compare-matrices -v 1 -mode matches -format1 transfac -file1 $RSAT/public_html/tmp/www-data/2025/05/21/peak-motifs.2025-05-21.033913_2025-05-21.033913_SwV7J2/results/discovered_motifs/oligos_7nt_mkv2_m1/peak-motifs_oligos_7nt_mkv2_m1.tf -format2 tf -file2 $RSAT/public_html/motif_databases/footprintDB/footprintDB.plants.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/2025/05/21/peak-motifs.2025-05-21.033913_2025-05-21.033913_SwV7J2/results/discovered_motifs/oligos_7nt_mkv2_m1/peak-motifs_oligos_7nt_mkv2_m1_vs_db_footprintDB-plants Program version 1.118 Quick mode Input files file1 $RSAT/public_html/tmp/www-data/2025/05/21/peak-motifs.2025-05-21.033913_2025-05-21.033913_SwV7J2/results/discovered_motifs/oligos_7nt_mkv2_m1/peak-motifs_oligos_7nt_mkv2_m1.tf file2 $RSAT/public_html/motif_databases/footprintDB/footprintDB.plants.motif.tf Output files html_index $RSAT/public_html/tmp/www-data/2025/05/21/peak-motifs.2025-05-21.033913_2025-05-21.033913_SwV7J2/results/discovered_motifs/oligos_7nt_mkv2_m1/peak-motifs_oligos_7nt_mkv2_m1_vs_db_footprintDB-plants_index.html alignments_1ton $RSAT/public_html/tmp/www-data/2025/05/21/peak-motifs.2025-05-21.033913_2025-05-21.033913_SwV7J2/results/discovered_motifs/oligos_7nt_mkv2_m1/peak-motifs_oligos_7nt_mkv2_m1_vs_db_footprintDB-plants_alignments_1ton.tab match_table_html $RSAT/public_html/tmp/www-data/2025/05/21/peak-motifs.2025-05-21.033913_2025-05-21.033913_SwV7J2/results/discovered_motifs/oligos_7nt_mkv2_m1/peak-motifs_oligos_7nt_mkv2_m1_vs_db_footprintDB-plants.html match_table_txt $RSAT/public_html/tmp/www-data/2025/05/21/peak-motifs.2025-05-21.033913_2025-05-21.033913_SwV7J2/results/discovered_motifs/oligos_7nt_mkv2_m1/peak-motifs_oligos_7nt_mkv2_m1_vs_db_footprintDB-plants.tab alignments_1ton_html $RSAT/public_html/tmp/www-data/2025/05/21/peak-motifs.2025-05-21.033913_2025-05-21.033913_SwV7J2/results/discovered_motifs/oligos_7nt_mkv2_m1/peak-motifs_oligos_7nt_mkv2_m1_vs_db_footprintDB-plants_alignments_1ton.html prefix $RSAT/public_html/tmp/www-data/2025/05/21/peak-motifs.2025-05-21.033913_2025-05-21.033913_SwV7J2/results/discovered_motifs/oligos_7nt_mkv2_m1/peak-motifs_oligos_7nt_mkv2_m1_vs_db_footprintDB-plants Matrices file1 1 matrices $RSAT/public_html/tmp/www-data/2025/05/21/peak-motifs.2025-05-21.033913_2025-05-21.033913_SwV7J2/results/discovered_motifs/oligos_7nt_mkv2_m1/peak-motifs_oligos_7nt_mkv2_m1.tf file1 1 11 125 file2 2958 matrices $RSAT/public_html/motif_databases/footprintDB/footprintDB.plants.motif.tf file2 1 8 5 file2 2 8 3 file2 3 8 5 file2 4 8 1 file2 5 8 2 file2 6 8 2 file2 7 8 6 file2 8 8 2 file2 9 8 8 file2 10 8 1 file2 11 8 4 ... 2948 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_7nt_mkv2_m1 | TGA5_2/EEAD0137/EEADannot | oligos_7nt_mkv2_m1 | TGA5_2:EEAD0137:EEADannot | 0.768 | 0.563 | 11 | 15 | 11 | 15 | 0.7333 | 1.0000 | 0.7333 | R | -2 |
| oligos_7nt_mkv2_m1 | ONAC127/UN0429.2/JASPAR | oligos_7nt_mkv2_m1 | ONAC127:UN0429.2:JASPAR | 0.864 | 0.550 | 11 | 7 | 7 | 11 | 0.6364 | 0.6364 | 1.0000 | R | 4 |
| oligos_7nt_mkv2_m1 | ONAC127/UN0430.1/JASPAR | oligos_7nt_mkv2_m1 | ONAC127:UN0430.1:JASPAR | 0.705 | 0.542 | 11 | 12 | 10 | 13 | 0.7692 | 0.9091 | 0.8333 | R | 1 |
| oligos_7nt_mkv2_m1 | ONAC127/UN0429.1/JASPAR | oligos_7nt_mkv2_m1 | ONAC127:UN0429.1:JASPAR | 0.766 | 0.530 | 11 | 11 | 9 | 13 | 0.6923 | 0.8182 | 0.8182 | R | 2 |
| oligos_7nt_mkv2_m1 | ONAC127/UN0430.2/JASPAR | oligos_7nt_mkv2_m1 | ONAC127:UN0430.2:JASPAR | 0.719 | 0.523 | 11 | 8 | 8 | 11 | 0.7273 | 0.7273 | 1.0000 | R | 3 |
| oligos_7nt_mkv2_m1 | bZIP11:bZIP9_2/EEAD0113/EEADannot | oligos_7nt_mkv2_m1 | bZIP11:bZIP9_2:EEAD0113:EEADannot | 0.723 | 0.482 | 11 | 14 | 10 | 15 | 0.6667 | 0.9091 | 0.7143 | D | 1 |
| oligos_7nt_mkv2_m1 | bZIP44_2/EEAD0099/EEADannot | oligos_7nt_mkv2_m1 | bZIP44_2:EEAD0099:EEADannot | 0.732 | 0.458 | 11 | 15 | 10 | 16 | 0.6250 | 0.9091 | 0.6667 | R | 1 |
| oligos_7nt_mkv2_m1 | TF3A.DAP/M0328/AthalianaCistrome | oligos_7nt_mkv2_m1 | TF3A.DAP:M0328:AthalianaCistrome | 0.769 | 0.445 | 11 | 19 | 11 | 19 | 0.5789 | 1.0000 | 0.5789 | D | -4 |
Host name rsat Job started 2025-05-21.034005 Job done 2025-05-21.034006 Seconds 1.27 user 1.27 system 0.06 cuser 0.24 ; csystem 0.02