compare-matrices -v 1 -mode matches -format1 transfac -file1 $RSAT/public_html/tmp/www-data/2025/06/19/peak-motifs.2025-06-19.085330_2025-06-19.085330_NC5YGx/results/discovered_motifs/oligos_6-8nt_m3/peak-motifs_oligos_6-8nt_m3.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.2025-06-19.085330_2025-06-19.085330_NC5YGx/results/discovered_motifs/oligos_6-8nt_m3/peak-motifs_oligos_6-8nt_m3_vs_db_footprintDB-plants Program version 1.118 Quick mode Input files file1 $RSAT/public_html/tmp/www-data/2025/06/19/peak-motifs.2025-06-19.085330_2025-06-19.085330_NC5YGx/results/discovered_motifs/oligos_6-8nt_m3/peak-motifs_oligos_6-8nt_m3.tf file2 $RSAT/public_html/motif_databases/footprintDB/footprintDB.plants.motif.tf Output files alignments_1ton_html $RSAT/public_html/tmp/www-data/2025/06/19/peak-motifs.2025-06-19.085330_2025-06-19.085330_NC5YGx/results/discovered_motifs/oligos_6-8nt_m3/peak-motifs_oligos_6-8nt_m3_vs_db_footprintDB-plants_alignments_1ton.html match_table_html $RSAT/public_html/tmp/www-data/2025/06/19/peak-motifs.2025-06-19.085330_2025-06-19.085330_NC5YGx/results/discovered_motifs/oligos_6-8nt_m3/peak-motifs_oligos_6-8nt_m3_vs_db_footprintDB-plants.html match_table_txt $RSAT/public_html/tmp/www-data/2025/06/19/peak-motifs.2025-06-19.085330_2025-06-19.085330_NC5YGx/results/discovered_motifs/oligos_6-8nt_m3/peak-motifs_oligos_6-8nt_m3_vs_db_footprintDB-plants.tab alignments_1ton $RSAT/public_html/tmp/www-data/2025/06/19/peak-motifs.2025-06-19.085330_2025-06-19.085330_NC5YGx/results/discovered_motifs/oligos_6-8nt_m3/peak-motifs_oligos_6-8nt_m3_vs_db_footprintDB-plants_alignments_1ton.tab html_index $RSAT/public_html/tmp/www-data/2025/06/19/peak-motifs.2025-06-19.085330_2025-06-19.085330_NC5YGx/results/discovered_motifs/oligos_6-8nt_m3/peak-motifs_oligos_6-8nt_m3_vs_db_footprintDB-plants_index.html prefix $RSAT/public_html/tmp/www-data/2025/06/19/peak-motifs.2025-06-19.085330_2025-06-19.085330_NC5YGx/results/discovered_motifs/oligos_6-8nt_m3/peak-motifs_oligos_6-8nt_m3_vs_db_footprintDB-plants Matrices file1 1 matrices $RSAT/public_html/tmp/www-data/2025/06/19/peak-motifs.2025-06-19.085330_2025-06-19.085330_NC5YGx/results/discovered_motifs/oligos_6-8nt_m3/peak-motifs_oligos_6-8nt_m3.tf file1 1 12 6 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_m3 | E2Fc/E2Fc/Athamap | oligos_6-8nt_m3 | E2Fc:E2Fc:Athamap | 0.811 | 0.521 | 12 | 11 | 9 | 14 | 0.6429 | 0.7500 | 0.8182 | R | -2 |
| oligos_6-8nt_m3 | LBD4/M1274_1.02/CISBP | oligos_6-8nt_m3 | LBD4:M1274_1.02:CISBP | 0.744 | 0.515 | 12 | 10 | 9 | 13 | 0.6923 | 0.7500 | 0.9000 | D | -1 |
| oligos_6-8nt_m3 | ARF39/EEAD0041/EEADannot | oligos_6-8nt_m3 | ARF39:EEAD0041:EEADannot | 0.853 | 0.498 | 12 | 7 | 7 | 12 | 0.5833 | 0.5833 | 1.0000 | D | 4 |
| oligos_6-8nt_m3 | E2Fa/E2Fa/Athamap | oligos_6-8nt_m3 | E2Fa:E2Fa:Athamap | 0.736 | 0.491 | 12 | 8 | 8 | 12 | 0.6667 | 0.6667 | 1.0000 | R | 2 |
| oligos_6-8nt_m3 | E2Fb/E2Fb/Athamap | oligos_6-8nt_m3 | E2Fb:E2Fb:Athamap | 0.734 | 0.490 | 12 | 8 | 8 | 12 | 0.6667 | 0.6667 | 1.0000 | R | 2 |
| oligos_6-8nt_m3 | ARF14/EEAD0028/EEADannot | oligos_6-8nt_m3 | ARF14:EEAD0028:EEADannot | 0.727 | 0.484 | 12 | 8 | 8 | 12 | 0.6667 | 0.6667 | 1.0000 | D | 3 |
| oligos_6-8nt_m3 | ERF118/MA1671.2/JASPAR | oligos_6-8nt_m3 | ERF118:MA1671.2:JASPAR | 0.701 | 0.468 | 12 | 8 | 8 | 12 | 0.6667 | 0.6667 | 1.0000 | R | 1 |
| oligos_6-8nt_m3 | ABI4/ABI4/Athamap | oligos_6-8nt_m3 | ABI4:ABI4:Athamap | 0.745 | 0.426 | 12 | 10 | 8 | 14 | 0.5714 | 0.6667 | 0.8000 | R | -2 |
| oligos_6-8nt_m3 | FLORICAULA/LEAFY/4bhk_A/3D-footprint | oligos_6-8nt_m3 | FLORICAULA/LEAFY:4bhk_A:3D-footprint | 0.919 | 0.424 | 12 | 7 | 6 | 13 | 0.4615 | 0.5000 | 0.8571 | D | 6 |
| oligos_6-8nt_m3 | Zm00001d052229/MA1818.1/JASPAR | oligos_6-8nt_m3 | Zm00001d052229:MA1818.1:JASPAR | 0.700 | 0.400 | 12 | 10 | 8 | 14 | 0.5714 | 0.6667 | 0.8000 | R | -2 |
Host name rsat Job started 2025-06-19.085347 Job done 2025-06-19.085349 Seconds 1.37 user 1.37 system 0.05 cuser 0.2 ; csystem 0.03