compare-matrices -v 1 -mode matches -format1 transfac -file1 $RSAT/public_html/tmp/www-data/2025/06/19/peak-motifs.2025-06-19.092718_2025-06-19.092718_Z1kkIg/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.2025-06-19.092718_2025-06-19.092718_Z1kkIg/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.2025-06-19.092718_2025-06-19.092718_Z1kkIg/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 match_table_txt $RSAT/public_html/tmp/www-data/2025/06/19/peak-motifs.2025-06-19.092718_2025-06-19.092718_Z1kkIg/results/discovered_motifs/oligos_6-8nt_m4/peak-motifs_oligos_6-8nt_m4_vs_db_footprintDB-plants.tab prefix $RSAT/public_html/tmp/www-data/2025/06/19/peak-motifs.2025-06-19.092718_2025-06-19.092718_Z1kkIg/results/discovered_motifs/oligos_6-8nt_m4/peak-motifs_oligos_6-8nt_m4_vs_db_footprintDB-plants alignments_1ton_html $RSAT/public_html/tmp/www-data/2025/06/19/peak-motifs.2025-06-19.092718_2025-06-19.092718_Z1kkIg/results/discovered_motifs/oligos_6-8nt_m4/peak-motifs_oligos_6-8nt_m4_vs_db_footprintDB-plants_alignments_1ton.html alignments_1ton $RSAT/public_html/tmp/www-data/2025/06/19/peak-motifs.2025-06-19.092718_2025-06-19.092718_Z1kkIg/results/discovered_motifs/oligos_6-8nt_m4/peak-motifs_oligos_6-8nt_m4_vs_db_footprintDB-plants_alignments_1ton.tab match_table_html $RSAT/public_html/tmp/www-data/2025/06/19/peak-motifs.2025-06-19.092718_2025-06-19.092718_Z1kkIg/results/discovered_motifs/oligos_6-8nt_m4/peak-motifs_oligos_6-8nt_m4_vs_db_footprintDB-plants.html html_index $RSAT/public_html/tmp/www-data/2025/06/19/peak-motifs.2025-06-19.092718_2025-06-19.092718_Z1kkIg/results/discovered_motifs/oligos_6-8nt_m4/peak-motifs_oligos_6-8nt_m4_vs_db_footprintDB-plants_index.html Matrices file1 1 matrices $RSAT/public_html/tmp/www-data/2025/06/19/peak-motifs.2025-06-19.092718_2025-06-19.092718_Z1kkIg/results/discovered_motifs/oligos_6-8nt_m4/peak-motifs_oligos_6-8nt_m4.tf file1 1 12 86 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 | ERF003/UN0363.1/JASPAR | oligos_6-8nt_m4 | ERF003:UN0363.1:JASPAR | 0.734 | 0.678 | 12 | 13 | 12 | 13 | 0.9231 | 1.0000 | 0.9231 | D | 0 |
| oligos_6-8nt_m4 | ERF057/MA1753.2/JASPAR | oligos_6-8nt_m4 | ERF057:MA1753.2:JASPAR | 0.701 | 0.601 | 12 | 14 | 12 | 14 | 0.8571 | 1.0000 | 0.8571 | D | -1 |
| oligos_6-8nt_m4 | ABI4/ABI4/Athamap | oligos_6-8nt_m4 | ABI4:ABI4:Athamap | 0.702 | 0.585 | 12 | 10 | 10 | 12 | 0.8333 | 0.8333 | 1.0000 | D | 0 |
| oligos_6-8nt_m4 | ERF057/MA1753.1/JASPAR | oligos_6-8nt_m4 | ERF057:MA1753.1:JASPAR | 0.702 | 0.561 | 12 | 15 | 12 | 15 | 0.8000 | 1.0000 | 0.8000 | D | -1 |
| oligos_6-8nt_m4 | At5g65130.DAP/M0090/AthalianaCistrome | oligos_6-8nt_m4 | At5g65130.DAP:M0090:AthalianaCistrome | 0.702 | 0.561 | 12 | 15 | 12 | 15 | 0.8000 | 1.0000 | 0.8000 | D | -1 |
| oligos_6-8nt_m4 | ODO1motif1B/EEAD0088/EEADannot | oligos_6-8nt_m4 | ODO1motif1B:EEAD0088:EEADannot | 0.735 | 0.551 | 12 | 9 | 9 | 12 | 0.7500 | 0.7500 | 1.0000 | D | 0 |
| oligos_6-8nt_m4 | ChCUC1-chipseq/EEAD0152/EEADannot | oligos_6-8nt_m4 | ChCUC1-chipseq:EEAD0152:EEADannot | 0.756 | 0.504 | 12 | 8 | 8 | 12 | 0.6667 | 0.6667 | 1.0000 | D | 3 |
| oligos_6-8nt_m4 | 3XHMGBOX1.ampDAP/M0425/AthalianaCistrome | oligos_6-8nt_m4 | 3XHMGBOX1.ampDAP:M0425:AthalianaCistrome | 0.708 | 0.487 | 12 | 15 | 11 | 16 | 0.6875 | 0.9167 | 0.7333 | D | 1 |
| oligos_6-8nt_m4 | STOP1.ampDAP/M0326/AthalianaCistrome | oligos_6-8nt_m4 | STOP1.ampDAP:M0326:AthalianaCistrome | 0.701 | 0.482 | 12 | 15 | 11 | 16 | 0.6875 | 0.9167 | 0.7333 | D | 1 |
| oligos_6-8nt_m4 | TB1/MA1430.2/JASPAR | oligos_6-8nt_m4 | TB1:MA1430.2:JASPAR | 0.707 | 0.435 | 12 | 9 | 8 | 13 | 0.6154 | 0.6667 | 0.8889 | D | -1 |
| oligos_6-8nt_m4 | FLORICAULA/LEAFY/4bhk_A/3D-footprint | oligos_6-8nt_m4 | FLORICAULA/LEAFY:4bhk_A:3D-footprint | 0.713 | 0.416 | 12 | 7 | 7 | 12 | 0.5833 | 0.5833 | 1.0000 | R | 0 |
| oligos_6-8nt_m4 | TB1/MA1430.1/JASPAR | oligos_6-8nt_m4 | TB1:MA1430.1:JASPAR | 0.721 | 0.412 | 12 | 10 | 8 | 14 | 0.5714 | 0.6667 | 0.8000 | D | -2 |
| oligos_6-8nt_m4 | SHN3.DAP/M0127/AthalianaCistrome | oligos_6-8nt_m4 | SHN3.DAP:M0127:AthalianaCistrome | 0.706 | 0.404 | 12 | 21 | 12 | 21 | 0.5714 | 1.0000 | 0.5714 | D | -8 |
| oligos_6-8nt_m4 | SHN2/UN0836.1/JASPAR | oligos_6-8nt_m4 | SHN2:UN0836.1:JASPAR | 0.706 | 0.404 | 12 | 21 | 12 | 21 | 0.5714 | 1.0000 | 0.5714 | D | -8 |
Host name rsat Job started 2025-06-19.092741 Job done 2025-06-19.092743 Seconds 1.3 user 1.3 system 0.06 cuser 0.25 ; csystem 0.03