compare-matrices -v 1 -mode matches -format1 transfac -file1 $RSAT/public_html/tmp/www-data/2026/01/04/peak-motifs.2026-01-04.215525_2026-01-04.215525_0oPAHx/results/discovered_motifs/positions_7nt_m5/peak-motifs_positions_7nt_m5.tf -format2 tf -file2 $RSAT/public_html/motif_databases/cisBP2/cisBP_Homo_sapiens_2019.tf -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/2026/01/04/peak-motifs.2026-01-04.215525_2026-01-04.215525_0oPAHx/results/discovered_motifs/positions_7nt_m5/peak-motifs_positions_7nt_m5_vs_db_cisBP_Homo_sapiens Program version 1.118 Quick mode Input files file2 $RSAT/public_html/motif_databases/cisBP2/cisBP_Homo_sapiens_2019.tf file1 $RSAT/public_html/tmp/www-data/2026/01/04/peak-motifs.2026-01-04.215525_2026-01-04.215525_0oPAHx/results/discovered_motifs/positions_7nt_m5/peak-motifs_positions_7nt_m5.tf Output files alignments_1ton $RSAT/public_html/tmp/www-data/2026/01/04/peak-motifs.2026-01-04.215525_2026-01-04.215525_0oPAHx/results/discovered_motifs/positions_7nt_m5/peak-motifs_positions_7nt_m5_vs_db_cisBP_Homo_sapiens_alignments_1ton.tab html_index $RSAT/public_html/tmp/www-data/2026/01/04/peak-motifs.2026-01-04.215525_2026-01-04.215525_0oPAHx/results/discovered_motifs/positions_7nt_m5/peak-motifs_positions_7nt_m5_vs_db_cisBP_Homo_sapiens_index.html match_table_html $RSAT/public_html/tmp/www-data/2026/01/04/peak-motifs.2026-01-04.215525_2026-01-04.215525_0oPAHx/results/discovered_motifs/positions_7nt_m5/peak-motifs_positions_7nt_m5_vs_db_cisBP_Homo_sapiens.html alignments_1ton_html $RSAT/public_html/tmp/www-data/2026/01/04/peak-motifs.2026-01-04.215525_2026-01-04.215525_0oPAHx/results/discovered_motifs/positions_7nt_m5/peak-motifs_positions_7nt_m5_vs_db_cisBP_Homo_sapiens_alignments_1ton.html match_table_txt $RSAT/public_html/tmp/www-data/2026/01/04/peak-motifs.2026-01-04.215525_2026-01-04.215525_0oPAHx/results/discovered_motifs/positions_7nt_m5/peak-motifs_positions_7nt_m5_vs_db_cisBP_Homo_sapiens.tab prefix $RSAT/public_html/tmp/www-data/2026/01/04/peak-motifs.2026-01-04.215525_2026-01-04.215525_0oPAHx/results/discovered_motifs/positions_7nt_m5/peak-motifs_positions_7nt_m5_vs_db_cisBP_Homo_sapiens Matrices file1 1 matrices $RSAT/public_html/tmp/www-data/2026/01/04/peak-motifs.2026-01-04.215525_2026-01-04.215525_0oPAHx/results/discovered_motifs/positions_7nt_m5/peak-motifs_positions_7nt_m5.tf file1 1 12 6224 file2 6607 matrices $RSAT/public_html/motif_databases/cisBP2/cisBP_Homo_sapiens_2019.tf file2 1 7 100.0001 file2 2 9 100.0001 file2 3 8 100.00002892 file2 4 9 100.0001 file2 5 10 100.0001 file2 6 11 100.00004702 file2 7 10 100.00006 file2 8 10 100.00005411 file2 9 10 100.000031 file2 10 10 100.0001 file2 11 9 100 ... 6597 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_7nt_m5 | M00136_2.00 | positions_7nt_m5 | M00136_2.00 | 0.854 | 0.640 | 12 | 9 | 9 | 12 | 0.7500 | 0.7500 | 1.0000 | D | 1 |
| positions_7nt_m5 | M08954_2.00 | positions_7nt_m5 | ZBTB14 | 0.746 | 0.559 | 12 | 9 | 9 | 12 | 0.7500 | 0.7500 | 1.0000 | D | 2 |
| positions_7nt_m5 | M04696_2.00 | positions_7nt_m5 | E2F2 | 0.721 | 0.554 | 12 | 11 | 10 | 13 | 0.7692 | 0.8333 | 0.9091 | D | 2 |
| positions_7nt_m5 | M08387_2.00 | positions_7nt_m5 | ZBTB14 | 0.727 | 0.545 | 12 | 9 | 9 | 12 | 0.7500 | 0.7500 | 1.0000 | D | 2 |
| positions_7nt_m5 | M00336_2.00 | positions_7nt_m5 | PAX6 | 0.816 | 0.544 | 12 | 8 | 8 | 12 | 0.6667 | 0.6667 | 1.0000 | R | 2 |
| positions_7nt_m5 | M08981_2.00 | positions_7nt_m5 | M08981_2.00 | 0.723 | 0.510 | 12 | 17 | 12 | 17 | 0.7059 | 1.0000 | 0.7059 | R | -1 |
| positions_7nt_m5 | M08942_2.00 | positions_7nt_m5 | MTF1 | 0.723 | 0.510 | 12 | 17 | 12 | 17 | 0.7059 | 1.0000 | 0.7059 | R | -1 |
| positions_7nt_m5 | M09525_2.00 | positions_7nt_m5 | TFDP2,TFDP3 | 0.755 | 0.504 | 12 | 8 | 8 | 12 | 0.6667 | 0.6667 | 1.0000 | R | 0 |
| positions_7nt_m5 | M08177_2.00 | positions_7nt_m5 | NRF1 | 0.781 | 0.502 | 12 | 11 | 9 | 14 | 0.6429 | 0.7500 | 0.8182 | D | -2 |
| positions_7nt_m5 | M01964_2.00 | positions_7nt_m5 | M01964_2.00 | 0.714 | 0.494 | 12 | 10 | 9 | 13 | 0.6923 | 0.7500 | 0.9000 | D | -1 |
| positions_7nt_m5 | M04698_2.00 | positions_7nt_m5 | E2F2 | 0.795 | 0.424 | 12 | 11 | 8 | 15 | 0.5333 | 0.6667 | 0.7273 | D | -3 |
Host name rsat Job started 2026-01-04.221138 Job done 2026-01-04.221143 Seconds 2.57 user 2.57 system 0.33 cuser 1.63 ; csystem 0.41