compare-matrices -v 1 -mode matches -format1 transfac -file1 $RSAT/public_html/tmp/www-data/2026/04/21/peak-motifs.2026-04-21.014834_2026-04-21.014834_X2uSrl/results/discovered_motifs/oligos_7nt_mkv2_m1/peak-motifs_oligos_7nt_mkv2_m1.tf -format2 tf -file2 $RSAT/public_html/motif_databases/cisBP2/cisBP_Caenorhabditis_elegans_2019.tf -mode matches -strand DR -uth offset_rank 1 -lth w 5 -lth Wr 0.3 -lth cor 0.7 -lth Ncor 0.4 -return matrix_name,matrix_id,cor,Ncor,width,strand,offset,alignments_1ton -sort Ncor -quick -o $RSAT/public_html/tmp/www-data/2026/04/21/peak-motifs.2026-04-21.014834_2026-04-21.014834_X2uSrl/results/discovered_motifs/oligos_7nt_mkv2_m1/peak-motifs_oligos_7nt_mkv2_m1_vs_db_cisBP_Caenorhabditis_elegans Program version 1.118 Quick mode Input files file2 $RSAT/public_html/motif_databases/cisBP2/cisBP_Caenorhabditis_elegans_2019.tf file1 $RSAT/public_html/tmp/www-data/2026/04/21/peak-motifs.2026-04-21.014834_2026-04-21.014834_X2uSrl/results/discovered_motifs/oligos_7nt_mkv2_m1/peak-motifs_oligos_7nt_mkv2_m1.tf Output files alignments_1ton $RSAT/public_html/tmp/www-data/2026/04/21/peak-motifs.2026-04-21.014834_2026-04-21.014834_X2uSrl/results/discovered_motifs/oligos_7nt_mkv2_m1/peak-motifs_oligos_7nt_mkv2_m1_vs_db_cisBP_Caenorhabditis_elegans_alignments_1ton.tab match_table_txt $RSAT/public_html/tmp/www-data/2026/04/21/peak-motifs.2026-04-21.014834_2026-04-21.014834_X2uSrl/results/discovered_motifs/oligos_7nt_mkv2_m1/peak-motifs_oligos_7nt_mkv2_m1_vs_db_cisBP_Caenorhabditis_elegans.tab alignments_1ton_html $RSAT/public_html/tmp/www-data/2026/04/21/peak-motifs.2026-04-21.014834_2026-04-21.014834_X2uSrl/results/discovered_motifs/oligos_7nt_mkv2_m1/peak-motifs_oligos_7nt_mkv2_m1_vs_db_cisBP_Caenorhabditis_elegans_alignments_1ton.html html_index $RSAT/public_html/tmp/www-data/2026/04/21/peak-motifs.2026-04-21.014834_2026-04-21.014834_X2uSrl/results/discovered_motifs/oligos_7nt_mkv2_m1/peak-motifs_oligos_7nt_mkv2_m1_vs_db_cisBP_Caenorhabditis_elegans_index.html match_table_html $RSAT/public_html/tmp/www-data/2026/04/21/peak-motifs.2026-04-21.014834_2026-04-21.014834_X2uSrl/results/discovered_motifs/oligos_7nt_mkv2_m1/peak-motifs_oligos_7nt_mkv2_m1_vs_db_cisBP_Caenorhabditis_elegans.html prefix $RSAT/public_html/tmp/www-data/2026/04/21/peak-motifs.2026-04-21.014834_2026-04-21.014834_X2uSrl/results/discovered_motifs/oligos_7nt_mkv2_m1/peak-motifs_oligos_7nt_mkv2_m1_vs_db_cisBP_Caenorhabditis_elegans Matrices file1 1 matrices $RSAT/public_html/tmp/www-data/2026/04/21/peak-motifs.2026-04-21.014834_2026-04-21.014834_X2uSrl/results/discovered_motifs/oligos_7nt_mkv2_m1/peak-motifs_oligos_7nt_mkv2_m1.tf file1 1 11 173 file2 3438 matrices $RSAT/public_html/motif_databases/cisBP2/cisBP_Caenorhabditis_elegans_2019.tf file2 1 7 100.0001 file2 2 8 100.00002892 file2 3 11 100.00004702 file2 4 9 100 file2 5 10 100.0001 file2 6 10 100.0001 file2 7 13 100.0001 file2 8 10 100.0001 file2 9 10 100.0001 file2 10 10 100.0001 file2 11 10 100.0001 ... 3428 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 w1 Width of the first matrix 8 w2 Width of the second matrix 9 w Alignment length (number of overlapping columns between matrix 1 and matrix 2, as a function of the offset) 10 W Total alignment length (overlapping + non-overlapping columns). W = w1 + w2 - w 11 Wr Relative alignment length (overlap divided by the total alignemnt length). Wr = w/W 12 wr1 Alignment length relative to the width of the first matrix. wr1 = w/w1 13 wr2 Alignment length relative to the width of the second matrix. wr2 = w/w2 14 strand "strand", i.e. orientation of matrix 2 relative to matrix 1 (D=direct; R=reverse) 15 offset shift of the second matrix relative to the first matrix (negative:left; positive: right)
| id1 | id2 | name1 | name2 | cor | Ncor | w1 | w2 | w | W | Wr | wr1 | wr2 | strand | offset |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| oligos_7nt_mkv2_m1 | M00651_2.00 | oligos_7nt_mkv2_m1 | mex-6 | 0.734 | 0.667 | 11 | 10 | 10 | 11 | 0.9091 | 0.9091 | 1.0000 | R | 0 |
| oligos_7nt_mkv2_m1 | M06329_2.00 | oligos_7nt_mkv2_m1 | alr-1,ceh-1,ceh-12,ceh-13,ceh-16,ceh-17,ceh-2,ceh-43,ceh-7,ceh-8,ceh-9,mls-2,tab-1,unc-4,unc-42,vab-15 | 0.716 | 0.477 | 11 | 9 | 8 | 12 | 0.6667 | 0.7273 | 0.8889 | D | 3 |
| oligos_7nt_mkv2_m1 | M02745_2.00 | oligos_7nt_mkv2_m1 | mef-2 | 0.871 | 0.464 | 11 | 12 | 8 | 15 | 0.5333 | 0.7273 | 0.6667 | D | 3 |
| oligos_7nt_mkv2_m1 | M00282_2.00 | oligos_7nt_mkv2_m1 | alr-1,ceh-1,ceh-10,ceh-12,ceh-14,ceh-16,ceh-17,ceh-2,ceh-43,ceh-8,dsc-1,lim-6,lin-11,mec-3,tab-1,ttx-3,unc-4,unc-42,vab-15 | 0.729 | 0.425 | 11 | 8 | 7 | 12 | 0.5833 | 0.6364 | 0.8750 | R | 4 |
| oligos_7nt_mkv2_m1 | M06350_2.00 | oligos_7nt_mkv2_m1 | alr-1,ceh-1,ceh-10,ceh-12,ceh-14,ceh-16,ceh-17,ceh-2,ceh-8,dsc-1,lim-6,lin-11,mec-3,tab-1,ttx-3,unc-4,unc-42,vab-15 | 0.704 | 0.410 | 11 | 8 | 7 | 12 | 0.5833 | 0.6364 | 0.8750 | D | 4 |
Host name rsat Job started 2026-04-21.014857 Job done 2026-04-21.014859 Seconds 1.38 user 1.39 system 0.13 cuser 0.85 ; csystem 0.19