compare-matrices -v 1 -mode matches -format1 transfac -file1 $RSAT/public_html/tmp/www-data/2025/05/16/peak-motifs.2025-05-16.175925_2025-05-16.175925_FDRQXr/results/discovered_motifs/oligos_6nt_mkv1_m3/peak-motifs_oligos_6nt_mkv1_m3.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.2025-05-16.175925_2025-05-16.175925_FDRQXr/results/discovered_motifs/oligos_6nt_mkv1_m3/peak-motifs_oligos_6nt_mkv1_m3_vs_db_JASPAR2024_CORE_vertebrates_non-redundant Program version 1.118 Quick mode Input files file1 $RSAT/public_html/tmp/www-data/2025/05/16/peak-motifs.2025-05-16.175925_2025-05-16.175925_FDRQXr/results/discovered_motifs/oligos_6nt_mkv1_m3/peak-motifs_oligos_6nt_mkv1_m3.tf file2 $RSAT/public_html/motif_databases/JASPAR/Jaspar_2024/JASPAR2024_CORE_vertebrates_non-redundant_pfms_transfac.txt Output files match_table_txt $RSAT/public_html/tmp/www-data/2025/05/16/peak-motifs.2025-05-16.175925_2025-05-16.175925_FDRQXr/results/discovered_motifs/oligos_6nt_mkv1_m3/peak-motifs_oligos_6nt_mkv1_m3_vs_db_JASPAR2024_CORE_vertebrates_non-redundant.tab match_table_html $RSAT/public_html/tmp/www-data/2025/05/16/peak-motifs.2025-05-16.175925_2025-05-16.175925_FDRQXr/results/discovered_motifs/oligos_6nt_mkv1_m3/peak-motifs_oligos_6nt_mkv1_m3_vs_db_JASPAR2024_CORE_vertebrates_non-redundant.html alignments_1ton $RSAT/public_html/tmp/www-data/2025/05/16/peak-motifs.2025-05-16.175925_2025-05-16.175925_FDRQXr/results/discovered_motifs/oligos_6nt_mkv1_m3/peak-motifs_oligos_6nt_mkv1_m3_vs_db_JASPAR2024_CORE_vertebrates_non-redundant_alignments_1ton.tab prefix $RSAT/public_html/tmp/www-data/2025/05/16/peak-motifs.2025-05-16.175925_2025-05-16.175925_FDRQXr/results/discovered_motifs/oligos_6nt_mkv1_m3/peak-motifs_oligos_6nt_mkv1_m3_vs_db_JASPAR2024_CORE_vertebrates_non-redundant alignments_1ton_html $RSAT/public_html/tmp/www-data/2025/05/16/peak-motifs.2025-05-16.175925_2025-05-16.175925_FDRQXr/results/discovered_motifs/oligos_6nt_mkv1_m3/peak-motifs_oligos_6nt_mkv1_m3_vs_db_JASPAR2024_CORE_vertebrates_non-redundant_alignments_1ton.html html_index $RSAT/public_html/tmp/www-data/2025/05/16/peak-motifs.2025-05-16.175925_2025-05-16.175925_FDRQXr/results/discovered_motifs/oligos_6nt_mkv1_m3/peak-motifs_oligos_6nt_mkv1_m3_vs_db_JASPAR2024_CORE_vertebrates_non-redundant_index.html Matrices file1 1 matrices $RSAT/public_html/tmp/www-data/2025/05/16/peak-motifs.2025-05-16.175925_2025-05-16.175925_FDRQXr/results/discovered_motifs/oligos_6nt_mkv1_m3/peak-motifs_oligos_6nt_mkv1_m3.tf file1 1 10 5 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_mkv1_m3 | MA0143.5 | oligos_6nt_mkv1_m3 | SOX2 | 0.826 | 0.578 | 10 | 7 | 7 | 10 | 0.7000 | 0.7000 | 1.0000 | R | 0 |
| oligos_6nt_mkv1_m3 | MA0514.3 | oligos_6nt_mkv1_m3 | Sox3 | 0.822 | 0.575 | 10 | 7 | 7 | 10 | 0.7000 | 0.7000 | 1.0000 | R | 0 |
| oligos_6nt_mkv1_m3 | MA1120.2 | oligos_6nt_mkv1_m3 | SOX13 | 0.819 | 0.574 | 10 | 7 | 7 | 10 | 0.7000 | 0.7000 | 1.0000 | R | 0 |
| oligos_6nt_mkv1_m3 | MA1152.2 | oligos_6nt_mkv1_m3 | SOX15 | 0.767 | 0.537 | 10 | 7 | 7 | 10 | 0.7000 | 0.7000 | 1.0000 | D | 0 |
| oligos_6nt_mkv1_m3 | MA0102.5 | oligos_6nt_mkv1_m3 | CEBPA | 0.791 | 0.528 | 10 | 10 | 8 | 12 | 0.6667 | 0.8000 | 0.8000 | R | 2 |
| oligos_6nt_mkv1_m3 | MA0836.3 | oligos_6nt_mkv1_m3 | CEBPD | 0.783 | 0.498 | 10 | 8 | 7 | 11 | 0.6364 | 0.7000 | 0.8750 | R | 3 |
| oligos_6nt_mkv1_m3 | MA1994.2 | oligos_6nt_mkv1_m3 | Nkx2-1 | 0.792 | 0.432 | 10 | 7 | 6 | 11 | 0.5455 | 0.6000 | 0.8571 | R | -1 |
| oligos_6nt_mkv1_m3 | MA0479.2 | oligos_6nt_mkv1_m3 | FOXH1 | 0.813 | 0.407 | 10 | 8 | 6 | 12 | 0.5000 | 0.6000 | 0.7500 | R | 4 |
Host name rsat Job started 2025-05-16.180007 Job done 2025-05-16.180013 Seconds 1.23 user 1.23 system 0.24 cuser 4.29 ; csystem 0.39