compare-matrices -v 1 -mode matches -format1 transfac -file1 $RSAT/public_html/tmp/www-data/2025/06/19/peak-motifs.2025-06-19.093641_2025-06-19.093641_ZnDYv6/results/discovered_motifs/oligos_6-8nt_m4/peak-motifs_oligos_6-8nt_m4.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.2025-06-19.093641_2025-06-19.093641_ZnDYv6/results/discovered_motifs/oligos_6-8nt_m4/peak-motifs_oligos_6-8nt_m4_vs_db_footprintDB-plants Program version 1.118 Quick mode Input files file1 $RSAT/public_html/tmp/www-data/2025/06/19/peak-motifs.2025-06-19.093641_2025-06-19.093641_ZnDYv6/results/discovered_motifs/oligos_6-8nt_m4/peak-motifs_oligos_6-8nt_m4.tf file2 $RSAT/public_html/motif_databases/footprintDB/footprintDB.plants.motif.tf Output files alignments_1ton $RSAT/public_html/tmp/www-data/2025/06/19/peak-motifs.2025-06-19.093641_2025-06-19.093641_ZnDYv6/results/discovered_motifs/oligos_6-8nt_m4/peak-motifs_oligos_6-8nt_m4_vs_db_footprintDB-plants_alignments_1ton.tab html_index $RSAT/public_html/tmp/www-data/2025/06/19/peak-motifs.2025-06-19.093641_2025-06-19.093641_ZnDYv6/results/discovered_motifs/oligos_6-8nt_m4/peak-motifs_oligos_6-8nt_m4_vs_db_footprintDB-plants_index.html alignments_1ton_html $RSAT/public_html/tmp/www-data/2025/06/19/peak-motifs.2025-06-19.093641_2025-06-19.093641_ZnDYv6/results/discovered_motifs/oligos_6-8nt_m4/peak-motifs_oligos_6-8nt_m4_vs_db_footprintDB-plants_alignments_1ton.html match_table_txt $RSAT/public_html/tmp/www-data/2025/06/19/peak-motifs.2025-06-19.093641_2025-06-19.093641_ZnDYv6/results/discovered_motifs/oligos_6-8nt_m4/peak-motifs_oligos_6-8nt_m4_vs_db_footprintDB-plants.tab match_table_html $RSAT/public_html/tmp/www-data/2025/06/19/peak-motifs.2025-06-19.093641_2025-06-19.093641_ZnDYv6/results/discovered_motifs/oligos_6-8nt_m4/peak-motifs_oligos_6-8nt_m4_vs_db_footprintDB-plants.html prefix $RSAT/public_html/tmp/www-data/2025/06/19/peak-motifs.2025-06-19.093641_2025-06-19.093641_ZnDYv6/results/discovered_motifs/oligos_6-8nt_m4/peak-motifs_oligos_6-8nt_m4_vs_db_footprintDB-plants Matrices file1 1 matrices $RSAT/public_html/tmp/www-data/2025/06/19/peak-motifs.2025-06-19.093641_2025-06-19.093641_ZnDYv6/results/discovered_motifs/oligos_6-8nt_m4/peak-motifs_oligos_6-8nt_m4.tf file1 1 10 42 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_m4 | estExt_fgenesh1_pg.C_Chr_04.00010098/M0365_1.02/CISBP | oligos_6-8nt_m4 | estExt_fgenesh1_pg.C_Chr_04.00010098:M0365_1.02:CISBP | 0.808 | 0.661 | 10 | 10 | 9 | 11 | 0.8182 | 0.9000 | 0.9000 | R | -1 |
| oligos_6-8nt_m4 | RAV1/RAV1/2)(Athamap | oligos_6-8nt_m4 | RAV1:RAV1:2)(Athamap | 0.752 | 0.627 | 10 | 12 | 10 | 12 | 0.8333 | 1.0000 | 0.8333 | D | -2 |
| oligos_6-8nt_m4 | GBF2/M0266_1.02/CISBP | oligos_6-8nt_m4 | GBF2:M0266_1.02:CISBP | 0.707 | 0.514 | 10 | 9 | 8 | 11 | 0.7273 | 0.8000 | 0.8889 | R | -1 |
| oligos_6-8nt_m4 | E2FA/MA1414.2/JASPAR | oligos_6-8nt_m4 | E2FA:MA1414.2:JASPAR | 0.837 | 0.502 | 10 | 6 | 6 | 10 | 0.6000 | 0.6000 | 1.0000 | R | 4 |
| oligos_6-8nt_m4 | bZIP18_2/EEAD0135/EEADannot | oligos_6-8nt_m4 | bZIP18_2:EEAD0135:EEADannot | 0.701 | 0.431 | 10 | 11 | 8 | 13 | 0.6154 | 0.8000 | 0.7273 | R | -3 |
| oligos_6-8nt_m4 | Ethylene-responsive/5wx9_A/3D-footprint | oligos_6-8nt_m4 | Ethylene-responsive:5wx9_A:3D-footprint | 0.791 | 0.426 | 10 | 10 | 7 | 13 | 0.5385 | 0.7000 | 0.7000 | D | 3 |
| oligos_6-8nt_m4 | ERF1/ERF1/Athamap | oligos_6-8nt_m4 | ERF1:ERF1:Athamap | 0.806 | 0.403 | 10 | 8 | 6 | 12 | 0.5000 | 0.6000 | 0.7500 | R | 4 |
Host name rsat Job started 2025-06-19.093704 Job done 2025-06-19.093705 Seconds 1.41 user 1.41 system 0.06 cuser 0.23 ; csystem 0.03