compare-matrices -v 1 -mode matches -format1 transfac -file1 $RSAT/public_html/tmp/www-data/2026/04/21/peak-motifs.2026-04-21.015247_2026-04-21.015247_DTyOML/results/discovered_motifs/peak-motifs_motifs_discovered.tf -format2 tf -file2 $RSAT/public_html/motif_databases/JASPAR/Jaspar_2024/JASPAR2024_CORE_nematodes_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/2026/04/21/peak-motifs.2026-04-21.015247_2026-04-21.015247_DTyOML/results/discovered_vs_db/peak-motifs_motifs_vs_db_JASPAR2024_CORE_nematodes_non-redundant.tab Program version 1.118 Quick mode Input files file2 $RSAT/public_html/motif_databases/JASPAR/Jaspar_2024/JASPAR2024_CORE_nematodes_non-redundant_pfms_transfac.txt file1 $RSAT/public_html/tmp/www-data/2026/04/21/peak-motifs.2026-04-21.015247_2026-04-21.015247_DTyOML/results/discovered_motifs/peak-motifs_motifs_discovered.tf Output files match_table_html $RSAT/public_html/tmp/www-data/2026/04/21/peak-motifs.2026-04-21.015247_2026-04-21.015247_DTyOML/results/discovered_vs_db/peak-motifs_motifs_vs_db_JASPAR2024_CORE_nematodes_non-redundant.html html_index $RSAT/public_html/tmp/www-data/2026/04/21/peak-motifs.2026-04-21.015247_2026-04-21.015247_DTyOML/results/discovered_vs_db/peak-motifs_motifs_vs_db_JASPAR2024_CORE_nematodes_non-redundant_index.html prefix $RSAT/public_html/tmp/www-data/2026/04/21/peak-motifs.2026-04-21.015247_2026-04-21.015247_DTyOML/results/discovered_vs_db/peak-motifs_motifs_vs_db_JASPAR2024_CORE_nematodes_non-redundant match_table_txt $RSAT/public_html/tmp/www-data/2026/04/21/peak-motifs.2026-04-21.015247_2026-04-21.015247_DTyOML/results/discovered_vs_db/peak-motifs_motifs_vs_db_JASPAR2024_CORE_nematodes_non-redundant.tab alignments_1ton $RSAT/public_html/tmp/www-data/2026/04/21/peak-motifs.2026-04-21.015247_2026-04-21.015247_DTyOML/results/discovered_vs_db/peak-motifs_motifs_vs_db_JASPAR2024_CORE_nematodes_non-redundant_alignments_1ton.tab alignments_1ton_html $RSAT/public_html/tmp/www-data/2026/04/21/peak-motifs.2026-04-21.015247_2026-04-21.015247_DTyOML/results/discovered_vs_db/peak-motifs_motifs_vs_db_JASPAR2024_CORE_nematodes_non-redundant_alignments_1ton.html Matrices file1 2 matrices $RSAT/public_html/tmp/www-data/2026/04/21/peak-motifs.2026-04-21.015247_2026-04-21.015247_DTyOML/results/discovered_motifs/peak-motifs_motifs_discovered.tf file1 1 11 82 file1 2 10 507 file2 103 matrices $RSAT/public_html/motif_databases/JASPAR/Jaspar_2024/JASPAR2024_CORE_nematodes_non-redundant_pfms_transfac.txt file2 1 6 37 file2 2 6 159 file2 3 14 29 file2 4 11 3368 file2 5 12 310 file2 6 10 1010 file2 7 8 1001 file2 8 8 1000 file2 9 8 1001 file2 10 8 999 file2 11 10 4958 ... 93 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 |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| positions_6nt_m2 | MA1440.1 | positions_6nt_m2 | fkh-9 | 0.745 | 0.596 | 10 | 8 | 8 | 10 | 0.8000 | 0.8000 | 1.0000 | D | 1 |
| positions_6nt_m1 | MA2179.1 | positions_6nt_m1 | ceh-10 | 0.723 | 0.500 | 11 | 11 | 9 | 13 | 0.6923 | 0.8182 | 0.8182 | R | 2 |
| positions_6nt_m2 | MA2173.1 | positions_6nt_m2 | mef-2 | 0.873 | 0.476 | 10 | 7 | 6 | 11 | 0.5455 | 0.6000 | 0.8571 | D | 4 |
Host name rsat Job started 2026-04-21.015309 Job done 2026-04-21.015310 Seconds 0.15 user 0.16 system 0.06 cuser 0.62 ; csystem 0.14