compare-matrices -v 1 -mode matches -format1 transfac -file1 $RSAT/public_html/tmp/www-data/2026/01/05/peak-motifs.2026-01-05.145905_2026-01-05.145905_RyN7XF/results/discovered_motifs/oligos_6nt_test_vs_ctrl_m1/peak-motifs_oligos_6nt_test_vs_ctrl_m1.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.2026-01-05.145905_2026-01-05.145905_RyN7XF/results/discovered_motifs/oligos_6nt_test_vs_ctrl_m1/peak-motifs_oligos_6nt_test_vs_ctrl_m1_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/2026/01/05/peak-motifs.2026-01-05.145905_2026-01-05.145905_RyN7XF/results/discovered_motifs/oligos_6nt_test_vs_ctrl_m1/peak-motifs_oligos_6nt_test_vs_ctrl_m1.tf Output files match_table_txt $RSAT/public_html/tmp/www-data/2026/01/05/peak-motifs.2026-01-05.145905_2026-01-05.145905_RyN7XF/results/discovered_motifs/oligos_6nt_test_vs_ctrl_m1/peak-motifs_oligos_6nt_test_vs_ctrl_m1_vs_db_JASPAR2024_CORE_vertebrates_non-redundant.tab prefix $RSAT/public_html/tmp/www-data/2026/01/05/peak-motifs.2026-01-05.145905_2026-01-05.145905_RyN7XF/results/discovered_motifs/oligos_6nt_test_vs_ctrl_m1/peak-motifs_oligos_6nt_test_vs_ctrl_m1_vs_db_JASPAR2024_CORE_vertebrates_non-redundant html_index $RSAT/public_html/tmp/www-data/2026/01/05/peak-motifs.2026-01-05.145905_2026-01-05.145905_RyN7XF/results/discovered_motifs/oligos_6nt_test_vs_ctrl_m1/peak-motifs_oligos_6nt_test_vs_ctrl_m1_vs_db_JASPAR2024_CORE_vertebrates_non-redundant_index.html match_table_html $RSAT/public_html/tmp/www-data/2026/01/05/peak-motifs.2026-01-05.145905_2026-01-05.145905_RyN7XF/results/discovered_motifs/oligos_6nt_test_vs_ctrl_m1/peak-motifs_oligos_6nt_test_vs_ctrl_m1_vs_db_JASPAR2024_CORE_vertebrates_non-redundant.html alignments_1ton_html $RSAT/public_html/tmp/www-data/2026/01/05/peak-motifs.2026-01-05.145905_2026-01-05.145905_RyN7XF/results/discovered_motifs/oligos_6nt_test_vs_ctrl_m1/peak-motifs_oligos_6nt_test_vs_ctrl_m1_vs_db_JASPAR2024_CORE_vertebrates_non-redundant_alignments_1ton.html alignments_1ton $RSAT/public_html/tmp/www-data/2026/01/05/peak-motifs.2026-01-05.145905_2026-01-05.145905_RyN7XF/results/discovered_motifs/oligos_6nt_test_vs_ctrl_m1/peak-motifs_oligos_6nt_test_vs_ctrl_m1_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.2026-01-05.145905_2026-01-05.145905_RyN7XF/results/discovered_motifs/oligos_6nt_test_vs_ctrl_m1/peak-motifs_oligos_6nt_test_vs_ctrl_m1.tf file1 1 11 8657 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_test_vs_ctrl_m1 | MA0627.3 | oligos_6nt_test_vs_ctrl_m1 | POU2F3 | 0.734 | 0.600 | 11 | 9 | 9 | 11 | 0.8182 | 0.8182 | 1.0000 | D | 2 |
| oligos_6nt_test_vs_ctrl_m1 | MA0043.4 | oligos_6nt_test_vs_ctrl_m1 | HLF | 0.733 | 0.600 | 11 | 9 | 9 | 11 | 0.8182 | 0.8182 | 1.0000 | D | 1 |
| oligos_6nt_test_vs_ctrl_m1 | MA0792.1 | oligos_6nt_test_vs_ctrl_m1 | POU5F1B | 0.731 | 0.598 | 11 | 9 | 9 | 11 | 0.8182 | 0.8182 | 1.0000 | D | 2 |
| oligos_6nt_test_vs_ctrl_m1 | MA0025.3 | oligos_6nt_test_vs_ctrl_m1 | NFIL3 | 0.730 | 0.597 | 11 | 9 | 9 | 11 | 0.8182 | 0.8182 | 1.0000 | D | 1 |
| oligos_6nt_test_vs_ctrl_m1 | MA0785.2 | oligos_6nt_test_vs_ctrl_m1 | POU2F1 | 0.726 | 0.594 | 11 | 9 | 9 | 11 | 0.8182 | 0.8182 | 1.0000 | D | 2 |
| oligos_6nt_test_vs_ctrl_m1 | MA0784.3 | oligos_6nt_test_vs_ctrl_m1 | POU1F1 | 0.707 | 0.556 | 11 | 14 | 11 | 14 | 0.7857 | 1.0000 | 0.7857 | R | 0 |
| oligos_6nt_test_vs_ctrl_m1 | MA0619.2 | oligos_6nt_test_vs_ctrl_m1 | LIN54 | 0.860 | 0.548 | 11 | 7 | 7 | 11 | 0.6364 | 0.6364 | 1.0000 | R | 3 |
| oligos_6nt_test_vs_ctrl_m1 | MA0507.3 | oligos_6nt_test_vs_ctrl_m1 | POU2F2 | 0.729 | 0.521 | 11 | 13 | 10 | 14 | 0.7143 | 0.9091 | 0.7692 | D | 1 |
| oligos_6nt_test_vs_ctrl_m1 | MA1115.2 | oligos_6nt_test_vs_ctrl_m1 | POU5F1 | 0.737 | 0.469 | 11 | 7 | 7 | 11 | 0.6364 | 0.6364 | 1.0000 | D | 3 |
| oligos_6nt_test_vs_ctrl_m1 | MA0909.4 | oligos_6nt_test_vs_ctrl_m1 | Hoxd13 | 0.704 | 0.448 | 11 | 7 | 7 | 11 | 0.6364 | 0.6364 | 1.0000 | R | 0 |
| oligos_6nt_test_vs_ctrl_m1 | MA0790.2 | oligos_6nt_test_vs_ctrl_m1 | POU4F1 | 0.835 | 0.445 | 11 | 12 | 8 | 15 | 0.5333 | 0.7273 | 0.6667 | R | -4 |
| oligos_6nt_test_vs_ctrl_m1 | MA0602.2 | oligos_6nt_test_vs_ctrl_m1 | Arid5a | 0.761 | 0.444 | 11 | 8 | 7 | 12 | 0.5833 | 0.6364 | 0.8750 | R | -1 |
| oligos_6nt_test_vs_ctrl_m1 | MA0791.2 | oligos_6nt_test_vs_ctrl_m1 | POU4F3 | 0.817 | 0.436 | 11 | 12 | 8 | 15 | 0.5333 | 0.7273 | 0.6667 | R | -4 |
| oligos_6nt_test_vs_ctrl_m1 | MA0151.1 | oligos_6nt_test_vs_ctrl_m1 | Arid3a | 0.762 | 0.415 | 11 | 6 | 6 | 11 | 0.5455 | 0.5455 | 1.0000 | D | 3 |
Host name rsat Job started 2026-01-05.150816 Job done 2026-01-05.150822 Seconds 1.39 user 1.4 system 0.38 cuser 4.78 ; csystem 0.47