/home/rsat/rsat/public_html/tmp/wwwrun/2014/09/03/peak-motifs.2014-09-03.182940_2014-09-03.182940_LkVj4M/results/discovered_vs_db/peak-motifs_motifs_vs_db_Schmidt_CEBPa_motif.tab 
 compare-matrices  -v 1 -mode matches -format1 transfac -file1 $RSAT/public_html/tmp/wwwrun/2014/09/03/peak-motifs.2014-09-03.182940_2014-09-03.182940_LkVj4M/results/discovered_motifs/peak-motifs_motifs_discovered.tf -format2 tf -file2 $RSAT/public_html/tmp/wwwrun/2014/09/03/peak-motifs.2014-09-03.182940_2014-09-03.182940_LkVj4M/peak-motifs_custom_motif_db.tf -mode matches -DR -uth offset_rank 1 -lth w 5 -lth Wr 0.3 -lth cor 0.75 -lth Ncor 0.4 -return matrix_name,matrix_id,cor,Ncor,logoDP,NIcor,NsEucl,SSD,NSW,match_rank,width,strand,offset,consensus,alignments_1ton -sort Ncor -o $RSAT/public_html/tmp/wwwrun/2014/09/03/peak-motifs.2014-09-03.182940_2014-09-03.182940_LkVj4M/results/discovered_vs_db/peak-motifs_motifs_vs_db_Schmidt_CEBPa_motif.tab
 Program version       	1.118
 Input files
	file2 	$RSAT/public_html/tmp/wwwrun/2014/09/03/peak-motifs.2014-09-03.182940_2014-09-03.182940_LkVj4M/peak-motifs_custom_motif_db.tf
	file1 	$RSAT/public_html/tmp/wwwrun/2014/09/03/peak-motifs.2014-09-03.182940_2014-09-03.182940_LkVj4M/results/discovered_motifs/peak-motifs_motifs_discovered.tf
 Output files
	alignments_1ton	$RSAT/public_html/tmp/wwwrun/2014/09/03/peak-motifs.2014-09-03.182940_2014-09-03.182940_LkVj4M/results/discovered_vs_db/peak-motifs_motifs_vs_db_Schmidt_CEBPa_motif_alignments_1ton.tab
	match_table_txt	$RSAT/public_html/tmp/wwwrun/2014/09/03/peak-motifs.2014-09-03.182940_2014-09-03.182940_LkVj4M/results/discovered_vs_db/peak-motifs_motifs_vs_db_Schmidt_CEBPa_motif.tab
	html_index   	$RSAT/public_html/tmp/wwwrun/2014/09/03/peak-motifs.2014-09-03.182940_2014-09-03.182940_LkVj4M/results/discovered_vs_db/peak-motifs_motifs_vs_db_Schmidt_CEBPa_motif_index.html
	alignments_1ton_html	$RSAT/public_html/tmp/wwwrun/2014/09/03/peak-motifs.2014-09-03.182940_2014-09-03.182940_LkVj4M/results/discovered_vs_db/peak-motifs_motifs_vs_db_Schmidt_CEBPa_motif_alignments_1ton.html
	match_table_html	$RSAT/public_html/tmp/wwwrun/2014/09/03/peak-motifs.2014-09-03.182940_2014-09-03.182940_LkVj4M/results/discovered_vs_db/peak-motifs_motifs_vs_db_Schmidt_CEBPa_motif.html
	prefix       	$RSAT/public_html/tmp/wwwrun/2014/09/03/peak-motifs.2014-09-03.182940_2014-09-03.182940_LkVj4M/results/discovered_vs_db/peak-motifs_motifs_vs_db_Schmidt_CEBPa_motif
 Matrices
	file1	35 matrices	$RSAT/public_html/tmp/wwwrun/2014/09/03/peak-motifs.2014-09-03.182940_2014-09-03.182940_LkVj4M/results/discovered_motifs/peak-motifs_motifs_discovered.tf
		file1	1	15	3309	dkATTGTGCAATCwt
		file1	2	10	9696	waCAAAACww
		file1	3	10	8674	hyCTGCAGrd
		file1	4	13	1339	ttTTCTTTTCTtt
		file1	5	15	2715	atGATTGCACAACwy
		file1	6	15	893	wwAGATTGTGAAAtm
		file1	7	15	669	dkATTACGCAAGArw
		file1	8	13	344	rmAGTTGCAAAay
		file1	9	18	118	wsATGTTGCACAACAGtr
		file1	10	24	6	TtTTTTyTTTTTTwAArwAAATms
		file1	11	14	4521	wkATTGCACAAywh
		...	25 more matrices
	file2	1 matrices	$RSAT/public_html/tmp/wwwrun/2014/09/03/peak-motifs.2014-09-03.182940_2014-09-03.182940_LkVj4M/peak-motifs_custom_motif_db.tf
		file2		1		11		431		rTTGCacMAym
 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	NIcor        	Normalized Pearson correlation between the information content matrices. NIcor = Icor * Wr
	9	NSW          	Normalized Sandelin-Wasserman similarity. NSW = SW/w
	10	SSD          	sum of squared distance.
	11	NsEucl       	relative Euclidian similarity. NsEucl = (max(dEucl) - dEucl)/max(dEucl)
	12	w1           	Width of the first matrix
	13	w2           	Width of the second matrix
	14	w            	Alignment length (number of overlapping columns between matrix 1 and matrix 2, as a function of the offset)
	15	W            	Total alignment length (overlapping + non-overlapping columns). W = w1 + w2 - w
	16	Wr           	Relative alignment length (overlap divided by the total alignemnt length). Wr = w/W
	17	wr1          	Alignment length relative to the width of the first matrix. wr1 = w/w1
	18	wr2          	Alignment length relative to the width of the second matrix. wr2 = w/w2
	19	strand       	"strand", i.e. orientation of matrix 2 relative to matrix 1 (D=direct;  R=reverse)
	20	offset       	shift of the second matrix relative to the first matrix (negative:left; positive: right)
	21	consensus1   	IUPAC consensus of matrix 1 (dots represent non-aligned columns)
	22	consensus2   	IUPAC consensus of matrix 2 (dots represent non-aligned columns)
	23	rcor         	Matching rank for cor
	24	rNcor        	Matching rank for Ncor
	25	rlogoDP      	Matching rank for logoDP
	26	rNIcor       	Matching rank for NIcor
	27	rNsEucl      	Matching rank for NsEucl
	28	rSSD         	Matching rank for SSD
	29	rNSW         	Matching rank for NSW
	30	rank_mean    	Mean of the matching ranks on all selected metrics
	31	match_rank   	Rank of the match (sorting by rank_mean)
id1 id2 name1 name2 cor Ncor logoDP NIcor NSW SSD NsEucl w1 w2 w W Wr wr1 wr2 strand offset consensus1 consensus2 rcor rNcor rlogoDP rNIcor rNsEucl rSSD rNSW rank_mean match_rank
oligos_7nt_mkv5_m1 do560+do843_mmus_cebpa_liver_meme_top_m1 oligos_7nt_mkv5_m1 do560+do843_mmus_cebpa_liver_meme_top_m1 0.944 0.741 9.821 0.726 0.965 0.7757 0.94338 14 11 11 14 0.7857 0.7857 1.0000 D 2 ..ATTGCACAAyw. rTTGCacMAym 1 3 3 3 1 1 1 1.8571 1
oligos_6nt_mkv4_m5 do560+do843_mmus_cebpa_liver_meme_top_m1 oligos_6nt_mkv4_m5 do560+do843_mmus_cebpa_liver_meme_top_m1 0.926 0.679 9.366 0.663 0.956 0.9620 0.93695 15 11 11 15 0.7333 0.7333 1.0000 D 3 ...ATTGCACAACw. rTTGCacMAym 2 7 11 6 2 2 2 4.5714 2
oligos_8nt_mkv6_m1 do560+do843_mmus_cebpa_liver_meme_top_m1 oligos_8nt_mkv6_m1 do560+do843_mmus_cebpa_liver_meme_top_m1 0.919 0.674 9.466 0.657 0.953 1.0418 0.93439 15 11 11 15 0.7333 0.7333 1.0000 D 3 ...GTTGCACAATa. rTTGCacMAym 4 10 9 8 4 4 4 6.1429 3
positions_8nt_m3 do560+do843_mmus_cebpa_liver_meme_top_m1 positions_8nt_m3 do560+do843_mmus_cebpa_liver_meme_top_m1 0.866 0.680 9.744 0.677 0.928 1.5817 0.91916 14 11 11 14 0.7857 0.7857 1.0000 D 2 ..ATTGCCCAATa. rTTGCacMAym 9 6 5 5 7 7 7 6.5714 4
oligos_8nt_mkv6_m5 do560+do843_mmus_cebpa_liver_meme_top_m1 oligos_8nt_mkv6_m5 do560+do843_mmus_cebpa_liver_meme_top_m1 0.848 0.777 9.811 0.775 0.923 1.6863 0.91652 12 11 11 12 0.9167 0.9167 1.0000 D 1 .aTTGCCCAAya rTTGCacMAym 13 1 4 1 10 10 10 7.0000 5
positions_8nt_m4 do560+do843_mmus_cebpa_liver_meme_top_m1 positions_8nt_m4 do560+do843_mmus_cebpa_liver_meme_top_m1 0.889 0.576 9.855 0.555 0.929 1.5614 0.91967 17 11 11 17 0.6471 0.6471 1.0000 D 4 ....GTTGCACAAyA.. rTTGCacMAym 5 16 1 10 6 6 6 7.1429 6
oligos_7nt_mkv5_m5 do560+do843_mmus_cebpa_liver_meme_top_m1 oligos_7nt_mkv5_m5 do560+do843_mmus_cebpa_liver_meme_top_m1 0.847 0.776 9.834 0.772 0.921 1.7325 0.91539 12 11 11 12 0.9167 0.9167 1.0000 D 1 .rTTGCTCAAya rTTGCacMAym 14 2 2 2 11 11 11 7.5714 7
oligos_6nt_mkv4_m1 do560+do843_mmus_cebpa_liver_meme_top_m1 oligos_6nt_mkv4_m1 do560+do843_mmus_cebpa_liver_meme_top_m1 0.923 0.677 4.072 0.076 0.954 1.0160 0.93520 15 11 11 15 0.7333 0.7333 1.0000 R 1 .kATTGTGCAAT... KRTKGTGCAAY 3 9 23 24 3 3 3 9.7143 8
oligos_8nt_mkv6_m3 do560+do843_mmus_cebpa_liver_meme_top_m1 oligos_8nt_mkv6_m3 do560+do843_mmus_cebpa_liver_meme_top_m1 0.881 0.692 4.135 0.136 0.937 1.3784 0.92453 14 11 11 14 0.7857 0.7857 1.0000 R 1 .tATTGAGCAAT.. KRTKGTGCAAY 6 5 21 21 5 5 5 9.7143 9
positions_8nt_m1 do560+do843_mmus_cebpa_liver_meme_top_m1 positions_8nt_m1 do560+do843_mmus_cebpa_liver_meme_top_m1 0.862 0.593 8.897 0.572 0.925 1.6509 0.91740 16 11 11 16 0.6875 0.6875 1.0000 D 4 ....ATTGCAAAACw. rTTGCacMAym 11 13 12 9 8 8 8 9.8571 10
positions_7nt_m2 do560+do843_mmus_cebpa_liver_meme_top_m1 positions_7nt_m2 do560+do843_mmus_cebpa_liver_meme_top_m1 0.869 0.563 9.570 0.543 0.917 1.8186 0.91331 17 11 11 17 0.6471 0.6471 1.0000 D 4 ....ATTGCACAACT.. rTTGCacMAym 8 19 6 12 12 12 12 11.5714 11
positions_7nt_m5 do560+do843_mmus_cebpa_liver_meme_top_m1 positions_7nt_m5 do560+do843_mmus_cebpa_liver_meme_top_m1 0.863 0.558 9.473 0.537 0.913 1.9164 0.91101 17 11 11 17 0.6471 0.6471 1.0000 D 4 ....ATTGCACAACT.. rTTGCacMAym 10 21 8 14 13 13 13 13.1429 12
positions_8nt_m2 do560+do843_mmus_cebpa_liver_meme_top_m1 positions_8nt_m2 do560+do843_mmus_cebpa_liver_meme_top_m1 0.872 0.599 4.112 0.066 0.923 1.6831 0.91660 16 11 11 16 0.6875 0.6875 1.0000 R 3 ...GATTGTGCAAg.. KRTKGTGCAAY 7 12 22 25 9 9 9 13.2857 13
oligos_7nt_mkv5_m3 do560+do843_mmus_cebpa_liver_meme_top_m1 oligos_7nt_mkv5_m3 do560+do843_mmus_cebpa_liver_meme_top_m1 0.795 0.729 8.894 0.708 0.898 2.2441 0.90370 12 11 11 12 0.9167 0.9167 1.0000 D 1 .rTTACACAAya rTTGCacMAym 19 4 13 4 18 19 18 13.5714 14
oligos_8nt_mkv6_m4 do560+do843_mmus_cebpa_liver_meme_top_m1 oligos_8nt_mkv6_m4 do560+do843_mmus_cebpa_liver_meme_top_m1 0.800 0.677 8.714 0.660 0.902 2.1552 0.90563 13 11 11 13 0.8462 0.8462 1.0000 D 1 .rTTACACAATa. rTTGCacMAym 17 8 14 7 17 18 17 14.0000 15
positions_7nt_m4 do560+do843_mmus_cebpa_liver_meme_top_m1 positions_7nt_m4 do560+do843_mmus_cebpa_liver_meme_top_m1 0.834 0.540 9.481 0.527 0.903 2.1409 0.90594 17 11 11 17 0.6471 0.6471 1.0000 D 4 ....CTTGCACAACT.. rTTGCacMAym 15 22 7 15 16 17 16 15.4286 16
positions_6nt_m4 do560+do843_mmus_cebpa_liver_meme_top_m1 positions_6nt_m4 do560+do843_mmus_cebpa_liver_meme_top_m1 0.855 0.522 9.394 0.500 0.908 2.0199 0.90864 18 11 11 18 0.6111 0.6111 1.0000 D 4 ....GTTGCACAACA... rTTGCacMAym 12 24 10 17 15 15 15 15.4286 17
oligos_8nt_mkv6_m2 do560+do843_mmus_cebpa_liver_meme_top_m1 oligos_8nt_mkv6_m2 do560+do843_mmus_cebpa_liver_meme_top_m1 0.820 0.644 4.004 0.138 0.908 2.0154 0.90874 14 11 11 14 0.7857 0.7857 1.0000 R 1 .kATTGTGAAAT.. KRTKGTGCAAY 16 11 24 20 14 14 14 16.1429 18
positions_7nt_m1 do560+do843_mmus_cebpa_liver_meme_top_m1 positions_7nt_m1 do560+do843_mmus_cebpa_liver_meme_top_m1 0.796 0.583 8.448 0.547 0.886 2.4972 0.89842 15 11 11 15 0.7333 0.7333 1.0000 D 2 ..ATTTCACAATC.. rTTGCacMAym 18 14 15 11 20 22 20 17.1429 19
dyads_m3 do560+do843_mmus_cebpa_liver_meme_top_m1 dyads_m3 do560+do843_mmus_cebpa_liver_meme_top_m1 0.763 0.572 7.208 0.538 0.883 2.1056 0.88599 10 11 9 12 0.7500 0.9000 0.8182 D 1 .dTTGCAAhw rTTGCacMA.. 25 17 18 13 25 16 23 19.5714 20
positions_6nt_m1 do560+do843_mmus_cebpa_liver_meme_top_m1 positions_6nt_m1 do560+do843_mmus_cebpa_liver_meme_top_m1 0.795 0.583 3.785 0.125 0.893 2.3631 0.90118 15 11 11 15 0.7333 0.7333 1.0000 R 3 ...GATTGTGAAAt. KRTKGTGCAAY 20 15 25 22 19 20 19 20.0000 21
positions_6nt_m3 do560+do843_mmus_cebpa_liver_meme_top_m1 positions_6nt_m3 do560+do843_mmus_cebpa_liver_meme_top_m1 0.782 0.558 8.249 0.522 0.878 2.4332 0.88970 13 11 10 14 0.7143 0.7692 0.9091 D 3 ...GTTGCAAAay rTTGCacMAy. 21 20 16 16 24 21 25 20.4286 22
positions_6nt_m2 do560+do843_mmus_cebpa_liver_meme_top_m1 positions_6nt_m2 do560+do843_mmus_cebpa_liver_meme_top_m1 0.768 0.563 4.172 0.096 0.886 2.4974 0.89841 15 11 11 15 0.7333 0.7333 1.0000 R 1 .kATTACGCAAG... KRTKGTGCAAY 23 18 20 23 21 23 21 21.2857 23
positions_8nt_m5 do560+do843_mmus_cebpa_liver_meme_top_m1 positions_8nt_m5 do560+do843_mmus_cebpa_liver_meme_top_m1 0.782 0.506 4.619 0.152 0.884 2.5542 0.89726 17 11 11 17 0.6471 0.6471 1.0000 R 1 .wATGTTGCAAT..... KRTKGTGCAAY 22 25 19 19 22 24 22 21.8571 24
positions_7nt_m3 do560+do843_mmus_cebpa_liver_meme_top_m1 positions_7nt_m3 do560+do843_mmus_cebpa_liver_meme_top_m1 0.763 0.525 8.143 0.491 0.879 2.6597 0.89517 16 11 11 16 0.6875 0.6875 1.0000 D 4 ....ATTGCGAAATr. rTTGCacMAym 24 23 17 18 23 25 24 22.0000 25 
 Host name	rsat
 Job started	2014-09-03.190633
 Job done	2014-09-03.190645
 Seconds	1.18
	user	1.18
	system	0.18
	cuser	9.62
;	csystem	0.49