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_m6/peak-motifs_oligos_6nt_mkv4_m6.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_m6/peak-motifs_oligos_6nt_mkv4_m6_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_m6/peak-motifs_oligos_6nt_mkv4_m6.tf Output files 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_m6/peak-motifs_oligos_6nt_mkv4_m6_vs_db_FlyFactorSurvey_index.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_m6/peak-motifs_oligos_6nt_mkv4_m6_vs_db_FlyFactorSurvey_alignments_1ton.tab 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_m6/peak-motifs_oligos_6nt_mkv4_m6_vs_db_FlyFactorSurvey.tab 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_m6/peak-motifs_oligos_6nt_mkv4_m6_vs_db_FlyFactorSurvey 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_m6/peak-motifs_oligos_6nt_mkv4_m6_vs_db_FlyFactorSurvey_alignments_1ton.html 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_m6/peak-motifs_oligos_6nt_mkv4_m6_vs_db_FlyFactorSurvey.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_m6/peak-motifs_oligos_6nt_mkv4_m6.tf file1 1 12 1239 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_m6 | srp_SANGER_5_FBgn0003507 | oligos_6nt_mkv4_m6 | srp_SANGER_5_FBgn0003507 | 0.981 | 0.654 | 12 | 8 | 8 | 12 | 0.6667 | 0.6667 | 1.0000 | D | 1 |
| oligos_6nt_mkv4_m6 | GATAd_SANGER_5_FBgn0032223 | oligos_6nt_mkv4_m6 | GATAd_SANGER_5_FBgn0032223 | 0.950 | 0.633 | 12 | 8 | 8 | 12 | 0.6667 | 0.6667 | 1.0000 | D | 1 |
| oligos_6nt_mkv4_m6 | So_SOLEXA_FBgn0003460 | oligos_6nt_mkv4_m6 | So_SOLEXA_FBgn0003460 | 0.941 | 0.627 | 12 | 8 | 8 | 12 | 0.6667 | 0.6667 | 1.0000 | R | 4 |
| oligos_6nt_mkv4_m6 | Optix_SOLEXA_FBgn0025360 | oligos_6nt_mkv4_m6 | Optix_SOLEXA_FBgn0025360 | 0.937 | 0.624 | 12 | 8 | 8 | 12 | 0.6667 | 0.6667 | 1.0000 | R | 4 |
| oligos_6nt_mkv4_m6 | Optix_Cell_FBgn0025360 | oligos_6nt_mkv4_m6 | Optix_Cell_FBgn0025360 | 0.912 | 0.608 | 12 | 8 | 8 | 12 | 0.6667 | 0.6667 | 1.0000 | R | 4 |
| oligos_6nt_mkv4_m6 | Six4_SOLEXA_FBgn0027364 | oligos_6nt_mkv4_m6 | Six4_SOLEXA_FBgn0027364 | 0.869 | 0.579 | 12 | 8 | 8 | 12 | 0.6667 | 0.6667 | 1.0000 | R | 4 |
| oligos_6nt_mkv4_m6 | GATAe_SANGER_5_FBgn0038391 | oligos_6nt_mkv4_m6 | GATAe_SANGER_5_FBgn0038391 | 0.982 | 0.573 | 12 | 7 | 7 | 12 | 0.5833 | 0.5833 | 1.0000 | R | 2 |
| oligos_6nt_mkv4_m6 | pnr_SANGER_5_FBgn0003117 | oligos_6nt_mkv4_m6 | pnr_SANGER_5_FBgn0003117 | 0.962 | 0.561 | 12 | 7 | 7 | 12 | 0.5833 | 0.5833 | 1.0000 | R | 3 |
| oligos_6nt_mkv4_m6 | br_SOLEXA_10_FBgn0000210 | oligos_6nt_mkv4_m6 | br_SOLEXA_10_FBgn0000210 | 0.704 | 0.542 | 12 | 11 | 10 | 13 | 0.7692 | 0.8333 | 0.9091 | R | -1 |
| oligos_6nt_mkv4_m6 | So_Cell_FBgn0003460 | oligos_6nt_mkv4_m6 | So_Cell_FBgn0003460 | 0.904 | 0.527 | 12 | 7 | 7 | 12 | 0.5833 | 0.5833 | 1.0000 | R | 4 |
| oligos_6nt_mkv4_m6 | exd_SOLEXA_2_FBgn0000611 | oligos_6nt_mkv4_m6 | exd_SOLEXA_2_FBgn0000611 | 0.712 | 0.475 | 12 | 8 | 8 | 12 | 0.6667 | 0.6667 | 1.0000 | R | 3 |
| oligos_6nt_mkv4_m6 | Six4_SOLEXA_2_FBgn0027364 | oligos_6nt_mkv4_m6 | Six4_SOLEXA_2_FBgn0027364 | 0.712 | 0.475 | 12 | 8 | 8 | 12 | 0.6667 | 0.6667 | 1.0000 | R | 2 |
| oligos_6nt_mkv4_m6 | br_SANGER_10_FBgn0000210 | oligos_6nt_mkv4_m6 | br_SANGER_10_FBgn0000210 | 0.720 | 0.420 | 12 | 7 | 7 | 12 | 0.5833 | 0.5833 | 1.0000 | R | 1 |
Host name rsat Job started 2025-11-26.210700 Job done 2025-11-26.210703 Seconds 0.43 user 0.43 system 0.09 cuser 1.83 ; csystem 0.36