compare-matrices -v 1 -mode matches -format1 transfac -file1 $RSAT/public_html/tmp/www-data/2025/05/16/peak-motifs.2025-05-16.175823_2025-05-16.175823_YJjJog/results/discovered_motifs/oligos_7nt_mkv2_m5/peak-motifs_oligos_7nt_mkv2_m5.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/2025/05/16/peak-motifs.2025-05-16.175823_2025-05-16.175823_YJjJog/results/discovered_motifs/oligos_7nt_mkv2_m5/peak-motifs_oligos_7nt_mkv2_m5_vs_db_JASPAR2024_CORE_vertebrates_non-redundant Program version 1.118 Quick mode Input files file2 $RSAT/public_html/motif_databases/JASPAR/Jaspar_2024/JASPAR2024_CORE_vertebrates_non-redundant_pfms_transfac.txt file1 $RSAT/public_html/tmp/www-data/2025/05/16/peak-motifs.2025-05-16.175823_2025-05-16.175823_YJjJog/results/discovered_motifs/oligos_7nt_mkv2_m5/peak-motifs_oligos_7nt_mkv2_m5.tf Output files match_table_txt $RSAT/public_html/tmp/www-data/2025/05/16/peak-motifs.2025-05-16.175823_2025-05-16.175823_YJjJog/results/discovered_motifs/oligos_7nt_mkv2_m5/peak-motifs_oligos_7nt_mkv2_m5_vs_db_JASPAR2024_CORE_vertebrates_non-redundant.tab alignments_1ton $RSAT/public_html/tmp/www-data/2025/05/16/peak-motifs.2025-05-16.175823_2025-05-16.175823_YJjJog/results/discovered_motifs/oligos_7nt_mkv2_m5/peak-motifs_oligos_7nt_mkv2_m5_vs_db_JASPAR2024_CORE_vertebrates_non-redundant_alignments_1ton.tab prefix $RSAT/public_html/tmp/www-data/2025/05/16/peak-motifs.2025-05-16.175823_2025-05-16.175823_YJjJog/results/discovered_motifs/oligos_7nt_mkv2_m5/peak-motifs_oligos_7nt_mkv2_m5_vs_db_JASPAR2024_CORE_vertebrates_non-redundant html_index $RSAT/public_html/tmp/www-data/2025/05/16/peak-motifs.2025-05-16.175823_2025-05-16.175823_YJjJog/results/discovered_motifs/oligos_7nt_mkv2_m5/peak-motifs_oligos_7nt_mkv2_m5_vs_db_JASPAR2024_CORE_vertebrates_non-redundant_index.html alignments_1ton_html $RSAT/public_html/tmp/www-data/2025/05/16/peak-motifs.2025-05-16.175823_2025-05-16.175823_YJjJog/results/discovered_motifs/oligos_7nt_mkv2_m5/peak-motifs_oligos_7nt_mkv2_m5_vs_db_JASPAR2024_CORE_vertebrates_non-redundant_alignments_1ton.html match_table_html $RSAT/public_html/tmp/www-data/2025/05/16/peak-motifs.2025-05-16.175823_2025-05-16.175823_YJjJog/results/discovered_motifs/oligos_7nt_mkv2_m5/peak-motifs_oligos_7nt_mkv2_m5_vs_db_JASPAR2024_CORE_vertebrates_non-redundant.html Matrices file1 1 matrices $RSAT/public_html/tmp/www-data/2025/05/16/peak-motifs.2025-05-16.175823_2025-05-16.175823_YJjJog/results/discovered_motifs/oligos_7nt_mkv2_m5/peak-motifs_oligos_7nt_mkv2_m5.tf file1 1 14 171 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_7nt_mkv2_m5 | MA0041.3 | oligos_7nt_mkv2_m5 | FOXD3 | 0.807 | 0.700 | 14 | 14 | 13 | 15 | 0.8667 | 0.9286 | 0.9286 | D | -1 |
| oligos_7nt_mkv2_m5 | MA0497.2 | oligos_7nt_mkv2_m5 | MEF2C | 0.766 | 0.602 | 14 | 11 | 11 | 14 | 0.7857 | 0.7857 | 1.0000 | D | 0 |
| oligos_7nt_mkv2_m5 | MA0052.5 | oligos_7nt_mkv2_m5 | MEF2A | 0.779 | 0.557 | 14 | 10 | 10 | 14 | 0.7143 | 0.7143 | 1.0000 | D | 0 |
| oligos_7nt_mkv2_m5 | MA0847.4 | oligos_7nt_mkv2_m5 | FOXD2 | 0.700 | 0.550 | 14 | 11 | 11 | 14 | 0.7857 | 0.7857 | 1.0000 | D | 2 |
| oligos_7nt_mkv2_m5 | MA2124.1 | oligos_7nt_mkv2_m5 | Hmga1 | 0.883 | 0.504 | 14 | 8 | 8 | 14 | 0.5714 | 0.5714 | 1.0000 | R | 0 |
| oligos_7nt_mkv2_m5 | MA0901.3 | oligos_7nt_mkv2_m5 | HOXB13 | 0.767 | 0.493 | 14 | 9 | 9 | 14 | 0.6429 | 0.6429 | 1.0000 | D | 3 |
| oligos_7nt_mkv2_m5 | MA1125.2 | oligos_7nt_mkv2_m5 | ZNF384 | 0.845 | 0.483 | 14 | 8 | 8 | 14 | 0.5714 | 0.5714 | 1.0000 | D | 5 |
| oligos_7nt_mkv2_m5 | MA0846.2 | oligos_7nt_mkv2_m5 | FOXC2 | 0.720 | 0.480 | 14 | 11 | 10 | 15 | 0.6667 | 0.7143 | 0.9091 | D | -1 |
| oligos_7nt_mkv2_m5 | MA0899.2 | oligos_7nt_mkv2_m5 | HOXA10 | 0.724 | 0.466 | 14 | 9 | 9 | 14 | 0.6429 | 0.6429 | 1.0000 | D | 3 |
| oligos_7nt_mkv2_m5 | MA0851.2 | oligos_7nt_mkv2_m5 | Foxj3 | 0.712 | 0.458 | 14 | 9 | 9 | 14 | 0.6429 | 0.6429 | 1.0000 | D | 2 |
| oligos_7nt_mkv2_m5 | MA1487.3 | oligos_7nt_mkv2_m5 | FOXE1 | 0.727 | 0.454 | 14 | 12 | 10 | 16 | 0.6250 | 0.7143 | 0.8333 | D | -2 |
| oligos_7nt_mkv2_m5 | MA0913.3 | oligos_7nt_mkv2_m5 | HOXD9 | 0.703 | 0.452 | 14 | 9 | 9 | 14 | 0.6429 | 0.6429 | 1.0000 | D | 3 |
| oligos_7nt_mkv2_m5 | MA0040.2 | oligos_7nt_mkv2_m5 | Foxq1 | 0.750 | 0.450 | 14 | 10 | 9 | 15 | 0.6000 | 0.6429 | 0.9000 | R | 5 |
| oligos_7nt_mkv2_m5 | MA0465.3 | oligos_7nt_mkv2_m5 | CDX2 | 0.729 | 0.417 | 14 | 8 | 8 | 14 | 0.5714 | 0.5714 | 1.0000 | D | 3 |
| oligos_7nt_mkv2_m5 | MA0650.4 | oligos_7nt_mkv2_m5 | Hoxa13 | 0.729 | 0.416 | 14 | 8 | 8 | 14 | 0.5714 | 0.5714 | 1.0000 | D | 3 |
Host name rsat Job started 2025-05-16.175952 Job done 2025-05-16.180002 Seconds 1.93 user 1.93 system 0.4 cuser 7.41 ; csystem 0.54