compare-matrices -v 1 -mode matches -format1 transfac -file1 $RSAT/public_html/tmp/www-data/2026/01/05/peak-motifs.2026-01-05.052000_2026-01-05.052000_2qIqyX/results/discovered_motifs/oligos_6nt_mkv3_m4/peak-motifs_oligos_6nt_mkv3_m4.tf -format2 tf -file2 $RSAT/public_html/motif_databases/JASPAR/Jaspar_2024/JASPAR2024_CORE_vertebrates_non-redundant_pfms_transfac.txt -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/2026/01/05/peak-motifs.2026-01-05.052000_2026-01-05.052000_2qIqyX/results/discovered_motifs/oligos_6nt_mkv3_m4/peak-motifs_oligos_6nt_mkv3_m4_vs_db_JASPAR2024_CORE_vertebrates_non-redundant Program version 1.118 Quick mode Input files file1 $RSAT/public_html/tmp/www-data/2026/01/05/peak-motifs.2026-01-05.052000_2026-01-05.052000_2qIqyX/results/discovered_motifs/oligos_6nt_mkv3_m4/peak-motifs_oligos_6nt_mkv3_m4.tf file2 $RSAT/public_html/motif_databases/JASPAR/Jaspar_2024/JASPAR2024_CORE_vertebrates_non-redundant_pfms_transfac.txt Output files prefix $RSAT/public_html/tmp/www-data/2026/01/05/peak-motifs.2026-01-05.052000_2026-01-05.052000_2qIqyX/results/discovered_motifs/oligos_6nt_mkv3_m4/peak-motifs_oligos_6nt_mkv3_m4_vs_db_JASPAR2024_CORE_vertebrates_non-redundant match_table_html $RSAT/public_html/tmp/www-data/2026/01/05/peak-motifs.2026-01-05.052000_2026-01-05.052000_2qIqyX/results/discovered_motifs/oligos_6nt_mkv3_m4/peak-motifs_oligos_6nt_mkv3_m4_vs_db_JASPAR2024_CORE_vertebrates_non-redundant.html html_index $RSAT/public_html/tmp/www-data/2026/01/05/peak-motifs.2026-01-05.052000_2026-01-05.052000_2qIqyX/results/discovered_motifs/oligos_6nt_mkv3_m4/peak-motifs_oligos_6nt_mkv3_m4_vs_db_JASPAR2024_CORE_vertebrates_non-redundant_index.html match_table_txt $RSAT/public_html/tmp/www-data/2026/01/05/peak-motifs.2026-01-05.052000_2026-01-05.052000_2qIqyX/results/discovered_motifs/oligos_6nt_mkv3_m4/peak-motifs_oligos_6nt_mkv3_m4_vs_db_JASPAR2024_CORE_vertebrates_non-redundant.tab alignments_1ton_html $RSAT/public_html/tmp/www-data/2026/01/05/peak-motifs.2026-01-05.052000_2026-01-05.052000_2qIqyX/results/discovered_motifs/oligos_6nt_mkv3_m4/peak-motifs_oligos_6nt_mkv3_m4_vs_db_JASPAR2024_CORE_vertebrates_non-redundant_alignments_1ton.html alignments_1ton $RSAT/public_html/tmp/www-data/2026/01/05/peak-motifs.2026-01-05.052000_2026-01-05.052000_2qIqyX/results/discovered_motifs/oligos_6nt_mkv3_m4/peak-motifs_oligos_6nt_mkv3_m4_vs_db_JASPAR2024_CORE_vertebrates_non-redundant_alignments_1ton.tab Matrices file1 1 matrices $RSAT/public_html/tmp/www-data/2026/01/05/peak-motifs.2026-01-05.052000_2026-01-05.052000_2qIqyX/results/discovered_motifs/oligos_6nt_mkv3_m4/peak-motifs_oligos_6nt_mkv3_m4.tf file1 1 12 598 file2 879 matrices $RSAT/public_html/motif_databases/JASPAR/Jaspar_2024/JASPAR2024_CORE_vertebrates_non-redundant_pfms_transfac.txt file2 1 6 20 file2 2 14 43 file2 3 10 25 file2 4 15 10 file2 5 10 17 file2 6 10 18 file2 7 17 25 file2 8 15 33 file2 9 14 16 file2 10 6 16 file2 11 15 1369 ... 869 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_6nt_mkv3_m4 | MA0041.3 | oligos_6nt_mkv3_m4 | FOXD3 | 0.729 | 0.625 | 12 | 14 | 12 | 14 | 0.8571 | 1.0000 | 0.8571 | D | -2 |
| oligos_6nt_mkv3_m4 | MA0867.3 | oligos_6nt_mkv3_m4 | SOX4 | 0.813 | 0.542 | 12 | 8 | 8 | 12 | 0.6667 | 0.6667 | 1.0000 | D | 0 |
| oligos_6nt_mkv3_m4 | MA1125.2 | oligos_6nt_mkv3_m4 | ZNF384 | 0.806 | 0.537 | 12 | 8 | 8 | 12 | 0.6667 | 0.6667 | 1.0000 | D | 3 |
| oligos_6nt_mkv3_m4 | MA0769.3 | oligos_6nt_mkv3_m4 | TCF7 | 0.882 | 0.514 | 12 | 7 | 7 | 12 | 0.5833 | 0.5833 | 1.0000 | R | 0 |
| oligos_6nt_mkv3_m4 | MA0869.3 | oligos_6nt_mkv3_m4 | Sox11 | 0.920 | 0.496 | 12 | 8 | 7 | 13 | 0.5385 | 0.5833 | 0.8750 | D | -1 |
| oligos_6nt_mkv3_m4 | MA0768.3 | oligos_6nt_mkv3_m4 | Lef1 | 0.738 | 0.492 | 12 | 8 | 8 | 12 | 0.6667 | 0.6667 | 1.0000 | R | 0 |
| oligos_6nt_mkv3_m4 | MA2098.1 | oligos_6nt_mkv3_m4 | ZNF766 | 0.779 | 0.480 | 12 | 9 | 8 | 13 | 0.6154 | 0.6667 | 0.8889 | D | 4 |
| oligos_6nt_mkv3_m4 | MA0442.3 | oligos_6nt_mkv3_m4 | SOX10 | 0.936 | 0.468 | 12 | 6 | 6 | 12 | 0.5000 | 0.5000 | 1.0000 | D | 1 |
| oligos_6nt_mkv3_m4 | MA0523.2 | oligos_6nt_mkv3_m4 | TCF7L2 | 0.878 | 0.439 | 12 | 9 | 7 | 14 | 0.5000 | 0.5833 | 0.7778 | D | -2 |
| oligos_6nt_mkv3_m4 | MA1991.2 | oligos_6nt_mkv3_m4 | Hnf1A | 0.767 | 0.438 | 12 | 10 | 8 | 14 | 0.5714 | 0.6667 | 0.8000 | R | -2 |
| oligos_6nt_mkv3_m4 | MA1487.3 | oligos_6nt_mkv3_m4 | FOXE1 | 0.715 | 0.429 | 12 | 12 | 9 | 15 | 0.6000 | 0.7500 | 0.7500 | D | -3 |
| oligos_6nt_mkv3_m4 | MA0847.4 | oligos_6nt_mkv3_m4 | FOXD2 | 0.769 | 0.410 | 12 | 11 | 8 | 15 | 0.5333 | 0.6667 | 0.7273 | D | -3 |
| oligos_6nt_mkv3_m4 | MA0515.1 | oligos_6nt_mkv3_m4 | Sox6 | 0.709 | 0.405 | 12 | 10 | 8 | 14 | 0.5714 | 0.6667 | 0.8000 | R | -2 |
Host name rsat Job started 2026-01-05.052149 Job done 2026-01-05.052154 Seconds 0.91 user 0.92 system 0.24 cuser 3.25 ; csystem 0.31