compare-matrices -v 1 -mode matches -format1 transfac -file1 $RSAT/public_html/tmp/www-data/2025/03/02/peak-motifs.2025-03-02.091145_2025-03-02.091145_IYXNXa/results/discovered_motifs/dyads_m2/peak-motifs_dyads_m2.tf -format2 tf -file2 $RSAT/public_html/motif_databases/footprintDB/footprintDB.motif.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/2025/03/02/peak-motifs.2025-03-02.091145_2025-03-02.091145_IYXNXa/results/discovered_motifs/dyads_m2/peak-motifs_dyads_m2_vs_db_footprintDB Program version 1.118 Quick mode Input files file2 $RSAT/public_html/motif_databases/footprintDB/footprintDB.motif.tf file1 $RSAT/public_html/tmp/www-data/2025/03/02/peak-motifs.2025-03-02.091145_2025-03-02.091145_IYXNXa/results/discovered_motifs/dyads_m2/peak-motifs_dyads_m2.tf Output files alignments_1ton $RSAT/public_html/tmp/www-data/2025/03/02/peak-motifs.2025-03-02.091145_2025-03-02.091145_IYXNXa/results/discovered_motifs/dyads_m2/peak-motifs_dyads_m2_vs_db_footprintDB_alignments_1ton.tab html_index $RSAT/public_html/tmp/www-data/2025/03/02/peak-motifs.2025-03-02.091145_2025-03-02.091145_IYXNXa/results/discovered_motifs/dyads_m2/peak-motifs_dyads_m2_vs_db_footprintDB_index.html match_table_txt $RSAT/public_html/tmp/www-data/2025/03/02/peak-motifs.2025-03-02.091145_2025-03-02.091145_IYXNXa/results/discovered_motifs/dyads_m2/peak-motifs_dyads_m2_vs_db_footprintDB.tab prefix $RSAT/public_html/tmp/www-data/2025/03/02/peak-motifs.2025-03-02.091145_2025-03-02.091145_IYXNXa/results/discovered_motifs/dyads_m2/peak-motifs_dyads_m2_vs_db_footprintDB match_table_html $RSAT/public_html/tmp/www-data/2025/03/02/peak-motifs.2025-03-02.091145_2025-03-02.091145_IYXNXa/results/discovered_motifs/dyads_m2/peak-motifs_dyads_m2_vs_db_footprintDB.html alignments_1ton_html $RSAT/public_html/tmp/www-data/2025/03/02/peak-motifs.2025-03-02.091145_2025-03-02.091145_IYXNXa/results/discovered_motifs/dyads_m2/peak-motifs_dyads_m2_vs_db_footprintDB_alignments_1ton.html Matrices file1 1 matrices $RSAT/public_html/tmp/www-data/2025/03/02/peak-motifs.2025-03-02.091145_2025-03-02.091145_IYXNXa/results/discovered_motifs/dyads_m2/peak-motifs_dyads_m2.tf file1 1 20 31 file2 13863 matrices $RSAT/public_html/motif_databases/footprintDB/footprintDB.motif.tf file2 1 17 1.01 file2 2 7 96 file2 3 8 5 file2 4 8 3 file2 5 8 5 file2 6 8 1 file2 7 8 2 file2 8 8 2 file2 9 8 6 file2 10 8 2 file2 11 8 8 ... 13853 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 |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| dyads_m2 | CG1856/ttk-PF_SOLEXA_FBgn0003870/FlyZincFinger | dyads_m2 | CG1856:ttk-PF_SOLEXA_FBgn0003870:FlyZincFinger | 0.823 | 0.453 | 20 | 11 | 11 | 20 | 0.5500 | 0.5500 | 1.0000 | D | 0 |
| dyads_m2 | Signal/4y5w_AC/3D-footprint | dyads_m2 | Signal:4y5w_AC:3D-footprint | 0.798 | 0.435 | 20 | 14 | 12 | 22 | 0.5455 | 0.6000 | 0.8571 | D | -2 |
| dyads_m2 | RS1/5mhk_CDJ/3D-footprint | dyads_m2 | RS1:5mhk_CDJ:3D-footprint | 0.711 | 0.427 | 20 | 12 | 12 | 20 | 0.6000 | 0.6000 | 1.0000 | D | 7 |
| dyads_m2 | Erf-a/MA1853.1/JASPAR | dyads_m2 | Erf-a:MA1853.1:JASPAR | 0.705 | 0.423 | 20 | 20 | 15 | 25 | 0.6000 | 0.7500 | 0.7500 | D | -5 |
| dyads_m2 | EFNCRG00000000350/M1766_1.02/CISBP | dyads_m2 | EFNCRG00000000350:M1766_1.02:CISBP | 0.832 | 0.416 | 20 | 10 | 10 | 20 | 0.5000 | 0.5000 | 1.0000 | D | 9 |
| dyads_m2 | FLI1_HUMAN.H10MO.A|M01137/FLI1_HUMAN.H10MO.A|M01137/HOCOMOCO | dyads_m2 | FLI1_HUMAN.H10MO.A|M01137:FLI1_HUMAN.H10MO.A|M01137:HOCOMOCO | 0.715 | 0.408 | 20 | 13 | 12 | 21 | 0.5714 | 0.6000 | 0.9231 | D | -1 |
| dyads_m2 | aod-5/M1735_1.02/CISBP | dyads_m2 | aod-5:M1735_1.02:CISBP | 0.803 | 0.401 | 20 | 10 | 10 | 20 | 0.5000 | 0.5000 | 1.0000 | D | 9 |
Host name rsat Job started 2025-03-02.091227 Job done 2025-03-02.091233 Seconds 5.6 user 5.6 system 0.13 cuser 0.52 ; csystem 0.06