compare-matrices -v 1 -mode matches -format1 transfac -file1 $RSAT/public_html/tmp/www-data/2025/06/19/peak-motifs.2025-06-19.093456_2025-06-19.093456_nFlB6k/results/discovered_motifs/oligos_6-8nt_m1/peak-motifs_oligos_6-8nt_m1.tf -format2 tf -file2 $RSAT/public_html/motif_databases/footprintDB/footprintDB.plants.motif.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/2025/06/19/peak-motifs.2025-06-19.093456_2025-06-19.093456_nFlB6k/results/discovered_motifs/oligos_6-8nt_m1/peak-motifs_oligos_6-8nt_m1_vs_db_footprintDB-plants Program version 1.118 Quick mode Input files file1 $RSAT/public_html/tmp/www-data/2025/06/19/peak-motifs.2025-06-19.093456_2025-06-19.093456_nFlB6k/results/discovered_motifs/oligos_6-8nt_m1/peak-motifs_oligos_6-8nt_m1.tf file2 $RSAT/public_html/motif_databases/footprintDB/footprintDB.plants.motif.tf Output files match_table_txt $RSAT/public_html/tmp/www-data/2025/06/19/peak-motifs.2025-06-19.093456_2025-06-19.093456_nFlB6k/results/discovered_motifs/oligos_6-8nt_m1/peak-motifs_oligos_6-8nt_m1_vs_db_footprintDB-plants.tab alignments_1ton $RSAT/public_html/tmp/www-data/2025/06/19/peak-motifs.2025-06-19.093456_2025-06-19.093456_nFlB6k/results/discovered_motifs/oligos_6-8nt_m1/peak-motifs_oligos_6-8nt_m1_vs_db_footprintDB-plants_alignments_1ton.tab prefix $RSAT/public_html/tmp/www-data/2025/06/19/peak-motifs.2025-06-19.093456_2025-06-19.093456_nFlB6k/results/discovered_motifs/oligos_6-8nt_m1/peak-motifs_oligos_6-8nt_m1_vs_db_footprintDB-plants match_table_html $RSAT/public_html/tmp/www-data/2025/06/19/peak-motifs.2025-06-19.093456_2025-06-19.093456_nFlB6k/results/discovered_motifs/oligos_6-8nt_m1/peak-motifs_oligos_6-8nt_m1_vs_db_footprintDB-plants.html html_index $RSAT/public_html/tmp/www-data/2025/06/19/peak-motifs.2025-06-19.093456_2025-06-19.093456_nFlB6k/results/discovered_motifs/oligos_6-8nt_m1/peak-motifs_oligos_6-8nt_m1_vs_db_footprintDB-plants_index.html alignments_1ton_html $RSAT/public_html/tmp/www-data/2025/06/19/peak-motifs.2025-06-19.093456_2025-06-19.093456_nFlB6k/results/discovered_motifs/oligos_6-8nt_m1/peak-motifs_oligos_6-8nt_m1_vs_db_footprintDB-plants_alignments_1ton.html Matrices file1 1 matrices $RSAT/public_html/tmp/www-data/2025/06/19/peak-motifs.2025-06-19.093456_2025-06-19.093456_nFlB6k/results/discovered_motifs/oligos_6-8nt_m1/peak-motifs_oligos_6-8nt_m1.tf file1 1 12 24 file2 2958 matrices $RSAT/public_html/motif_databases/footprintDB/footprintDB.plants.motif.tf file2 1 8 5 file2 2 8 3 file2 3 8 5 file2 4 8 1 file2 5 8 2 file2 6 8 2 file2 7 8 6 file2 8 8 2 file2 9 8 8 file2 10 8 1 file2 11 8 4 ... 2948 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_6-8nt_m1 | NTL8/MA1678.2/JASPAR | oligos_6-8nt_m1 | NTL8:MA1678.2:JASPAR | 0.802 | 0.741 | 12 | 13 | 12 | 13 | 0.9231 | 1.0000 | 0.9231 | D | 0 |
| oligos_6-8nt_m1 | NAC045/UN0375.1/JASPAR | oligos_6-8nt_m1 | NAC045:UN0375.1:JASPAR | 0.776 | 0.716 | 12 | 13 | 12 | 13 | 0.9231 | 1.0000 | 0.9231 | D | 0 |
| oligos_6-8nt_m1 | NTL8/UP00577A_2/UniPROBE | oligos_6-8nt_m1 | NTL8:UP00577A_2:UniPROBE | 0.752 | 0.694 | 12 | 13 | 12 | 13 | 0.9231 | 1.0000 | 0.9231 | D | 0 |
| oligos_6-8nt_m1 | Protein/6ryd_EF/3D-footprint | oligos_6-8nt_m1 | Protein:6ryd_EF:3D-footprint | 0.751 | 0.626 | 12 | 10 | 10 | 12 | 0.8333 | 0.8333 | 1.0000 | R | 0 |
| oligos_6-8nt_m1 | NTL8/MA1678.3/JASPAR | oligos_6-8nt_m1 | NTL8:MA1678.3:JASPAR | 0.828 | 0.552 | 12 | 8 | 8 | 12 | 0.6667 | 0.6667 | 1.0000 | D | 2 |
| oligos_6-8nt_m1 | NAC045/MA2048.2/JASPAR | oligos_6-8nt_m1 | NAC045:MA2048.2:JASPAR | 0.804 | 0.536 | 12 | 8 | 8 | 12 | 0.6667 | 0.6667 | 1.0000 | D | 2 |
| oligos_6-8nt_m1 | HAP3.DAP/M0352/AthalianaCistrome | oligos_6-8nt_m1 | HAP3.DAP:M0352:AthalianaCistrome | 0.706 | 0.434 | 12 | 9 | 8 | 13 | 0.6154 | 0.6667 | 0.8889 | R | -1 |
| oligos_6-8nt_m1 | ONAC127/UN0429.2/JASPAR | oligos_6-8nt_m1 | ONAC127:UN0429.2:JASPAR | 0.715 | 0.417 | 12 | 7 | 7 | 12 | 0.5833 | 0.5833 | 1.0000 | D | 4 |
| oligos_6-8nt_m1 | NTL8.DAP/M0671/AthalianaCistrome | oligos_6-8nt_m1 | NTL8.DAP:M0671:AthalianaCistrome | 0.871 | 0.415 | 12 | 19 | 10 | 21 | 0.4762 | 0.8333 | 0.5263 | R | -9 |
| oligos_6-8nt_m1 | NTL8/MA1678.1/JASPAR | oligos_6-8nt_m1 | NTL8:MA1678.1:JASPAR | 0.812 | 0.406 | 12 | 24 | 12 | 24 | 0.5000 | 1.0000 | 0.5000 | D | -12 |
Host name rsat Job started 2025-06-19.093512 Job done 2025-06-19.093513 Seconds 1.26 user 1.26 system 0.08 cuser 0.23 ; csystem 0.03