compare-matrices -v 1 -mode matches -format1 transfac -file1 $RSAT/public_html/tmp/www-data/2025/06/19/peak-motifs.2025-06-19.091929_2025-06-19.091929_ZGCM7J/results/discovered_motifs/oligos_6-8nt_m5/peak-motifs_oligos_6-8nt_m5.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.2025-06-19.091929_2025-06-19.091929_ZGCM7J/results/discovered_motifs/oligos_6-8nt_m5/peak-motifs_oligos_6-8nt_m5_vs_db_footprintDB-plants Program version 1.118 Quick mode Input files file1 $RSAT/public_html/tmp/www-data/2025/06/19/peak-motifs.2025-06-19.091929_2025-06-19.091929_ZGCM7J/results/discovered_motifs/oligos_6-8nt_m5/peak-motifs_oligos_6-8nt_m5.tf file2 $RSAT/public_html/motif_databases/footprintDB/footprintDB.plants.motif.tf Output files html_index $RSAT/public_html/tmp/www-data/2025/06/19/peak-motifs.2025-06-19.091929_2025-06-19.091929_ZGCM7J/results/discovered_motifs/oligos_6-8nt_m5/peak-motifs_oligos_6-8nt_m5_vs_db_footprintDB-plants_index.html match_table_html $RSAT/public_html/tmp/www-data/2025/06/19/peak-motifs.2025-06-19.091929_2025-06-19.091929_ZGCM7J/results/discovered_motifs/oligos_6-8nt_m5/peak-motifs_oligos_6-8nt_m5_vs_db_footprintDB-plants.html match_table_txt $RSAT/public_html/tmp/www-data/2025/06/19/peak-motifs.2025-06-19.091929_2025-06-19.091929_ZGCM7J/results/discovered_motifs/oligos_6-8nt_m5/peak-motifs_oligos_6-8nt_m5_vs_db_footprintDB-plants.tab alignments_1ton_html $RSAT/public_html/tmp/www-data/2025/06/19/peak-motifs.2025-06-19.091929_2025-06-19.091929_ZGCM7J/results/discovered_motifs/oligos_6-8nt_m5/peak-motifs_oligos_6-8nt_m5_vs_db_footprintDB-plants_alignments_1ton.html prefix $RSAT/public_html/tmp/www-data/2025/06/19/peak-motifs.2025-06-19.091929_2025-06-19.091929_ZGCM7J/results/discovered_motifs/oligos_6-8nt_m5/peak-motifs_oligos_6-8nt_m5_vs_db_footprintDB-plants alignments_1ton $RSAT/public_html/tmp/www-data/2025/06/19/peak-motifs.2025-06-19.091929_2025-06-19.091929_ZGCM7J/results/discovered_motifs/oligos_6-8nt_m5/peak-motifs_oligos_6-8nt_m5_vs_db_footprintDB-plants_alignments_1ton.tab Matrices file1 1 matrices $RSAT/public_html/tmp/www-data/2025/06/19/peak-motifs.2025-06-19.091929_2025-06-19.091929_ZGCM7J/results/discovered_motifs/oligos_6-8nt_m5/peak-motifs_oligos_6-8nt_m5.tf file1 1 13 100 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_m5 | AtLEC2/AtLEC2/Athamap | oligos_6-8nt_m5 | AtLEC2:AtLEC2:Athamap | 0.795 | 0.611 | 13 | 10 | 10 | 13 | 0.7692 | 0.7692 | 1.0000 | D | 3 |
| oligos_6-8nt_m5 | LEC2/MA0581.1/JASPAR | oligos_6-8nt_m5 | LEC2:MA0581.1:JASPAR | 0.824 | 0.588 | 13 | 11 | 10 | 14 | 0.7143 | 0.7692 | 0.9091 | D | 3 |
| oligos_6-8nt_m5 | FUS3/MA0565.2/JASPAR | oligos_6-8nt_m5 | FUS3:MA0565.2:JASPAR | 0.714 | 0.549 | 13 | 10 | 10 | 13 | 0.7692 | 0.7692 | 1.0000 | D | 2 |
| oligos_6-8nt_m5 | FUS3/FUS3/Athamap | oligos_6-8nt_m5 | FUS3:FUS3:Athamap | 0.858 | 0.528 | 13 | 8 | 8 | 13 | 0.6154 | 0.6154 | 1.0000 | D | 4 |
| oligos_6-8nt_m5 | ABI3/ABI3/Athamap | oligos_6-8nt_m5 | ABI3:ABI3:Athamap | 0.756 | 0.524 | 13 | 9 | 9 | 13 | 0.6923 | 0.6923 | 1.0000 | D | 2 |
| oligos_6-8nt_m5 | FUS3/MA0565.1/JASPAR | oligos_6-8nt_m5 | FUS3:MA0565.1:JASPAR | 0.736 | 0.509 | 13 | 9 | 9 | 13 | 0.6923 | 0.6923 | 1.0000 | D | 3 |
| oligos_6-8nt_m5 | ABI3/MA0564.1/JASPAR | oligos_6-8nt_m5 | ABI3:MA0564.1:JASPAR | 0.734 | 0.508 | 13 | 9 | 9 | 13 | 0.6923 | 0.6923 | 1.0000 | D | 2 |
| oligos_6-8nt_m5 | LEC2/M0146_1.02/CISBP | oligos_6-8nt_m5 | LEC2:M0146_1.02:CISBP | 0.792 | 0.487 | 13 | 8 | 8 | 13 | 0.6154 | 0.6154 | 1.0000 | R | 4 |
| oligos_6-8nt_m5 | LEC2/MA0581.2/JASPAR | oligos_6-8nt_m5 | LEC2:MA0581.2:JASPAR | 0.979 | 0.452 | 13 | 6 | 6 | 13 | 0.4615 | 0.4615 | 1.0000 | D | 5 |
| oligos_6-8nt_m5 | B3/6j9b_A/3D-footprint | oligos_6-8nt_m5 | B3:6j9b_A:3D-footprint | 0.969 | 0.447 | 13 | 6 | 6 | 13 | 0.4615 | 0.4615 | 1.0000 | D | 5 |
| oligos_6-8nt_m5 | B3/5yzz_C/3D-footprint | oligos_6-8nt_m5 | B3:5yzz_C:3D-footprint | 0.967 | 0.446 | 13 | 6 | 6 | 13 | 0.4615 | 0.4615 | 1.0000 | D | 5 |
| oligos_6-8nt_m5 | B3/5yzy_C/3D-footprint | oligos_6-8nt_m5 | B3:5yzy_C:3D-footprint | 0.960 | 0.443 | 13 | 6 | 6 | 13 | 0.4615 | 0.4615 | 1.0000 | D | 5 |
| oligos_6-8nt_m5 | B3/6j9c_D/3D-footprint | oligos_6-8nt_m5 | B3:6j9c_D:3D-footprint | 0.959 | 0.443 | 13 | 6 | 6 | 13 | 0.4615 | 0.4615 | 1.0000 | R | 5 |
| oligos_6-8nt_m5 | B3/6j9a_A/3D-footprint | oligos_6-8nt_m5 | B3:6j9a_A:3D-footprint | 0.956 | 0.441 | 13 | 6 | 6 | 13 | 0.4615 | 0.4615 | 1.0000 | D | 5 |
| oligos_6-8nt_m5 | FUS3/MA0565.3/JASPAR | oligos_6-8nt_m5 | FUS3:MA0565.3:JASPAR | 0.805 | 0.434 | 13 | 7 | 7 | 13 | 0.5385 | 0.5385 | 1.0000 | D | 4 |
| oligos_6-8nt_m5 | NAC/3swm_ABD/3D-footprint | oligos_6-8nt_m5 | NAC:3swm_ABD:3D-footprint | 0.761 | 0.419 | 13 | 18 | 11 | 20 | 0.5500 | 0.8462 | 0.6111 | R | -7 |
| oligos_6-8nt_m5 | NAC/3swm_B/3D-footprint | oligos_6-8nt_m5 | NAC:3swm_B:3D-footprint | 0.900 | 0.415 | 13 | 6 | 6 | 13 | 0.4615 | 0.4615 | 1.0000 | D | 5 |
Host name rsat Job started 2025-06-19.091956 Job done 2025-06-19.091958 Seconds 1.27 user 1.27 system 0.03 cuser 0.25 ; csystem 0.03