632 0.981 0.95674 10 11 10 11 0.9091 1.0000 0.9091 D -1 kaCACGTGtm .rACACGTGkb 82 25 170 44 47 73.6000 48
oligos_6nt_mkv4_m3 At4g17880_MA0569.1_JASPAR oligos_6nt_mkv4_m3 At4g17880:MA0569.1:JASPAR 0.952 0.761 6.716 0.972 0.94044 10 8 8 10 0.8000 0.8000 1.0000 D 1 .aCACGTGt. rCACGTGC 70 81 64 87 84 77.2000 49
oligos_6nt_mkv4_m3 BZR1_EEAD0070_EEADannot oligos_6nt_mkv4_m3 BZR1:EEAD0070:EEADannot 0.922 0.922 7.130 0.960 0.93651 10 10 10 10 1.0000 1.0000 1.0000 R 0 kaCACGTGtm YRCACGTGYG 116 16 43 98 113 77.2000 50 
 Host name	rsat
 Job started	2026-04-09.113058
 Job done	2026-04-09.113213
 Seconds	14.25
	user	14.25
	system	7.38
	cuser	42.4
;	csystem	11.2