compare-matrices -v 1 -mode matches -format1 transfac -file1 $RSAT/public_html/tmp/www-data/2025/11/26/peak-motifs.2025-11-26.205219_2025-11-26.205219_vuDZlG/results/discovered_motifs/oligos_6nt_mkv4_m8/peak-motifs_oligos_6nt_mkv4_m8.tf -format2 tf -file2 $RSAT/public_html/motif_databases/FlyFactorSurvey/PWM_FlyFactorSurvey_2016.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/2025/11/26/peak-motifs.2025-11-26.205219_2025-11-26.205219_vuDZlG/results/discovered_motifs/oligos_6nt_mkv4_m8/peak-motifs_oligos_6nt_mkv4_m8_vs_db_FlyFactorSurvey Program version 1.118 Quick mode Input files file2 $RSAT/public_html/motif_databases/FlyFactorSurvey/PWM_FlyFactorSurvey_2016.tf file1 $RSAT/public_html/tmp/www-data/2025/11/26/peak-motifs.2025-11-26.205219_2025-11-26.205219_vuDZlG/results/discovered_motifs/oligos_6nt_mkv4_m8/peak-motifs_oligos_6nt_mkv4_m8.tf Output files prefix $RSAT/public_html/tmp/www-data/2025/11/26/peak-motifs.2025-11-26.205219_2025-11-26.205219_vuDZlG/results/discovered_motifs/oligos_6nt_mkv4_m8/peak-motifs_oligos_6nt_mkv4_m8_vs_db_FlyFactorSurvey match_table_txt $RSAT/public_html/tmp/www-data/2025/11/26/peak-motifs.2025-11-26.205219_2025-11-26.205219_vuDZlG/results/discovered_motifs/oligos_6nt_mkv4_m8/peak-motifs_oligos_6nt_mkv4_m8_vs_db_FlyFactorSurvey.tab match_table_html $RSAT/public_html/tmp/www-data/2025/11/26/peak-motifs.2025-11-26.205219_2025-11-26.205219_vuDZlG/results/discovered_motifs/oligos_6nt_mkv4_m8/peak-motifs_oligos_6nt_mkv4_m8_vs_db_FlyFactorSurvey.html alignments_1ton $RSAT/public_html/tmp/www-data/2025/11/26/peak-motifs.2025-11-26.205219_2025-11-26.205219_vuDZlG/results/discovered_motifs/oligos_6nt_mkv4_m8/peak-motifs_oligos_6nt_mkv4_m8_vs_db_FlyFactorSurvey_alignments_1ton.tab alignments_1ton_html $RSAT/public_html/tmp/www-data/2025/11/26/peak-motifs.2025-11-26.205219_2025-11-26.205219_vuDZlG/results/discovered_motifs/oligos_6nt_mkv4_m8/peak-motifs_oligos_6nt_mkv4_m8_vs_db_FlyFactorSurvey_alignments_1ton.html html_index $RSAT/public_html/tmp/www-data/2025/11/26/peak-motifs.2025-11-26.205219_2025-11-26.205219_vuDZlG/results/discovered_motifs/oligos_6nt_mkv4_m8/peak-motifs_oligos_6nt_mkv4_m8_vs_db_FlyFactorSurvey_index.html Matrices file1 1 matrices $RSAT/public_html/tmp/www-data/2025/11/26/peak-motifs.2025-11-26.205219_2025-11-26.205219_vuDZlG/results/discovered_motifs/oligos_6nt_mkv4_m8/peak-motifs_oligos_6nt_mkv4_m8.tf file1 1 10 1533 file2 652 matrices $RSAT/public_html/motif_databases/FlyFactorSurvey/PWM_FlyFactorSurvey_2016.tf file2 1 21 20 file2 2 26 461 file2 3 8 37 file2 4 8 7 file2 5 7 18 file2 6 8 662 file2 7 9 21 file2 8 8 2704 file2 9 8 19 file2 10 8 19 file2 11 7 23 ... 642 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_mkv4_m8 | Ara_Cell_FBgn0015904 | oligos_6nt_mkv4_m8 | Ara_Cell_FBgn0015904 | 0.728 | 0.582 | 10 | 8 | 8 | 10 | 0.8000 | 0.8000 | 1.0000 | D | 1 |
| oligos_6nt_mkv4_m8 | grh_FlyReg_FBgn0259211 | oligos_6nt_mkv4_m8 | grh_FlyReg_FBgn0259211 | 0.710 | 0.581 | 10 | 10 | 9 | 11 | 0.8182 | 0.9000 | 0.9000 | R | 1 |
| oligos_6nt_mkv4_m8 | pan_FlyReg_FBgn0085432 | oligos_6nt_mkv4_m8 | pan_FlyReg_FBgn0085432 | 0.790 | 0.503 | 10 | 8 | 7 | 11 | 0.6364 | 0.7000 | 0.8750 | R | -1 |
| oligos_6nt_mkv4_m8 | jim_F1-9_SOLEXA_2.5_FBgn0027339 | oligos_6nt_mkv4_m8 | jim_F1-9_SOLEXA_2.5_FBgn0027339 | 0.734 | 0.489 | 10 | 15 | 10 | 15 | 0.6667 | 1.0000 | 0.6667 | D | -2 |
| oligos_6nt_mkv4_m8 | Exd_Cell_FBgn0000611 | oligos_6nt_mkv4_m8 | Exd_Cell_FBgn0000611 | 0.731 | 0.465 | 10 | 8 | 7 | 11 | 0.6364 | 0.7000 | 0.8750 | R | -1 |
| oligos_6nt_mkv4_m8 | Ara_SOLEXA_FBgn0015904 | oligos_6nt_mkv4_m8 | Ara_SOLEXA_FBgn0015904 | 0.743 | 0.446 | 10 | 6 | 6 | 10 | 0.6000 | 0.6000 | 1.0000 | D | 3 |
| oligos_6nt_mkv4_m8 | exd_FlyReg_FBgn0000611 | oligos_6nt_mkv4_m8 | exd_FlyReg_FBgn0000611 | 0.806 | 0.434 | 10 | 10 | 7 | 13 | 0.5385 | 0.7000 | 0.7000 | R | -3 |
| oligos_6nt_mkv4_m8 | Mirr_SOLEXA_FBgn0014343 | oligos_6nt_mkv4_m8 | Mirr_SOLEXA_FBgn0014343 | 0.709 | 0.425 | 10 | 6 | 6 | 10 | 0.6000 | 0.6000 | 1.0000 | D | 3 |
| oligos_6nt_mkv4_m8 | sage_da_SANGER_5_FBgn0000413 | oligos_6nt_mkv4_m8 | sage_da_SANGER_5_FBgn0000413 | 0.832 | 0.416 | 10 | 11 | 7 | 14 | 0.5000 | 0.7000 | 0.6364 | D | 3 |
| oligos_6nt_mkv4_m8 | Side_SANGER_5_FBgn0032741 | oligos_6nt_mkv4_m8 | Side_SANGER_5_FBgn0032741 | 0.832 | 0.416 | 10 | 11 | 7 | 14 | 0.5000 | 0.7000 | 0.6364 | D | 3 |
| oligos_6nt_mkv4_m8 | sage_da_SANGER_5_FBgn0037672 | oligos_6nt_mkv4_m8 | sage_da_SANGER_5_FBgn0037672 | 0.832 | 0.416 | 10 | 11 | 7 | 14 | 0.5000 | 0.7000 | 0.6364 | D | 3 |
Host name rsat Job started 2025-11-26.210704 Job done 2025-11-26.210707 Seconds 0.41 user 0.41 system 0.12 cuser 1.53 ; csystem 0.31