/var/www/html/rsat/public_html/tmp/www-data/2026/05/16/compare-matrices_2026-05-16.152607_AFb8WK/compare-matrices.tab 
 compare-matrices  -v 1 -format1 transfac -file1 $RSAT/public_html/tmp/www-data/2026/05/16/compare-matrices_2026-05-16.152607_AFb8WK/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/2026/05/16/compare-matrices_2026-05-16.152607_AFb8WK/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/2026/05/16/compare-matrices_2026-05-16.152607_AFb8WK/compare-matrices_query_matrices.transfac
 Output files
	alignments_1ton_html	$RSAT/public_html/tmp/www-data/2026/05/16/compare-matrices_2026-05-16.152607_AFb8WK/compare-matrices_alignments_1ton.html
	match_table_html	$RSAT/public_html/tmp/www-data/2026/05/16/compare-matrices_2026-05-16.152607_AFb8WK/compare-matrices.html
	html_index   	$RSAT/public_html/tmp/www-data/2026/05/16/compare-matrices_2026-05-16.152607_AFb8WK/compare-matrices_index.html
	prefix       	$RSAT/public_html/tmp/www-data/2026/05/16/compare-matrices_2026-05-16.152607_AFb8WK/compare-matrices
	match_table_txt	$RSAT/public_html/tmp/www-data/2026/05/16/compare-matrices_2026-05-16.152607_AFb8WK/compare-matrices.tab
	alignments_1ton	$RSAT/public_html/tmp/www-data/2026/05/16/compare-matrices_2026-05-16.152607_AFb8WK/compare-matrices_alignments_1ton.tab
 Matrices
	file1	8 matrices	$RSAT/public_html/tmp/www-data/2026/05/16/compare-matrices_2026-05-16.152607_AFb8WK/compare-matrices_query_matrices.transfac
		file1	1	14	2772	wwTTTATATAAAww
		file1	2	13	190	wwwCAACGTGAww
		file1	3	10	220	wwCAACTAww
		file1	4	10	869	wwAATAATww
		file1	5	10	248	wmAAAGACww
		file1	6	10	69	awAGCGAAww
		file1	7	10	132	waACATGGww
		file1	8	11	1027	wwACACACAwa
	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
1_m6_assembly_6 ATHB13_MA1212.1_JASPAR assembly_6 ATHB13:MA1212.1:JASPAR 0.927 0.843 10.536 0.965 0.94123 10 11 10 11 0.9091 1.0000 0.9091 D 0 wwAATAATww tyAATAATTr. 8 3 10 4 5 6.0000 1
1_m6_assembly_6 HAT5.DAP_M0442_AthalianaCistrome assembly_6 HAT5.DAP:M0442:AthalianaCistrome 0.920 0.836 11.246 0.960 0.93650 10 11 10 11 0.9091 1.0000 0.9091 D 0 wwAATAATww wyAATAATTr. 13 6 1 8 12 8.0000 2
1_m6_assembly_6 HB22_B73_1_m1_EEAD0403_EEADannot assembly_6 HB22_B73_1_m1:EEAD0403:EEADannot 0.923 0.839 10.094 0.964 0.94036 10 11 10 11 0.9091 1.0000 0.9091 D 0 wwAATAATww hyAATAATka. 9 4 15 6 7 8.2000 3
1_m6_assembly_6 ATHB-13_MA1212.2_JASPAR assembly_6 ATHB-13:MA1212.2:JASPAR 0.940 0.752 10.532 0.965 0.93367 10 8 8 10 0.8000 0.8000 1.0000 D 1 .wAATAATw. yAATAATT 5 29 11 9 6 12.0000 4
1_m6_assembly_6 HB102_B73_1_m1_EEAD0393_EEADannot assembly_6 HB102_B73_1_m1:EEAD0393:EEADannot 0.938 0.767 9.898 0.969 0.94097 10 10 9 11 0.8182 0.9000 0.9000 D 1 .wAATAATww yAATAATka. 6 24 23 5 3 12.2000 5
1_m6_assembly_6 LOC_Os10g26500.1_HOMEOBOX_1_AT1G69780_EEAD0639_EEADannot assembly_6 LOC_Os10g26500.1_HOMEOBOX_1_AT1G69780:EEAD0639:EEADannot 0.902 0.820 10.573 0.952 0.93075 10 11 10 11 0.9091 1.0000 0.9091 D 0 wwAATAATww tyAATAATTr. 18 8 9 12 16 12.6000 6
1_m6_assembly_6 ATHB20_MA1209.1_JASPAR assembly_6 ATHB20:MA1209.1:JASPAR 0.898 0.816 11.185 0.947 0.92733 10 11 10 11 0.9091 1.0000 0.9091 D 0 wwAATAATww hyAATAATTr. 20 10 4 15 23 14.4000 7
1_m6_assembly_6 Zm00001d005692_MA1824.1_JASPAR assembly_6 Zm00001d005692:MA1824.1:JASPAR 0.951 0.792 8.944 0.977 0.95244 10 12 10 12 0.8333 1.0000 0.8333 D -1 wwAATAATww .mcAATAATtr. 2 15 53 1 2 14.6000 8
1_m6_assembly_6 ATHB13.ampDAP_M0439_AthalianaCistrome assembly_6 ATHB13.ampDAP:M0439:AthalianaCistrome 0.895 0.814 10.936 0.947 0.92745 10 11 10 11 0.9091 1.0000 0.9091 D 0 wwAATAATww tyAATAATTr. 24 11 8 14 22 15.8000 9
1_m6_assembly_6 Zm00001d005692_MA1824.2_JASPAR assembly_6 Zm00001d005692:MA1824.2:JASPAR 0.960 0.768 8.944 0.977 0.94684 10 8 8 10 0.8000 0.8000 1.0000 D 1 .wAATAATw. cAATAATt 1 23 54 2 1 16.2000 10
1_m6_assembly_6 Solyc05g007180.3.1_HOMEOBOX_1_AT1G69780_EEAD0650_EEADannot assembly_6 Solyc05g007180.3.1_HOMEOBOX_1_AT1G69780:EEAD0650:EEADannot 0.934 0.849 8.595 0.968 0.94300 10 11 10 11 0.9091 1.0000 0.9091 R 0 wwAATAATww WYAATAATTR. 7 2 67 3 4 16.6000 11
1_m6_assembly_6 ATHB-20_MA1209.2_JASPAR assembly_6 ATHB-20:MA1209.2:JASPAR 0.921 0.737 11.177 0.950 0.92063 10 8 8 10 0.8000 0.8000 1.0000 D 1 .wAATAATw. yAATAATT 11 39 5 23 17 19.0000 12
1_m6_assembly_6 ATHB5.DAP_M0410_AthalianaCistrome assembly_6 ATHB5.DAP:M0410:AthalianaCistrome 0.883 0.803 10.174 0.945 0.92577 10 11 10 11 0.9091 1.0000 0.9091 D 0 wwAATAATww yyAATmATTr. 39 12 13 17 24 21.0000 13
1_m6_assembly_6 ATHB53_MA1215.1_JASPAR assembly_6 ATHB53:MA1215.1:JASPAR 0.879 0.799 11.121 0.937 0.92092 10 11 10 11 0.9091 1.0000 0.9091 D 0 wwAATAATww mcAATAATTg. 42 14 6 22 37 24.2000 14
1_m6_assembly_6 ATHB-53_MA1215.2_JASPAR assembly_6 ATHB-53:MA1215.2:JASPAR 0.888 0.799 11.118 0.936 0.91582 10 9 9 10 0.9000 0.9000 1.0000 D 1 .wAATAATww cAATAATTg 32 13 7 33 40 25.0000 15
1_m4_assembly_4 MYB23_MA1767.1_JASPAR assembly_4 MYB23:MA1767.1:JASPAR 0.897 0.673 9.852 0.950 0.92515 10 11 9 12 0.7500 0.9000 0.8182 D 1 .wCAACTAww yCAACwAmm.. 21 73 24 18 18 30.8000 16
1_m6_assembly_6 ATHB-16_MA0951.1_JASPAR assembly_6 ATHB-16:MA0951.1:JASPAR 0.895 0.716 9.971 0.939 0.91250 10 8 8 10 0.8000 0.8000 1.0000 D 1 .wAATAATw. TAATmATT 25 50 20 40 34 33.8000 17
1_m6_assembly_6 ATHB16_M0854_1.02_CISBP assembly_6 ATHB16:M0854_1.02:CISBP 0.895 0.716 9.965 0.939 0.91255 10 8 8 10 0.8000 0.8000 1.0000 D 1 .wAATAATw. TAATmATT 26 51 21 39 33 34.0000 18
1_m6_assembly_6 ATHB20.ampDAP_M0431_AthalianaCistrome assembly_6 ATHB20.ampDAP:M0431:AthalianaCistrome 0.866 0.787 9.109 0.934 0.91870 10 11 10 11 0.9091 1.0000 0.9091 R 0 wwAATAATww YYAATMATTR. 50 18 41 28 42 35.8000 19
1_m6_assembly_6 ATHB6.ampDAP_M0440_AthalianaCistrome assembly_6 ATHB6.ampDAP:M0440:AthalianaCistrome 0.856 0.778 10.499 0.928 0.91490 10 11 10 11 0.9091 1.0000 0.9091 D 0 wwAATAATww tCAATAATTg. 60 20 12 34 54 36.0000 20
1_m6_assembly_6 XP_013609718.1_HOMEOBOX_1_AT2G18550_EEAD0673_EEADannot assembly_6 XP_013609718.1_HOMEOBOX_1_AT2G18550:EEAD0673:EEADannot 0.854 0.777 11.230 0.922 0.91146 10 11 10 11 0.9091 1.0000 0.9091 D 0 wwAATAATww hCAATAATTG. 62 22 2 45 61 38.4000 21
1_m6_assembly_6 HAT5.ampDAP_M0441_AthalianaCistrome assembly_6 HAT5.ampDAP:M0441:AthalianaCistrome 0.887 0.634 11.188 0.942 0.92389 10 14 10 14 0.7143 1.0000 0.7143 D -1 wwAATAATww .wcAATAATTg... 33 115 3 20 27 39.6000 22
1_m6_assembly_6 HB54_Mo17_1_EEAD0406_EEADannot assembly_6 HB54_Mo17_1:EEAD0406:EEADannot 0.887 0.710 9.096 0.938 0.91185 10 8 8 10 0.8000 0.8000 1.0000 D 1 .wAATAATw. CAATrATk 34 54 42 44 36 42.0000 23
1_m6_assembly_6 ATHB1_ATHB1_Athamap assembly_6 ATHB1:ATHB1:Athamap 0.863 0.777 9.075 0.924 0.90806 10 9 9 10 0.9000 0.9000 1.0000 R 1 .wAATAATww CAATAATTG 51 21 44 58 58 46.4000 24
1_m6_assembly_6 HB21_EEAD0060_EEADannot assembly_6 HB21:EEAD0060:EEADannot 0.852 0.766 10.039 0.916 0.90320 10 9 9 10 0.9000 0.9000 1.0000 R 1 .wAATAATww YAATWATTR 64 25 19 77 77 52.4000 25
1_m6_assembly_6 YAB1_UN0415.1_JASPAR assembly_6 YAB1:UN0415.1:JASPAR 0.893 0.714 7.283 0.941 0.91418 10 8 8 10 0.8000 0.8000 1.0000 D 2 ..AATAATww AATaATwA 28 52 117 36 29 52.4000 26
1_m6_assembly_6 LMI1.DAP_M0413_AthalianaCistrome assembly_6 LMI1.DAP:M0413:AthalianaCistrome 0.871 0.670 8.526 0.933 0.91834 10 13 10 13 0.7692 1.0000 0.7692 R -1 wwAATAATww .HCAATAATTG.. 47 78 68 29 43 53.0000 27
1_m6_assembly_6 HB22_Mo17_1_EEAD0404_EEADannot assembly_6 HB22_Mo17_1:EEAD0404:EEADannot 0.889 0.592 9.580 0.948 0.92819 10 15 10 15 0.6667 1.0000 0.6667 D -3 wwAATAATww ...mCAATaATTv.. 31 174 31 13 20 53.8000 28
1_m6_assembly_6 ATHB51_ATHB51_ArabidopsisPBM assembly_6 ATHB51:ATHB51:ArabidopsisPBM 0.859 0.859 5.747 0.935 0.91934 10 10 10 10 1.0000 1.0000 1.0000 R 0 wwAATAATww KCAATWATKR 56 1 166 26 41 58.0000 29
1_m6_assembly_6 ATHB-6_MA0953.1_JASPAR assembly_6 ATHB-6:MA0953.1:JASPAR 0.879 0.791 5.234 0.937 0.91655 10 9 9 10 0.9000 0.9000 1.0000 D 0 wwAATAATw. bcAATmATk 41 16 178 31 38 60.8000 30
1_m6_assembly_6 ATHB6_M0843_1.02_CISBP assembly_6 ATHB6:M0843_1.02:CISBP 0.878 0.790 5.192 0.937 0.91616 10 9 9 10 0.9000 0.9000 1.0000 D 0 wwAATAATw. byAATmATk 44 17 181 32 39 62.6000 31
1_m6_assembly_6 ATHB40.ampDAP_M0409_AthalianaCistrome assembly_6 ATHB40.ampDAP:M0409:AthalianaCistrome 0.846 0.604 9.843 0.927 0.91435 10 14 10 14 0.7143 1.0000 0.7143 D -3 wwAATAATww ...yCAATwATTd. 69 155 26 35 55 68.0000 32
1_m6_assembly_6 ZHD3_MA1213.3_JASPAR assembly_6 ZHD3:MA1213.3:JASPAR 0.841 0.757 9.005 0.911 0.90061 10 9 9 10 0.9000 0.9000 1.0000 R 1 .wAATAATww CAATAATTG 72 28 52 97 93 68.4000 33
1_m6_assembly_6 ZHD3_MA1213.2_JASPAR assembly_6 ZHD3:MA1213.2:JASPAR 0.839 0.646 9.007 0.918 0.90966 10 13 10 13 0.7692 1.0000 0.7692 R -1 wwAATAATww .HCAATAATTG.. 74 99 51 51 70 69.0000 34
1_m6_assembly_6 ATHB18_MA1211.1_JASPAR assembly_6 ATHB18:MA1211.1:JASPAR 0.813 0.739 9.552 0.910 0.90522 10 11 10 11 0.9091 1.0000 0.9091 R 0 wwAATAATww MYAATRATTR. 113 37 32 72 97 70.2000 35
1_m6_assembly_6 ATHB-40_MA1214.2_JASPAR assembly_6 ATHB-40:MA1214.2:JASPAR 0.814 0.740 10.124 0.906 0.90297 10 11 10 11 0.9091 1.0000 0.9091 D -1 wwAATAATww .cCAATwATTg 109 35 14 81 113 70.4000 36
1_m6_assembly_6 ATHB5.ampDAP_M0412_AthalianaCistrome assembly_6 ATHB5.ampDAP:M0412:AthalianaCistrome 0.832 0.832 5.953 0.920 0.91083 10 10 10 10 1.0000 1.0000 1.0000 R 0 wwAATAATww YYAATMATTG 85 7 154 46 64 71.2000 37
1_m6_assembly_6 ATHB-51_MA0952.1_JASPAR assembly_6 ATHB-51:MA0952.1:JASPAR 0.877 0.702 5.752 0.930 0.90665 10 8 8 10 0.8000 0.8000 1.0000 R 1 .wAATAATw. CAATWATK 45 59 164 62 46 75.2000 38
1_m4_assembly_4 MYB23_MA1767.2_JASPAR assembly_4 MYB23:MA1767.2:JASPAR 0.918 0.551 9.849 0.941 0.90096 10 6 6 10 0.6000 0.6000 1.0000 D 2 ..CAACTA.. CAACwA 14 229 25 95 28 78.2000 39
1_m4_assembly_4 MYB60_MA1774.2_JASPAR assembly_4 MYB60:MA1774.2:JASPAR 0.827 0.676 8.698 0.913 0.90195 10 10 9 11 0.8182 0.9000 0.9000 D 1 .wCAACTAww yCAACyACy. 91 70 63 86 81 78.2000 40
1_m6_assembly_6 Solyc02g085630.3.1_HOMEOBOX_1_AT2G18550_EEAD0645_EEADannot assembly_6 Solyc02g085630.3.1_HOMEOBOX_1_AT2G18550:EEAD0645:EEADannot 0.901 0.819 0.520 0.952 0.93093 10 11 10 11 0.9091 1.0000 0.9091 R -1 wwAATAATww .HMAATAATTR 19 9 347 11 15 80.2000 41
1_m6_assembly_6 Medtr8g106590.1_M0145_1.02_CISBP assembly_6 Medtr8g106590.1:M0145_1.02:CISBP 0.867 0.694 5.617 0.929 0.90561 10 8 8 10 0.8000 0.8000 1.0000 D 0 wwAATAAT.. AAAWTAAT 49 64 169 69 51 80.4000 42
1_m6_assembly_6 HAT5_MA0008.1_JASPAR assembly_6 HAT5:MA0008.1:JASPAR 0.923 0.738 1.109 0.956 0.92606 10 8 8 10 0.8000 0.8000 1.0000 R 2 ..AATAATww AATAATTG 10 38 327 16 13 80.8000 43
1_m6_assembly_6 Carub.0002s1646.1_HOMEOBOX_1_AT1G69780_EEAD0603_EEADannot assembly_6 Carub.0002s1646.1_HOMEOBOX_1_AT1G69780:EEAD0603:EEADannot 0.921 0.837 0.262 0.961 0.93782 10 11 10 11 0.9091 1.0000 0.9091 R -1 wwAATAATww .WYAATAATTR 12 5 378 7 10 82.4000 44
1_m6_assembly_6 AL2G28980.t1_HOMEOBOX_1_AT1G69780_EEAD0582_EEADannot assembly_6 AL2G28980.t1_HOMEOBOX_1_AT1G69780:EEAD0582:EEADannot 0.835 0.627 9.673 0.912 0.90100 10 11 9 12 0.7500 0.9000 0.8182 D -2 wwAATAATw. ..TCAATwATT 79 126 29 94 90 83.6000 45
1_m6_assembly_6 ATHB-X_MA1211.2_JASPAR assembly_6 ATHB-X:MA1211.2:JASPAR 0.818 0.736 9.551 0.904 0.89666 10 9 9 10 0.9000 0.9000 1.0000 R 1 .wAATAATww YAATRATTR 104 40 33 120 123 84.0000 46
1_m6_assembly_6 HB102_Mo17_1_EEAD0394_EEADannot assembly_6 HB102_Mo17_1:EEAD0394:EEADannot 0.902 0.602 4.276 0.954 0.93211 10 15 10 15 0.6667 1.0000 0.6667 R -4 wwAATAATww ....HYAATAATTR. 17 158 223 10 14 84.4000 47
1_m4_assembly_4 MYB94_MA1781.2_JASPAR assembly_4 MYB94:MA1781.2:JASPAR 0.821 0.672 8.326 0.911 0.90071 10 10 9 11 0.8182 0.9000 0.9000 D 1 .wCAACTAww yCAACyACy. 99 76 73 96 91 87.0000 48
1_m6_assembly_6 XP_013589953.1_HOMEOBOX_1_AT1G69780_EEAD0666_EEADannot assembly_6 XP_013589953.1_HOMEOBOX_1_AT1G69780:EEAD0666:EEADannot 0.862 0.647 4.995 0.928 0.91051 10 11 9 12 0.7500 0.9000 0.8182 R -2 wwAATAATw. ..TYAATWATT 53 98 188 47 53 87.8000 49
1_m7_assembly_7 SGR5_MA1159.2_JASPAR assembly_7 SGR5:MA1159.2:JASPAR 0.825 0.635 7.687 0.913 0.90680 10 13 10 13 0.7692 1.0000 0.7692 D -1 wmAAAGACww .aAwAAGACAA.. 94 112 97 59 83 89.0000 50 
 Host name	rsat
 Job started	2026-05-16.152607
 Job done	2026-05-16.152911
 Seconds	66.3
	user	66.3
	system	27.28
	cuser	59.88
;	csystem	30.95