; 2026-03-19.135315
peak-motifs  -v 1 -title iggonly_ecoli_wenbo_brac_2 -i $RSAT/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/peak-motifspeak_seq -max_seq_len 1000 -markov auto -disco oligos,positions -nmotifs 10 -minol 6 -maxol 7 -no_merge_lengths -2str -origin center -motif_db JASPAR2024_CORE_vertebrates_non-redundant tf $RSAT/public_html/motif_databases/JASPAR/Jaspar_2024/JASPAR2024_CORE_vertebrates_non-redundant_pfms_transfac.txt -scan_markov 1 -task purge,seqlen,composition,disco,merge_motifs,split_motifs,motifs_vs_motifs,timelog,archive,synthesis,small_summary,motifs_vs_db,scan -prefix peak-motifs -noov -img_format png -outdir $RSAT/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35



; 2026-03-19.135315
rsync -ruptl $RSAT/perl-scripts/lib/images/arrow*.gif $RSAT/perl-scripts/lib/images/UCSC_icon.jpg  $RSAT/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/images_html


; 2026-03-19.135315
$RSAT/perl-scripts/convert-seq -i $RSAT/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/peak-motifspeak_seq -from fasta -to fasta -mask non-dna | $RSAT/perl-scripts/sub-sequence -origin center -from -500 -to 499 -o $RSAT/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/data/sequences/peak-motifs_test_maxlen1000.fasta


; 2026-03-19.135315
$RSAT/perl-scripts/purge-sequence -dna -i $RSAT/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/data/sequences/peak-motifs_test_maxlen1000.fasta -ml 40 -mis 3 -o $RSAT/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/data/sequences/peak-motifs_test_maxlen1000_purged_ml40_mis3.fasta


; 2026-03-19.135316
$RSAT/perl-scripts/sequence-lengths -i $RSAT/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/data/sequences/peak-motifs_test_maxlen1000_purged_ml40_mis3.fasta -o $RSAT/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/data/sequences/peak-motifs_test_seqlen.tab ; $RSAT/perl-scripts/classfreq -v 1 -col 2 -i $RSAT/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/data/sequences/peak-motifs_test_seqlen.tab -ci 20 -o $RSAT/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/data/sequences/peak-motifs_test_seqlen_distrib.tab


; 2026-03-19.135316
$RSAT/perl-scripts/XYgraph -lines -pointsize 0 -format png -title 'Peak lengths; iggonly_ecoli_wenbo_brac_2' -xsize 700 -xcol 3 -xleg1 'Peak length' -ysize 250 -ycol 4 -yleg1 'Number of peaks' -xmin 0 -ymin 0 -xgstep2 20 -i $RSAT/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/data/sequences/peak-motifs_test_seqlen_distrib.tab -o $RSAT/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/data/sequences/peak-motifs_test_seqlen_distrib.png


; 2026-03-19.135316
time -o $RSAT/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/composition/peak-motifs_test_freq-1str-ovlp_1nt.tab_time.txt $RSAT/bin/count-words -v 1 -i $RSAT/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/data/sequences/peak-motifs_test_maxlen1000_purged_ml40_mis3.fasta -l 1 -1str -o $RSAT/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/composition/peak-motifs_test_freq-1str-ovlp_1nt.tab


; 2026-03-19.135316
$RSAT/perl-scripts/convert-background-model -from oligos -to inclusive  -i $RSAT/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/composition/peak-motifs_test_freq-1str-ovlp_1nt.tab -o $RSAT/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/composition/peak-motifs_test_inclusive-1str-ovlp_1nt.txt; $RSAT/perl-scripts/convert-background-model -from oligos -to transitions  -i $RSAT/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/composition/peak-motifs_test_freq-1str-ovlp_1nt.tab -o $RSAT/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/composition/peak-motifs_test_transitions-1str-ovlp_1nt.tab ; cut -f 1-5,7 $RSAT/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/composition/peak-motifs_test_transitions-1str-ovlp_1nt.tab | $RSAT/perl-scripts/draw-heatmap -min 0 -max 1 -digits 3 -out_format png -col_width 50 -rownames -o $RSAT/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/composition/peak-motifs_test_heatmap-1str-ovlp_1nt.png


; 2026-03-19.135317
time -o $RSAT/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/composition/peak-motifs_test_freq-1str-ovlp_2nt.tab_time.txt $RSAT/bin/count-words -v 1 -i $RSAT/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/data/sequences/peak-motifs_test_maxlen1000_purged_ml40_mis3.fasta -l 2 -1str -o $RSAT/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/composition/peak-motifs_test_freq-1str-ovlp_2nt.tab


; 2026-03-19.135317
$RSAT/perl-scripts/convert-background-model -from oligos -to inclusive  -i $RSAT/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/composition/peak-motifs_test_freq-1str-ovlp_2nt.tab -o $RSAT/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/composition/peak-motifs_test_inclusive-1str-ovlp_2nt.txt; $RSAT/perl-scripts/convert-background-model -from oligos -to transitions  -i $RSAT/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/composition/peak-motifs_test_freq-1str-ovlp_2nt.tab -o $RSAT/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/composition/peak-motifs_test_transitions-1str-ovlp_2nt.tab ; cut -f 1-5,7 $RSAT/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/composition/peak-motifs_test_transitions-1str-ovlp_2nt.tab | $RSAT/perl-scripts/draw-heatmap -min 0 -max 1 -digits 3 -out_format png -col_width 50 -rownames -o $RSAT/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/composition/peak-motifs_test_heatmap-1str-ovlp_2nt.png


; 2026-03-19.135317
time -o $RSAT/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/composition/peak-motifs_test_profiles-1str-ovlp_1nt_ci20.tab_time.txt $RSAT/perl-scripts/position-analysis -v 1 -i $RSAT/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/data/sequences/peak-motifs_test_maxlen1000_purged_ml40_mis3.fasta -format fasta -sort  -return html,chi,sig,distrib,graphs,rank,index -max_graphs 20 -1str -ovlp -seqtype dna -l 1 -ci 20 -img_format png -title 'iggonly_ecoli_wenbo_brac_2' -origin center -offset 0 -o $RSAT/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/composition/peak-motifs_test_profiles-1str-ovlp_1nt_ci20.tab


; 2026-03-19.135319
grep -v ";" $RSAT/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/composition/peak-motifs_test_profiles-1str-ovlp_1nt_ci20.tab | cut -f 1,10-10000 | $RSAT/perl-scripts/transpose-table | $RSAT/perl-scripts/XYgraph -xcol 1 -ycol 2-5 -xgstep2 20 -vline '#666666' 0 -xsize 700 -ysize 250 -format png -legend -lines -pointsize 0 -legend -header -colors $RSAT/perl-scripts/lib/color_palettes/1nt-1str_colors.tab -title 'Nucleotide composition profiles; test sequence; iggonly_ecoli_wenbo_brac_2' -xleg1 'Position' -xsize 700 -yleg1 'Occurrences' -ysize 250  -ymin 0 -o $RSAT/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/composition/peak-motifs_test_profiles-1str-ovlp_1nt_ci20.png


; 2026-03-19.135319
time -o $RSAT/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/composition/peak-motifs_test_profiles-1str-ovlp_2nt_ci20.tab_time.txt $RSAT/perl-scripts/position-analysis -v 1 -i $RSAT/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/data/sequences/peak-motifs_test_maxlen1000_purged_ml40_mis3.fasta -format fasta -sort  -return html,chi,sig,distrib,graphs,rank,index -max_graphs 20 -1str -ovlp -seqtype dna -l 2 -ci 20 -img_format png -title 'iggonly_ecoli_wenbo_brac_2' -origin center -offset 0 -o $RSAT/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/composition/peak-motifs_test_profiles-1str-ovlp_2nt_ci20.tab


; 2026-03-19.135323
grep -v ";" $RSAT/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/composition/peak-motifs_test_profiles-1str-ovlp_2nt_ci20.tab | cut -f 1,10-10000 | $RSAT/perl-scripts/transpose-table | $RSAT/perl-scripts/XYgraph -xcol 1 -ycol 2-17 -xgstep2 20 -vline '#666666' 0 -xsize 700 -ysize 250 -format png -legend -lines -pointsize 0 -legend -header -colors $RSAT/perl-scripts/lib/color_palettes/2nt-1str_colors.tab -title 'Dinucleotide composition profiles; test sequence; iggonly_ecoli_wenbo_brac_2' -xleg1 'Position' -xsize 700 -yleg1 'Occurrences' -ysize 250  -ymin 0 -o $RSAT/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/composition/peak-motifs_test_profiles-1str-ovlp_2nt_ci20.png


; 2026-03-19.135323
time -o $RSAT/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/oligos_6nt_mkv3/peak-motifs_oligos-2str-noov_6nt_mkv3.tab_time.txt $RSAT/perl-scripts/oligo-analysis -v 1 -quick -i $RSAT/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/data/sequences/peak-motifs_test_maxlen1000_purged_ml40_mis3.fasta -format fasta -sort -lth ratio 1 -lth occ_sig 0 -uth rank 100 -return occ,proba,rank -2str -noov -seqtype dna -l 6 -markov 3 -pseudo 0.01 -o $RSAT/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/oligos_6nt_mkv3/peak-motifs_oligos-2str-noov_6nt_mkv3.tab


; 2026-03-19.135324
time -o $RSAT/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/oligos_6nt_mkv3/peak-motifs_oligos-2str-noov_6nt_mkv3_pssm_time.txt $RSAT/perl-scripts/matrix-from-patterns -v 1  -sites -seq $RSAT/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/data/sequences/peak-motifs_test_maxlen1000.fasta -pl $RSAT/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/oligos_6nt_mkv3/peak-motifs_oligos-2str-noov_6nt_mkv3.tab -bgfile $RSAT/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/composition/peak-motifs_test_inclusive-1str-ovlp_2nt.txt -toppat 100 -max_asmb_nb 10 -max_asmb_width 20 -subst 1 -prefix oligos_6nt_mkv3 -flanks 2 -collect_method matrix-scan-quick -logo -cluster none -o $RSAT/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/oligos_6nt_mkv3/peak-motifs_oligos-2str-noov_6nt_mkv3_pssm


; 2026-03-19.135330
time -o $RSAT/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/oligos_7nt_mkv4/peak-motifs_oligos-2str-noov_7nt_mkv4.tab_time.txt $RSAT/perl-scripts/oligo-analysis -v 1 -quick -i $RSAT/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/data/sequences/peak-motifs_test_maxlen1000_purged_ml40_mis3.fasta -format fasta -sort -lth ratio 1 -lth occ_sig 0 -uth rank 100 -return occ,proba,rank -2str -noov -seqtype dna -l 7 -markov 4 -pseudo 0.01 -o $RSAT/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/oligos_7nt_mkv4/peak-motifs_oligos-2str-noov_7nt_mkv4.tab


; 2026-03-19.135331
time -o $RSAT/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/oligos_7nt_mkv4/peak-motifs_oligos-2str-noov_7nt_mkv4_pssm_time.txt $RSAT/perl-scripts/matrix-from-patterns -v 1  -sites -seq $RSAT/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/data/sequences/peak-motifs_test_maxlen1000.fasta -pl $RSAT/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/oligos_7nt_mkv4/peak-motifs_oligos-2str-noov_7nt_mkv4.tab -bgfile $RSAT/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/composition/peak-motifs_test_inclusive-1str-ovlp_2nt.txt -toppat 100 -max_asmb_nb 10 -max_asmb_width 20 -subst 1 -prefix oligos_7nt_mkv4 -flanks 2 -collect_method matrix-scan-quick -logo -cluster none -o $RSAT/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/oligos_7nt_mkv4/peak-motifs_oligos-2str-noov_7nt_mkv4_pssm


; 2026-03-19.135335
time -o $RSAT/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/positions_6nt/peak-motifs_positions-2str-noov_6nt_ci50.tab_time.txt $RSAT/perl-scripts/position-analysis -v 1 -i $RSAT/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/data/sequences/peak-motifs_test_maxlen1000_purged_ml40_mis3.fasta -format fasta -sort  -return chi,sig,rank,distrib,index -max_graphs 100 -2str -noov -seqtype dna -l 6 -ci 50 -lth_occ 1 -lth_sig 0 -uth_rank 100 -img_format png -title 'iggonly_ecoli_wenbo_brac_2' -origin center -offset 0 -max_graphs 20 -o $RSAT/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/positions_6nt/peak-motifs_positions-2str-noov_6nt_ci50.tab


; 2026-03-19.135337
time -o $RSAT/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/positions_6nt/peak-motifs_positions-2str-noov_6nt_ci50_pssm_time.txt $RSAT/perl-scripts/matrix-from-patterns -v 1  -sites -seq $RSAT/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/data/sequences/peak-motifs_test_maxlen1000.fasta -pl $RSAT/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/positions_6nt/peak-motifs_positions-2str-noov_6nt_ci50.tab -bgfile $RSAT/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/composition/peak-motifs_test_inclusive-1str-ovlp_2nt.txt -toppat 100 -max_asmb_nb 10 -max_asmb_width 20 -subst 1 -prefix positions_6nt -flanks 2 -collect_method matrix-scan-quick -logo -cluster none -o $RSAT/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/positions_6nt/peak-motifs_positions-2str-noov_6nt_ci50_pssm


; 2026-03-19.135338
time -o $RSAT/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/positions_7nt/peak-motifs_positions-2str-noov_7nt_ci50.tab_time.txt $RSAT/perl-scripts/position-analysis -v 1 -i $RSAT/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/data/sequences/peak-motifs_test_maxlen1000_purged_ml40_mis3.fasta -format fasta -sort  -return chi,sig,rank,distrib,index -max_graphs 100 -2str -noov -seqtype dna -l 7 -ci 50 -lth_occ 1 -lth_sig 0 -uth_rank 100 -img_format png -title 'iggonly_ecoli_wenbo_brac_2' -origin center -offset 0 -max_graphs 20 -o $RSAT/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/positions_7nt/peak-motifs_positions-2str-noov_7nt_ci50.tab


; 2026-03-19.135342
time -o $RSAT/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/positions_7nt/peak-motifs_positions-2str-noov_7nt_ci50_pssm_time.txt $RSAT/perl-scripts/matrix-from-patterns -v 1  -sites -seq $RSAT/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/data/sequences/peak-motifs_test_maxlen1000.fasta -pl $RSAT/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/positions_7nt/peak-motifs_positions-2str-noov_7nt_ci50.tab -bgfile $RSAT/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/composition/peak-motifs_test_inclusive-1str-ovlp_2nt.txt -toppat 100 -max_asmb_nb 10 -max_asmb_width 20 -subst 1 -prefix positions_7nt -flanks 2 -collect_method matrix-scan-quick -logo -cluster none -o $RSAT/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/positions_7nt/peak-motifs_positions-2str-noov_7nt_ci50_pssm


; 2026-03-19.135343
rm -f $RSAT/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/discovered_motifs/peak-motifs_motifs_discovered.tf; cat $RSAT/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/oligos_6nt_mkv3/peak-motifs_oligos-2str-noov_6nt_mkv3_pssm_count_matrices.tf >> $RSAT/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/discovered_motifs/peak-motifs_motifs_discovered.tf; cat $RSAT/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/positions_6nt/peak-motifs_positions-2str-noov_6nt_ci50_pssm_count_matrices.tf >> $RSAT/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/discovered_motifs/peak-motifs_motifs_discovered.tf; cat $RSAT/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/oligos_7nt_mkv4/peak-motifs_oligos-2str-noov_7nt_mkv4_pssm_count_matrices.tf >> $RSAT/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/discovered_motifs/peak-motifs_motifs_discovered.tf; cat $RSAT/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/positions_7nt/peak-motifs_positions-2str-noov_7nt_ci50_pssm_count_matrices.tf >> $RSAT/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/discovered_motifs/peak-motifs_motifs_discovered.tf


; 2026-03-19.135343
$RSAT/perl-scripts/convert-matrix -v 0 -i $RSAT/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/discovered_motifs/oligos_6nt_mkv3_m1/peak-motifs_oligos_6nt_mkv3_m1.tf -from transfac -to tab -return counts -o $RSAT/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/discovered_motifs/oligos_6nt_mkv3_m1/peak-motifs_oligos_6nt_mkv3_m1.tab


; 2026-03-19.135343
$RSAT/perl-scripts/convert-matrix -v 0 -i $RSAT/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/discovered_motifs/oligos_6nt_mkv3_m2/peak-motifs_oligos_6nt_mkv3_m2.tf -from transfac -to tab -return counts -o $RSAT/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/discovered_motifs/oligos_6nt_mkv3_m2/peak-motifs_oligos_6nt_mkv3_m2.tab


; 2026-03-19.135344
$RSAT/perl-scripts/convert-matrix -v 0 -i $RSAT/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/discovered_motifs/oligos_6nt_mkv3_m3/peak-motifs_oligos_6nt_mkv3_m3.tf -from transfac -to tab -return counts -o $RSAT/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/discovered_motifs/oligos_6nt_mkv3_m3/peak-motifs_oligos_6nt_mkv3_m3.tab


; 2026-03-19.135344
$RSAT/perl-scripts/convert-matrix -v 0 -i $RSAT/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/discovered_motifs/oligos_6nt_mkv3_m4/peak-motifs_oligos_6nt_mkv3_m4.tf -from transfac -to tab -return counts -o $RSAT/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/discovered_motifs/oligos_6nt_mkv3_m4/peak-motifs_oligos_6nt_mkv3_m4.tab


; 2026-03-19.135344
$RSAT/perl-scripts/convert-matrix -v 0 -i $RSAT/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/discovered_motifs/oligos_6nt_mkv3_m5/peak-motifs_oligos_6nt_mkv3_m5.tf -from transfac -to tab -return counts -o $RSAT/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/discovered_motifs/oligos_6nt_mkv3_m5/peak-motifs_oligos_6nt_mkv3_m5.tab


; 2026-03-19.135344
$RSAT/perl-scripts/convert-matrix -v 0 -i $RSAT/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/discovered_motifs/oligos_6nt_mkv3_m6/peak-motifs_oligos_6nt_mkv3_m6.tf -from transfac -to tab -return counts -o $RSAT/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/discovered_motifs/oligos_6nt_mkv3_m6/peak-motifs_oligos_6nt_mkv3_m6.tab


; 2026-03-19.135344
$RSAT/perl-scripts/convert-matrix -v 0 -i $RSAT/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/discovered_motifs/oligos_6nt_mkv3_m7/peak-motifs_oligos_6nt_mkv3_m7.tf -from transfac -to tab -return counts -o $RSAT/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/discovered_motifs/oligos_6nt_mkv3_m7/peak-motifs_oligos_6nt_mkv3_m7.tab


; 2026-03-19.135344
$RSAT/perl-scripts/convert-matrix -v 0 -i $RSAT/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/discovered_motifs/oligos_6nt_mkv3_m8/peak-motifs_oligos_6nt_mkv3_m8.tf -from transfac -to tab -return counts -o $RSAT/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/discovered_motifs/oligos_6nt_mkv3_m8/peak-motifs_oligos_6nt_mkv3_m8.tab


; 2026-03-19.135344
$RSAT/perl-scripts/convert-matrix -v 0 -i $RSAT/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/discovered_motifs/oligos_6nt_mkv3_m9/peak-motifs_oligos_6nt_mkv3_m9.tf -from transfac -to tab -return counts -o $RSAT/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/discovered_motifs/oligos_6nt_mkv3_m9/peak-motifs_oligos_6nt_mkv3_m9.tab


; 2026-03-19.135345
$RSAT/perl-scripts/convert-matrix -v 0 -i $RSAT/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/discovered_motifs/oligos_6nt_mkv3_m10/peak-motifs_oligos_6nt_mkv3_m10.tf -from transfac -to tab -return counts -o $RSAT/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/discovered_motifs/oligos_6nt_mkv3_m10/peak-motifs_oligos_6nt_mkv3_m10.tab


; 2026-03-19.135345
$RSAT/perl-scripts/convert-matrix -v 0 -i $RSAT/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/discovered_motifs/positions_6nt_m1/peak-motifs_positions_6nt_m1.tf -from transfac -to tab -return counts -o $RSAT/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/discovered_motifs/positions_6nt_m1/peak-motifs_positions_6nt_m1.tab


; 2026-03-19.135345
$RSAT/perl-scripts/convert-matrix -v 0 -i $RSAT/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/discovered_motifs/oligos_7nt_mkv4_m1/peak-motifs_oligos_7nt_mkv4_m1.tf -from transfac -to tab -return counts -o $RSAT/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/discovered_motifs/oligos_7nt_mkv4_m1/peak-motifs_oligos_7nt_mkv4_m1.tab


; 2026-03-19.135345
$RSAT/perl-scripts/convert-matrix -v 0 -i $RSAT/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/discovered_motifs/oligos_7nt_mkv4_m2/peak-motifs_oligos_7nt_mkv4_m2.tf -from transfac -to tab -return counts -o $RSAT/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/discovered_motifs/oligos_7nt_mkv4_m2/peak-motifs_oligos_7nt_mkv4_m2.tab


; 2026-03-19.135345
$RSAT/perl-scripts/convert-matrix -v 0 -i $RSAT/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/discovered_motifs/oligos_7nt_mkv4_m3/peak-motifs_oligos_7nt_mkv4_m3.tf -from transfac -to tab -return counts -o $RSAT/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/discovered_motifs/oligos_7nt_mkv4_m3/peak-motifs_oligos_7nt_mkv4_m3.tab


; 2026-03-19.135345
$RSAT/perl-scripts/convert-matrix -v 0 -i $RSAT/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/discovered_motifs/oligos_7nt_mkv4_m4/peak-motifs_oligos_7nt_mkv4_m4.tf -from transfac -to tab -return counts -o $RSAT/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/discovered_motifs/oligos_7nt_mkv4_m4/peak-motifs_oligos_7nt_mkv4_m4.tab


; 2026-03-19.135346
$RSAT/perl-scripts/convert-matrix -v 0 -i $RSAT/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/discovered_motifs/oligos_7nt_mkv4_m5/peak-motifs_oligos_7nt_mkv4_m5.tf -from transfac -to tab -return counts -o $RSAT/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/discovered_motifs/oligos_7nt_mkv4_m5/peak-motifs_oligos_7nt_mkv4_m5.tab


; 2026-03-19.135346
$RSAT/perl-scripts/convert-matrix -v 0 -i $RSAT/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/discovered_motifs/positions_7nt_m1/peak-motifs_positions_7nt_m1.tf -from transfac -to tab -return counts -o $RSAT/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/discovered_motifs/positions_7nt_m1/peak-motifs_positions_7nt_m1.tab


; 2026-03-19.135346
$RSAT/perl-scripts/compare-matrices -v 1 -format transfac -file $RSAT/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/discovered_motifs/peak-motifs_motifs_discovered.tf -distinct -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/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/discovered_motifs/peak-motifs_motifs_disco_compa.tab; $RSAT/perl-scripts/text-to-html -i $RSAT/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/discovered_motifs/peak-motifs_motifs_disco_compa.tab -o $RSAT/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/discovered_motifs/peak-motifs_motifs_disco_compa.html


; 2026-03-19.135354
$RSAT/perl-scripts/convert-graph -i $RSAT/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/discovered_motifs/peak-motifs_motifs_disco_compa.tab -ewidth -ecolors fire -layout spring -from tab -to gml -scol 3 -tcol 4 -wcol 5 -o $RSAT/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/discovered_motifs/peak-motifs_motifs_disco_compa.gml


; 2026-03-19.135355
$RSAT/perl-scripts/compare-matrices -v 1 -mode matches -format1 transfac -file1 $RSAT/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/discovered_motifs/oligos_6nt_mkv3_m1/peak-motifs_oligos_6nt_mkv3_m1.tf -format2 tf -file2 $RSAT/public_html/motif_databases/JASPAR/Jaspar_2024/JASPAR2024_CORE_vertebrates_non-redundant_pfms_transfac.txt -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/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/discovered_motifs/oligos_6nt_mkv3_m1/peak-motifs_oligos_6nt_mkv3_m1_vs_db_JASPAR2024_CORE_vertebrates_non-redundant


; 2026-03-19.135406
$RSAT/perl-scripts/compare-matrices -v 1 -mode matches -format1 transfac -file1 $RSAT/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/discovered_motifs/oligos_6nt_mkv3_m2/peak-motifs_oligos_6nt_mkv3_m2.tf -format2 tf -file2 $RSAT/public_html/motif_databases/JASPAR/Jaspar_2024/JASPAR2024_CORE_vertebrates_non-redundant_pfms_transfac.txt -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/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/discovered_motifs/oligos_6nt_mkv3_m2/peak-motifs_oligos_6nt_mkv3_m2_vs_db_JASPAR2024_CORE_vertebrates_non-redundant


; 2026-03-19.135407
$RSAT/perl-scripts/compare-matrices -v 1 -mode matches -format1 transfac -file1 $RSAT/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/discovered_motifs/oligos_6nt_mkv3_m3/peak-motifs_oligos_6nt_mkv3_m3.tf -format2 tf -file2 $RSAT/public_html/motif_databases/JASPAR/Jaspar_2024/JASPAR2024_CORE_vertebrates_non-redundant_pfms_transfac.txt -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/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/discovered_motifs/oligos_6nt_mkv3_m3/peak-motifs_oligos_6nt_mkv3_m3_vs_db_JASPAR2024_CORE_vertebrates_non-redundant


; 2026-03-19.135409
$RSAT/perl-scripts/compare-matrices -v 1 -mode matches -format1 transfac -file1 $RSAT/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/discovered_motifs/oligos_6nt_mkv3_m4/peak-motifs_oligos_6nt_mkv3_m4.tf -format2 tf -file2 $RSAT/public_html/motif_databases/JASPAR/Jaspar_2024/JASPAR2024_CORE_vertebrates_non-redundant_pfms_transfac.txt -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/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/discovered_motifs/oligos_6nt_mkv3_m4/peak-motifs_oligos_6nt_mkv3_m4_vs_db_JASPAR2024_CORE_vertebrates_non-redundant


; 2026-03-19.135410
$RSAT/perl-scripts/compare-matrices -v 1 -mode matches -format1 transfac -file1 $RSAT/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/discovered_motifs/oligos_6nt_mkv3_m5/peak-motifs_oligos_6nt_mkv3_m5.tf -format2 tf -file2 $RSAT/public_html/motif_databases/JASPAR/Jaspar_2024/JASPAR2024_CORE_vertebrates_non-redundant_pfms_transfac.txt -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/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/discovered_motifs/oligos_6nt_mkv3_m5/peak-motifs_oligos_6nt_mkv3_m5_vs_db_JASPAR2024_CORE_vertebrates_non-redundant


; 2026-03-19.135420
$RSAT/perl-scripts/compare-matrices -v 1 -mode matches -format1 transfac -file1 $RSAT/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/discovered_motifs/oligos_6nt_mkv3_m6/peak-motifs_oligos_6nt_mkv3_m6.tf -format2 tf -file2 $RSAT/public_html/motif_databases/JASPAR/Jaspar_2024/JASPAR2024_CORE_vertebrates_non-redundant_pfms_transfac.txt -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/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/discovered_motifs/oligos_6nt_mkv3_m6/peak-motifs_oligos_6nt_mkv3_m6_vs_db_JASPAR2024_CORE_vertebrates_non-redundant


; 2026-03-19.135421
$RSAT/perl-scripts/compare-matrices -v 1 -mode matches -format1 transfac -file1 $RSAT/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/discovered_motifs/oligos_6nt_mkv3_m7/peak-motifs_oligos_6nt_mkv3_m7.tf -format2 tf -file2 $RSAT/public_html/motif_databases/JASPAR/Jaspar_2024/JASPAR2024_CORE_vertebrates_non-redundant_pfms_transfac.txt -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/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/discovered_motifs/oligos_6nt_mkv3_m7/peak-motifs_oligos_6nt_mkv3_m7_vs_db_JASPAR2024_CORE_vertebrates_non-redundant


; 2026-03-19.135452
$RSAT/perl-scripts/compare-matrices -v 1 -mode matches -format1 transfac -file1 $RSAT/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/discovered_motifs/oligos_6nt_mkv3_m8/peak-motifs_oligos_6nt_mkv3_m8.tf -format2 tf -file2 $RSAT/public_html/motif_databases/JASPAR/Jaspar_2024/JASPAR2024_CORE_vertebrates_non-redundant_pfms_transfac.txt -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/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/discovered_motifs/oligos_6nt_mkv3_m8/peak-motifs_oligos_6nt_mkv3_m8_vs_db_JASPAR2024_CORE_vertebrates_non-redundant


; 2026-03-19.135504
$RSAT/perl-scripts/compare-matrices -v 1 -mode matches -format1 transfac -file1 $RSAT/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/discovered_motifs/oligos_6nt_mkv3_m9/peak-motifs_oligos_6nt_mkv3_m9.tf -format2 tf -file2 $RSAT/public_html/motif_databases/JASPAR/Jaspar_2024/JASPAR2024_CORE_vertebrates_non-redundant_pfms_transfac.txt -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/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/discovered_motifs/oligos_6nt_mkv3_m9/peak-motifs_oligos_6nt_mkv3_m9_vs_db_JASPAR2024_CORE_vertebrates_non-redundant


; 2026-03-19.135508
$RSAT/perl-scripts/compare-matrices -v 1 -mode matches -format1 transfac -file1 $RSAT/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/discovered_motifs/oligos_6nt_mkv3_m10/peak-motifs_oligos_6nt_mkv3_m10.tf -format2 tf -file2 $RSAT/public_html/motif_databases/JASPAR/Jaspar_2024/JASPAR2024_CORE_vertebrates_non-redundant_pfms_transfac.txt -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/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/discovered_motifs/oligos_6nt_mkv3_m10/peak-motifs_oligos_6nt_mkv3_m10_vs_db_JASPAR2024_CORE_vertebrates_non-redundant


; 2026-03-19.135514
$RSAT/perl-scripts/compare-matrices -v 1 -mode matches -format1 transfac -file1 $RSAT/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/discovered_motifs/positions_6nt_m1/peak-motifs_positions_6nt_m1.tf -format2 tf -file2 $RSAT/public_html/motif_databases/JASPAR/Jaspar_2024/JASPAR2024_CORE_vertebrates_non-redundant_pfms_transfac.txt -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/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/discovered_motifs/positions_6nt_m1/peak-motifs_positions_6nt_m1_vs_db_JASPAR2024_CORE_vertebrates_non-redundant


; 2026-03-19.135531
$RSAT/perl-scripts/compare-matrices -v 1 -mode matches -format1 transfac -file1 $RSAT/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/discovered_motifs/oligos_7nt_mkv4_m1/peak-motifs_oligos_7nt_mkv4_m1.tf -format2 tf -file2 $RSAT/public_html/motif_databases/JASPAR/Jaspar_2024/JASPAR2024_CORE_vertebrates_non-redundant_pfms_transfac.txt -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/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/discovered_motifs/oligos_7nt_mkv4_m1/peak-motifs_oligos_7nt_mkv4_m1_vs_db_JASPAR2024_CORE_vertebrates_non-redundant


; 2026-03-19.135533
$RSAT/perl-scripts/compare-matrices -v 1 -mode matches -format1 transfac -file1 $RSAT/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/discovered_motifs/oligos_7nt_mkv4_m2/peak-motifs_oligos_7nt_mkv4_m2.tf -format2 tf -file2 $RSAT/public_html/motif_databases/JASPAR/Jaspar_2024/JASPAR2024_CORE_vertebrates_non-redundant_pfms_transfac.txt -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/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/discovered_motifs/oligos_7nt_mkv4_m2/peak-motifs_oligos_7nt_mkv4_m2_vs_db_JASPAR2024_CORE_vertebrates_non-redundant


; 2026-03-19.135533
$RSAT/perl-scripts/compare-matrices -v 1 -mode matches -format1 transfac -file1 $RSAT/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/discovered_motifs/oligos_7nt_mkv4_m3/peak-motifs_oligos_7nt_mkv4_m3.tf -format2 tf -file2 $RSAT/public_html/motif_databases/JASPAR/Jaspar_2024/JASPAR2024_CORE_vertebrates_non-redundant_pfms_transfac.txt -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/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/discovered_motifs/oligos_7nt_mkv4_m3/peak-motifs_oligos_7nt_mkv4_m3_vs_db_JASPAR2024_CORE_vertebrates_non-redundant


; 2026-03-19.135540
$RSAT/perl-scripts/compare-matrices -v 1 -mode matches -format1 transfac -file1 $RSAT/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/discovered_motifs/oligos_7nt_mkv4_m4/peak-motifs_oligos_7nt_mkv4_m4.tf -format2 tf -file2 $RSAT/public_html/motif_databases/JASPAR/Jaspar_2024/JASPAR2024_CORE_vertebrates_non-redundant_pfms_transfac.txt -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/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/discovered_motifs/oligos_7nt_mkv4_m4/peak-motifs_oligos_7nt_mkv4_m4_vs_db_JASPAR2024_CORE_vertebrates_non-redundant


; 2026-03-19.135547
$RSAT/perl-scripts/compare-matrices -v 1 -mode matches -format1 transfac -file1 $RSAT/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/discovered_motifs/oligos_7nt_mkv4_m5/peak-motifs_oligos_7nt_mkv4_m5.tf -format2 tf -file2 $RSAT/public_html/motif_databases/JASPAR/Jaspar_2024/JASPAR2024_CORE_vertebrates_non-redundant_pfms_transfac.txt -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/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/discovered_motifs/oligos_7nt_mkv4_m5/peak-motifs_oligos_7nt_mkv4_m5_vs_db_JASPAR2024_CORE_vertebrates_non-redundant


; 2026-03-19.135550
$RSAT/perl-scripts/compare-matrices -v 1 -mode matches -format1 transfac -file1 $RSAT/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/discovered_motifs/positions_7nt_m1/peak-motifs_positions_7nt_m1.tf -format2 tf -file2 $RSAT/public_html/motif_databases/JASPAR/Jaspar_2024/JASPAR2024_CORE_vertebrates_non-redundant_pfms_transfac.txt -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/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/discovered_motifs/positions_7nt_m1/peak-motifs_positions_7nt_m1_vs_db_JASPAR2024_CORE_vertebrates_non-redundant


; 2026-03-19.135615
time -o $RSAT/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/discovered_vs_db/peak-motifs_motifs_vs_db_JASPAR2024_CORE_vertebrates_non-redundant.tab_time.txt $RSAT/perl-scripts/compare-matrices -v 1 -mode matches -format1 transfac -file1 $RSAT/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/discovered_motifs/peak-motifs_motifs_discovered.tf -format2 tf -file2 $RSAT/public_html/motif_databases/JASPAR/Jaspar_2024/JASPAR2024_CORE_vertebrates_non-redundant_pfms_transfac.txt -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/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/discovered_vs_db/peak-motifs_motifs_vs_db_JASPAR2024_CORE_vertebrates_non-redundant.tab


; 2026-03-19.135832
$RSAT/perl-scripts/convert-graph -i $RSAT/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/discovered_vs_db/peak-motifs_motifs_vs_db_JASPAR2024_CORE_vertebrates_non-redundant.tab -ewidth -ecolors fire -layout spring -from tab -to gml -scol 3 -tcol 4 -wcol 5 -o $RSAT/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/discovered_vs_db/peak-motifs_motifs_vs_db_JASPAR2024_CORE_vertebrates_non-redundant.gml


; 2026-03-19.135844
time -o $RSAT/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/discovered_motifs/oligos_6nt_mkv3_m1/peak-motifs_oligos_6nt_mkv3_m1_sites.tab_time.txt $RSAT/perl-scripts/matrix-scan -quick -v 1 -seq_format fasta -i $RSAT/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/data/sequences/peak-motifs_test_maxlen1000.fasta -matrix_format transfac -m $RSAT/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/discovered_motifs/oligos_6nt_mkv3_m1/peak-motifs_oligos_6nt_mkv3_m1.tf -bg_format inclusive -bgfile $RSAT/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/composition/peak-motifs_test_inclusive-1str-ovlp_2nt.txt  -pseudo 1 -2str -decimals 1 -bg_pseudo 0.01 -n score  -lth score 7.5 -origin center -offset 0 -return sites -o $RSAT/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/discovered_motifs/oligos_6nt_mkv3_m1/peak-motifs_oligos_6nt_mkv3_m1_sites.tab


; 2026-03-19.135844
grep -v '^;' $RSAT/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/discovered_motifs/oligos_6nt_mkv3_m1/peak-motifs_oligos_6nt_mkv3_m1_sites.tab | grep -v '^#' | awk '{print ($6+$5)/2}' | $RSAT/perl-scripts/classfreq -v 1 -ci 20 -o $RSAT/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/discovered_motifs/oligos_6nt_mkv3_m1/peak-motifs_oligos_6nt_mkv3_m1_site_distrib.tab


; 2026-03-19.135844
$RSAT/perl-scripts/XYgraph -format png -i $RSAT/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/discovered_motifs/oligos_6nt_mkv3_m1/peak-motifs_oligos_6nt_mkv3_m1_site_distrib.tab -lines -xcol 3 -ycol 4 -ysize 250 -ycol 4 -yleg1 'Number of sites' -xsize 600 -xcol 3 -xleg1 'Position relative to sequence center' -xgstep2 20 -vline '#666666' 0 -title1 'Predicted sites : oligos_6nt_mkv3_m1' -o $RSAT/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/discovered_motifs/oligos_6nt_mkv3_m1/peak-motifs_oligos_6nt_mkv3_m1_site_distrib.png


; 2026-03-19.135844
$RSAT/perl-scripts/contingency-table -i $RSAT/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/discovered_motifs/oligos_6nt_mkv3_m1/peak-motifs_oligos_6nt_mkv3_m1_sites.tab | $RSAT/perl-scripts/classfreq -v 1 -ci 1 -o $RSAT/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/discovered_motifs/oligos_6nt_mkv3_m1/peak-motifs_oligos_6nt_mkv3_m1_sites_per_peak.tab


; 2026-03-19.135844
$RSAT/perl-scripts/XYgraph -format png -i $RSAT/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/discovered_motifs/oligos_6nt_mkv3_m1/peak-motifs_oligos_6nt_mkv3_m1_sites_per_peak.tab -lines -xcol 1 -ycol 4  -xsize 500 -xcol 1 -xleg1 'Number of sites' -ysize 250 -ycol 4,6 -yleg1 'Number of peaks' -legend -xgstep1 5 -xgstep2 1 -title1 'Nb predicted sites : oligos_6nt_mkv3_m1' -o $RSAT/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/discovered_motifs/oligos_6nt_mkv3_m1/peak-motifs_oligos_6nt_mkv3_m1_sites_per_peak.png


; 2026-03-19.135844
time -o $RSAT/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/discovered_motifs/oligos_6nt_mkv3_m2/peak-motifs_oligos_6nt_mkv3_m2_sites.tab_time.txt $RSAT/perl-scripts/matrix-scan -quick -v 1 -seq_format fasta -i $RSAT/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/data/sequences/peak-motifs_test_maxlen1000.fasta -matrix_format transfac -m $RSAT/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/discovered_motifs/oligos_6nt_mkv3_m2/peak-motifs_oligos_6nt_mkv3_m2.tf -bg_format inclusive -bgfile $RSAT/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/composition/peak-motifs_test_inclusive-1str-ovlp_2nt.txt  -pseudo 1 -2str -decimals 1 -bg_pseudo 0.01 -n score  -lth score 7.5 -origin center -offset 0 -return sites -o $RSAT/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/discovered_motifs/oligos_6nt_mkv3_m2/peak-motifs_oligos_6nt_mkv3_m2_sites.tab


; 2026-03-19.135845
grep -v '^;' $RSAT/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/discovered_motifs/oligos_6nt_mkv3_m2/peak-motifs_oligos_6nt_mkv3_m2_sites.tab | grep -v '^#' | awk '{print ($6+$5)/2}' | $RSAT/perl-scripts/classfreq -v 1 -ci 20 -o $RSAT/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/discovered_motifs/oligos_6nt_mkv3_m2/peak-motifs_oligos_6nt_mkv3_m2_site_distrib.tab


; 2026-03-19.135845
$RSAT/perl-scripts/XYgraph -format png -i $RSAT/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/discovered_motifs/oligos_6nt_mkv3_m2/peak-motifs_oligos_6nt_mkv3_m2_site_distrib.tab -lines -xcol 3 -ycol 4 -ysize 250 -ycol 4 -yleg1 'Number of sites' -xsize 600 -xcol 3 -xleg1 'Position relative to sequence center' -xgstep2 20 -vline '#666666' 0 -title1 'Predicted sites : oligos_6nt_mkv3_m2' -o $RSAT/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/discovered_motifs/oligos_6nt_mkv3_m2/peak-motifs_oligos_6nt_mkv3_m2_site_distrib.png


; 2026-03-19.135845
$RSAT/perl-scripts/contingency-table -i $RSAT/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/discovered_motifs/oligos_6nt_mkv3_m2/peak-motifs_oligos_6nt_mkv3_m2_sites.tab | $RSAT/perl-scripts/classfreq -v 1 -ci 1 -o $RSAT/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/discovered_motifs/oligos_6nt_mkv3_m2/peak-motifs_oligos_6nt_mkv3_m2_sites_per_peak.tab


; 2026-03-19.135845
$RSAT/perl-scripts/XYgraph -format png -i $RSAT/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/discovered_motifs/oligos_6nt_mkv3_m2/peak-motifs_oligos_6nt_mkv3_m2_sites_per_peak.tab -lines -xcol 1 -ycol 4  -xsize 500 -xcol 1 -xleg1 'Number of sites' -ysize 250 -ycol 4,6 -yleg1 'Number of peaks' -legend -xgstep1 5 -xgstep2 1 -title1 'Nb predicted sites : oligos_6nt_mkv3_m2' -o $RSAT/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/discovered_motifs/oligos_6nt_mkv3_m2/peak-motifs_oligos_6nt_mkv3_m2_sites_per_peak.png


; 2026-03-19.135845
time -o $RSAT/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/discovered_motifs/oligos_6nt_mkv3_m3/peak-motifs_oligos_6nt_mkv3_m3_sites.tab_time.txt $RSAT/perl-scripts/matrix-scan -quick -v 1 -seq_format fasta -i $RSAT/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/data/sequences/peak-motifs_test_maxlen1000.fasta -matrix_format transfac -m $RSAT/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/discovered_motifs/oligos_6nt_mkv3_m3/peak-motifs_oligos_6nt_mkv3_m3.tf -bg_format inclusive -bgfile $RSAT/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/composition/peak-motifs_test_inclusive-1str-ovlp_2nt.txt  -pseudo 1 -2str -decimals 1 -bg_pseudo 0.01 -n score  -lth score 7.5 -origin center -offset 0 -return sites -o $RSAT/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/discovered_motifs/oligos_6nt_mkv3_m3/peak-motifs_oligos_6nt_mkv3_m3_sites.tab


; 2026-03-19.135846
grep -v '^;' $RSAT/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/discovered_motifs/oligos_6nt_mkv3_m3/peak-motifs_oligos_6nt_mkv3_m3_sites.tab | grep -v '^#' | awk '{print ($6+$5)/2}' | $RSAT/perl-scripts/classfreq -v 1 -ci 20 -o $RSAT/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/discovered_motifs/oligos_6nt_mkv3_m3/peak-motifs_oligos_6nt_mkv3_m3_site_distrib.tab


; 2026-03-19.135846
$RSAT/perl-scripts/XYgraph -format png -i $RSAT/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/discovered_motifs/oligos_6nt_mkv3_m3/peak-motifs_oligos_6nt_mkv3_m3_site_distrib.tab -lines -xcol 3 -ycol 4 -ysize 250 -ycol 4 -yleg1 'Number of sites' -xsize 600 -xcol 3 -xleg1 'Position relative to sequence center' -xgstep2 20 -vline '#666666' 0 -title1 'Predicted sites : oligos_6nt_mkv3_m3' -o $RSAT/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/discovered_motifs/oligos_6nt_mkv3_m3/peak-motifs_oligos_6nt_mkv3_m3_site_distrib.png


; 2026-03-19.135846
$RSAT/perl-scripts/contingency-table -i $RSAT/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/discovered_motifs/oligos_6nt_mkv3_m3/peak-motifs_oligos_6nt_mkv3_m3_sites.tab | $RSAT/perl-scripts/classfreq -v 1 -ci 1 -o $RSAT/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/discovered_motifs/oligos_6nt_mkv3_m3/peak-motifs_oligos_6nt_mkv3_m3_sites_per_peak.tab


; 2026-03-19.135846
$RSAT/perl-scripts/XYgraph -format png -i $RSAT/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/discovered_motifs/oligos_6nt_mkv3_m3/peak-motifs_oligos_6nt_mkv3_m3_sites_per_peak.tab -lines -xcol 1 -ycol 4  -xsize 500 -xcol 1 -xleg1 'Number of sites' -ysize 250 -ycol 4,6 -yleg1 'Number of peaks' -legend -xgstep1 5 -xgstep2 1 -title1 'Nb predicted sites : oligos_6nt_mkv3_m3' -o $RSAT/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/discovered_motifs/oligos_6nt_mkv3_m3/peak-motifs_oligos_6nt_mkv3_m3_sites_per_peak.png


; 2026-03-19.135846
time -o $RSAT/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/discovered_motifs/oligos_6nt_mkv3_m4/peak-motifs_oligos_6nt_mkv3_m4_sites.tab_time.txt $RSAT/perl-scripts/matrix-scan -quick -v 1 -seq_format fasta -i $RSAT/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/data/sequences/peak-motifs_test_maxlen1000.fasta -matrix_format transfac -m $RSAT/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/discovered_motifs/oligos_6nt_mkv3_m4/peak-motifs_oligos_6nt_mkv3_m4.tf -bg_format inclusive -bgfile $RSAT/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/composition/peak-motifs_test_inclusive-1str-ovlp_2nt.txt  -pseudo 1 -2str -decimals 1 -bg_pseudo 0.01 -n score  -lth score 7.5 -origin center -offset 0 -return sites -o $RSAT/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/discovered_motifs/oligos_6nt_mkv3_m4/peak-motifs_oligos_6nt_mkv3_m4_sites.tab


; 2026-03-19.135847
grep -v '^;' $RSAT/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/discovered_motifs/oligos_6nt_mkv3_m4/peak-motifs_oligos_6nt_mkv3_m4_sites.tab | grep -v '^#' | awk '{print ($6+$5)/2}' | $RSAT/perl-scripts/classfreq -v 1 -ci 20 -o $RSAT/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/discovered_motifs/oligos_6nt_mkv3_m4/peak-motifs_oligos_6nt_mkv3_m4_site_distrib.tab


; 2026-03-19.135847
$RSAT/perl-scripts/XYgraph -format png -i $RSAT/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/discovered_motifs/oligos_6nt_mkv3_m4/peak-motifs_oligos_6nt_mkv3_m4_site_distrib.tab -lines -xcol 3 -ycol 4 -ysize 250 -ycol 4 -yleg1 'Number of sites' -xsize 600 -xcol 3 -xleg1 'Position relative to sequence center' -xgstep2 20 -vline '#666666' 0 -title1 'Predicted sites : oligos_6nt_mkv3_m4' -o $RSAT/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/discovered_motifs/oligos_6nt_mkv3_m4/peak-motifs_oligos_6nt_mkv3_m4_site_distrib.png


; 2026-03-19.135847
$RSAT/perl-scripts/contingency-table -i $RSAT/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/discovered_motifs/oligos_6nt_mkv3_m4/peak-motifs_oligos_6nt_mkv3_m4_sites.tab | $RSAT/perl-scripts/classfreq -v 1 -ci 1 -o $RSAT/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/discovered_motifs/oligos_6nt_mkv3_m4/peak-motifs_oligos_6nt_mkv3_m4_sites_per_peak.tab


; 2026-03-19.135847
$RSAT/perl-scripts/XYgraph -format png -i $RSAT/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/discovered_motifs/oligos_6nt_mkv3_m4/peak-motifs_oligos_6nt_mkv3_m4_sites_per_peak.tab -lines -xcol 1 -ycol 4  -xsize 500 -xcol 1 -xleg1 'Number of sites' -ysize 250 -ycol 4,6 -yleg1 'Number of peaks' -legend -xgstep1 5 -xgstep2 1 -title1 'Nb predicted sites : oligos_6nt_mkv3_m4' -o $RSAT/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/discovered_motifs/oligos_6nt_mkv3_m4/peak-motifs_oligos_6nt_mkv3_m4_sites_per_peak.png


; 2026-03-19.135847
time -o $RSAT/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/discovered_motifs/oligos_6nt_mkv3_m5/peak-motifs_oligos_6nt_mkv3_m5_sites.tab_time.txt $RSAT/perl-scripts/matrix-scan -quick -v 1 -seq_format fasta -i $RSAT/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/data/sequences/peak-motifs_test_maxlen1000.fasta -matrix_format transfac -m $RSAT/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/discovered_motifs/oligos_6nt_mkv3_m5/peak-motifs_oligos_6nt_mkv3_m5.tf -bg_format inclusive -bgfile $RSAT/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/composition/peak-motifs_test_inclusive-1str-ovlp_2nt.txt  -pseudo 1 -2str -decimals 1 -bg_pseudo 0.01 -n score  -lth score 7.5 -origin center -offset 0 -return sites -o $RSAT/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/discovered_motifs/oligos_6nt_mkv3_m5/peak-motifs_oligos_6nt_mkv3_m5_sites.tab


; 2026-03-19.135848
grep -v '^;' $RSAT/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/discovered_motifs/oligos_6nt_mkv3_m5/peak-motifs_oligos_6nt_mkv3_m5_sites.tab | grep -v '^#' | awk '{print ($6+$5)/2}' | $RSAT/perl-scripts/classfreq -v 1 -ci 20 -o $RSAT/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/discovered_motifs/oligos_6nt_mkv3_m5/peak-motifs_oligos_6nt_mkv3_m5_site_distrib.tab


; 2026-03-19.135848
$RSAT/perl-scripts/XYgraph -format png -i $RSAT/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/discovered_motifs/oligos_6nt_mkv3_m5/peak-motifs_oligos_6nt_mkv3_m5_site_distrib.tab -lines -xcol 3 -ycol 4 -ysize 250 -ycol 4 -yleg1 'Number of sites' -xsize 600 -xcol 3 -xleg1 'Position relative to sequence center' -xgstep2 20 -vline '#666666' 0 -title1 'Predicted sites : oligos_6nt_mkv3_m5' -o $RSAT/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/discovered_motifs/oligos_6nt_mkv3_m5/peak-motifs_oligos_6nt_mkv3_m5_site_distrib.png


; 2026-03-19.135848
$RSAT/perl-scripts/contingency-table -i $RSAT/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/discovered_motifs/oligos_6nt_mkv3_m5/peak-motifs_oligos_6nt_mkv3_m5_sites.tab | $RSAT/perl-scripts/classfreq -v 1 -ci 1 -o $RSAT/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/discovered_motifs/oligos_6nt_mkv3_m5/peak-motifs_oligos_6nt_mkv3_m5_sites_per_peak.tab


; 2026-03-19.135848
$RSAT/perl-scripts/XYgraph -format png -i $RSAT/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/discovered_motifs/oligos_6nt_mkv3_m5/peak-motifs_oligos_6nt_mkv3_m5_sites_per_peak.tab -lines -xcol 1 -ycol 4  -xsize 500 -xcol 1 -xleg1 'Number of sites' -ysize 250 -ycol 4,6 -yleg1 'Number of peaks' -legend -xgstep1 5 -xgstep2 1 -title1 'Nb predicted sites : oligos_6nt_mkv3_m5' -o $RSAT/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/discovered_motifs/oligos_6nt_mkv3_m5/peak-motifs_oligos_6nt_mkv3_m5_sites_per_peak.png


; 2026-03-19.135848
time -o $RSAT/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/discovered_motifs/oligos_6nt_mkv3_m6/peak-motifs_oligos_6nt_mkv3_m6_sites.tab_time.txt $RSAT/perl-scripts/matrix-scan -quick -v 1 -seq_format fasta -i $RSAT/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/data/sequences/peak-motifs_test_maxlen1000.fasta -matrix_format transfac -m $RSAT/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/discovered_motifs/oligos_6nt_mkv3_m6/peak-motifs_oligos_6nt_mkv3_m6.tf -bg_format inclusive -bgfile $RSAT/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/composition/peak-motifs_test_inclusive-1str-ovlp_2nt.txt  -pseudo 1 -2str -decimals 1 -bg_pseudo 0.01 -n score  -lth score 7.5 -origin center -offset 0 -return sites -o $RSAT/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/discovered_motifs/oligos_6nt_mkv3_m6/peak-motifs_oligos_6nt_mkv3_m6_sites.tab


; 2026-03-19.135848
grep -v '^;' $RSAT/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/discovered_motifs/oligos_6nt_mkv3_m6/peak-motifs_oligos_6nt_mkv3_m6_sites.tab | grep -v '^#' | awk '{print ($6+$5)/2}' | $RSAT/perl-scripts/classfreq -v 1 -ci 20 -o $RSAT/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/discovered_motifs/oligos_6nt_mkv3_m6/peak-motifs_oligos_6nt_mkv3_m6_site_distrib.tab


; 2026-03-19.135849
$RSAT/perl-scripts/XYgraph -format png -i $RSAT/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/discovered_motifs/oligos_6nt_mkv3_m6/peak-motifs_oligos_6nt_mkv3_m6_site_distrib.tab -lines -xcol 3 -ycol 4 -ysize 250 -ycol 4 -yleg1 'Number of sites' -xsize 600 -xcol 3 -xleg1 'Position relative to sequence center' -xgstep2 20 -vline '#666666' 0 -title1 'Predicted sites : oligos_6nt_mkv3_m6' -o $RSAT/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/discovered_motifs/oligos_6nt_mkv3_m6/peak-motifs_oligos_6nt_mkv3_m6_site_distrib.png


; 2026-03-19.135849
$RSAT/perl-scripts/contingency-table -i $RSAT/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/discovered_motifs/oligos_6nt_mkv3_m6/peak-motifs_oligos_6nt_mkv3_m6_sites.tab | $RSAT/perl-scripts/classfreq -v 1 -ci 1 -o $RSAT/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/discovered_motifs/oligos_6nt_mkv3_m6/peak-motifs_oligos_6nt_mkv3_m6_sites_per_peak.tab


; 2026-03-19.135849
$RSAT/perl-scripts/XYgraph -format png -i $RSAT/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/discovered_motifs/oligos_6nt_mkv3_m6/peak-motifs_oligos_6nt_mkv3_m6_sites_per_peak.tab -lines -xcol 1 -ycol 4  -xsize 500 -xcol 1 -xleg1 'Number of sites' -ysize 250 -ycol 4,6 -yleg1 'Number of peaks' -legend -xgstep1 5 -xgstep2 1 -title1 'Nb predicted sites : oligos_6nt_mkv3_m6' -o $RSAT/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/discovered_motifs/oligos_6nt_mkv3_m6/peak-motifs_oligos_6nt_mkv3_m6_sites_per_peak.png


; 2026-03-19.135849
time -o $RSAT/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/discovered_motifs/oligos_6nt_mkv3_m7/peak-motifs_oligos_6nt_mkv3_m7_sites.tab_time.txt $RSAT/perl-scripts/matrix-scan -quick -v 1 -seq_format fasta -i $RSAT/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/data/sequences/peak-motifs_test_maxlen1000.fasta -matrix_format transfac -m $RSAT/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/discovered_motifs/oligos_6nt_mkv3_m7/peak-motifs_oligos_6nt_mkv3_m7.tf -bg_format inclusive -bgfile $RSAT/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/composition/peak-motifs_test_inclusive-1str-ovlp_2nt.txt  -pseudo 1 -2str -decimals 1 -bg_pseudo 0.01 -n score  -lth score 7.5 -origin center -offset 0 -return sites -o $RSAT/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/discovered_motifs/oligos_6nt_mkv3_m7/peak-motifs_oligos_6nt_mkv3_m7_sites.tab


; 2026-03-19.135849
grep -v '^;' $RSAT/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/discovered_motifs/oligos_6nt_mkv3_m7/peak-motifs_oligos_6nt_mkv3_m7_sites.tab | grep -v '^#' | awk '{print ($6+$5)/2}' | $RSAT/perl-scripts/classfreq -v 1 -ci 20 -o $RSAT/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/discovered_motifs/oligos_6nt_mkv3_m7/peak-motifs_oligos_6nt_mkv3_m7_site_distrib.tab


; 2026-03-19.135850
$RSAT/perl-scripts/XYgraph -format png -i $RSAT/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/discovered_motifs/oligos_6nt_mkv3_m7/peak-motifs_oligos_6nt_mkv3_m7_site_distrib.tab -lines -xcol 3 -ycol 4 -ysize 250 -ycol 4 -yleg1 'Number of sites' -xsize 600 -xcol 3 -xleg1 'Position relative to sequence center' -xgstep2 20 -vline '#666666' 0 -title1 'Predicted sites : oligos_6nt_mkv3_m7' -o $RSAT/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/discovered_motifs/oligos_6nt_mkv3_m7/peak-motifs_oligos_6nt_mkv3_m7_site_distrib.png


; 2026-03-19.135850
$RSAT/perl-scripts/contingency-table -i $RSAT/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/discovered_motifs/oligos_6nt_mkv3_m7/peak-motifs_oligos_6nt_mkv3_m7_sites.tab | $RSAT/perl-scripts/classfreq -v 1 -ci 1 -o $RSAT/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/discovered_motifs/oligos_6nt_mkv3_m7/peak-motifs_oligos_6nt_mkv3_m7_sites_per_peak.tab


; 2026-03-19.135850
$RSAT/perl-scripts/XYgraph -format png -i $RSAT/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/discovered_motifs/oligos_6nt_mkv3_m7/peak-motifs_oligos_6nt_mkv3_m7_sites_per_peak.tab -lines -xcol 1 -ycol 4  -xsize 500 -xcol 1 -xleg1 'Number of sites' -ysize 250 -ycol 4,6 -yleg1 'Number of peaks' -legend -xgstep1 5 -xgstep2 1 -title1 'Nb predicted sites : oligos_6nt_mkv3_m7' -o $RSAT/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/discovered_motifs/oligos_6nt_mkv3_m7/peak-motifs_oligos_6nt_mkv3_m7_sites_per_peak.png


; 2026-03-19.135850
time -o $RSAT/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/discovered_motifs/oligos_6nt_mkv3_m8/peak-motifs_oligos_6nt_mkv3_m8_sites.tab_time.txt $RSAT/perl-scripts/matrix-scan -quick -v 1 -seq_format fasta -i $RSAT/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/data/sequences/peak-motifs_test_maxlen1000.fasta -matrix_format transfac -m $RSAT/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/discovered_motifs/oligos_6nt_mkv3_m8/peak-motifs_oligos_6nt_mkv3_m8.tf -bg_format inclusive -bgfile $RSAT/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/composition/peak-motifs_test_inclusive-1str-ovlp_2nt.txt  -pseudo 1 -2str -decimals 1 -bg_pseudo 0.01 -n score  -lth score 7.5 -origin center -offset 0 -return sites -o $RSAT/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/discovered_motifs/oligos_6nt_mkv3_m8/peak-motifs_oligos_6nt_mkv3_m8_sites.tab


; 2026-03-19.135850
grep -v '^;' $RSAT/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/discovered_motifs/oligos_6nt_mkv3_m8/peak-motifs_oligos_6nt_mkv3_m8_sites.tab | grep -v '^#' | awk '{print ($6+$5)/2}' | $RSAT/perl-scripts/classfreq -v 1 -ci 20 -o $RSAT/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/discovered_motifs/oligos_6nt_mkv3_m8/peak-motifs_oligos_6nt_mkv3_m8_site_distrib.tab


; 2026-03-19.135850
$RSAT/perl-scripts/XYgraph -format png -i $RSAT/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/discovered_motifs/oligos_6nt_mkv3_m8/peak-motifs_oligos_6nt_mkv3_m8_site_distrib.tab -lines -xcol 3 -ycol 4 -ysize 250 -ycol 4 -yleg1 'Number of sites' -xsize 600 -xcol 3 -xleg1 'Position relative to sequence center' -xgstep2 20 -vline '#666666' 0 -title1 'Predicted sites : oligos_6nt_mkv3_m8' -o $RSAT/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/discovered_motifs/oligos_6nt_mkv3_m8/peak-motifs_oligos_6nt_mkv3_m8_site_distrib.png


; 2026-03-19.135851
$RSAT/perl-scripts/contingency-table -i $RSAT/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/discovered_motifs/oligos_6nt_mkv3_m8/peak-motifs_oligos_6nt_mkv3_m8_sites.tab | $RSAT/perl-scripts/classfreq -v 1 -ci 1 -o $RSAT/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/discovered_motifs/oligos_6nt_mkv3_m8/peak-motifs_oligos_6nt_mkv3_m8_sites_per_peak.tab


; 2026-03-19.135851
$RSAT/perl-scripts/XYgraph -format png -i $RSAT/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/discovered_motifs/oligos_6nt_mkv3_m8/peak-motifs_oligos_6nt_mkv3_m8_sites_per_peak.tab -lines -xcol 1 -ycol 4  -xsize 500 -xcol 1 -xleg1 'Number of sites' -ysize 250 -ycol 4,6 -yleg1 'Number of peaks' -legend -xgstep1 5 -xgstep2 1 -title1 'Nb predicted sites : oligos_6nt_mkv3_m8' -o $RSAT/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/discovered_motifs/oligos_6nt_mkv3_m8/peak-motifs_oligos_6nt_mkv3_m8_sites_per_peak.png


; 2026-03-19.135851
time -o $RSAT/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/discovered_motifs/oligos_6nt_mkv3_m9/peak-motifs_oligos_6nt_mkv3_m9_sites.tab_time.txt $RSAT/perl-scripts/matrix-scan -quick -v 1 -seq_format fasta -i $RSAT/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/data/sequences/peak-motifs_test_maxlen1000.fasta -matrix_format transfac -m $RSAT/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/discovered_motifs/oligos_6nt_mkv3_m9/peak-motifs_oligos_6nt_mkv3_m9.tf -bg_format inclusive -bgfile $RSAT/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/composition/peak-motifs_test_inclusive-1str-ovlp_2nt.txt  -pseudo 1 -2str -decimals 1 -bg_pseudo 0.01 -n score  -lth score 7.5 -origin center -offset 0 -return sites -o $RSAT/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/discovered_motifs/oligos_6nt_mkv3_m9/peak-motifs_oligos_6nt_mkv3_m9_sites.tab


; 2026-03-19.135851
grep -v '^;' $RSAT/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/discovered_motifs/oligos_6nt_mkv3_m9/peak-motifs_oligos_6nt_mkv3_m9_sites.tab | grep -v '^#' | awk '{print ($6+$5)/2}' | $RSAT/perl-scripts/classfreq -v 1 -ci 20 -o $RSAT/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/discovered_motifs/oligos_6nt_mkv3_m9/peak-motifs_oligos_6nt_mkv3_m9_site_distrib.tab


; 2026-03-19.135851
$RSAT/perl-scripts/XYgraph -format png -i $RSAT/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/discovered_motifs/oligos_6nt_mkv3_m9/peak-motifs_oligos_6nt_mkv3_m9_site_distrib.tab -lines -xcol 3 -ycol 4 -ysize 250 -ycol 4 -yleg1 'Number of sites' -xsize 600 -xcol 3 -xleg1 'Position relative to sequence center' -xgstep2 20 -vline '#666666' 0 -title1 'Predicted sites : oligos_6nt_mkv3_m9' -o $RSAT/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/discovered_motifs/oligos_6nt_mkv3_m9/peak-motifs_oligos_6nt_mkv3_m9_site_distrib.png


; 2026-03-19.135852
$RSAT/perl-scripts/contingency-table -i $RSAT/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/discovered_motifs/oligos_6nt_mkv3_m9/peak-motifs_oligos_6nt_mkv3_m9_sites.tab | $RSAT/perl-scripts/classfreq -v 1 -ci 1 -o $RSAT/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/discovered_motifs/oligos_6nt_mkv3_m9/peak-motifs_oligos_6nt_mkv3_m9_sites_per_peak.tab


; 2026-03-19.135852
$RSAT/perl-scripts/XYgraph -format png -i $RSAT/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/discovered_motifs/oligos_6nt_mkv3_m9/peak-motifs_oligos_6nt_mkv3_m9_sites_per_peak.tab -lines -xcol 1 -ycol 4  -xsize 500 -xcol 1 -xleg1 'Number of sites' -ysize 250 -ycol 4,6 -yleg1 'Number of peaks' -legend -xgstep1 5 -xgstep2 1 -title1 'Nb predicted sites : oligos_6nt_mkv3_m9' -o $RSAT/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/discovered_motifs/oligos_6nt_mkv3_m9/peak-motifs_oligos_6nt_mkv3_m9_sites_per_peak.png


; 2026-03-19.135852
time -o $RSAT/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/discovered_motifs/oligos_6nt_mkv3_m10/peak-motifs_oligos_6nt_mkv3_m10_sites.tab_time.txt $RSAT/perl-scripts/matrix-scan -quick -v 1 -seq_format fasta -i $RSAT/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/data/sequences/peak-motifs_test_maxlen1000.fasta -matrix_format transfac -m $RSAT/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/discovered_motifs/oligos_6nt_mkv3_m10/peak-motifs_oligos_6nt_mkv3_m10.tf -bg_format inclusive -bgfile $RSAT/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/composition/peak-motifs_test_inclusive-1str-ovlp_2nt.txt  -pseudo 1 -2str -decimals 1 -bg_pseudo 0.01 -n score  -lth score 7.5 -origin center -offset 0 -return sites -o $RSAT/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/discovered_motifs/oligos_6nt_mkv3_m10/peak-motifs_oligos_6nt_mkv3_m10_sites.tab


; 2026-03-19.135852
grep -v '^;' $RSAT/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/discovered_motifs/oligos_6nt_mkv3_m10/peak-motifs_oligos_6nt_mkv3_m10_sites.tab | grep -v '^#' | awk '{print ($6+$5)/2}' | $RSAT/perl-scripts/classfreq -v 1 -ci 20 -o $RSAT/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/discovered_motifs/oligos_6nt_mkv3_m10/peak-motifs_oligos_6nt_mkv3_m10_site_distrib.tab


; 2026-03-19.135852
$RSAT/perl-scripts/XYgraph -format png -i $RSAT/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/discovered_motifs/oligos_6nt_mkv3_m10/peak-motifs_oligos_6nt_mkv3_m10_site_distrib.tab -lines -xcol 3 -ycol 4 -ysize 250 -ycol 4 -yleg1 'Number of sites' -xsize 600 -xcol 3 -xleg1 'Position relative to sequence center' -xgstep2 20 -vline '#666666' 0 -title1 'Predicted sites : oligos_6nt_mkv3_m10' -o $RSAT/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/discovered_motifs/oligos_6nt_mkv3_m10/peak-motifs_oligos_6nt_mkv3_m10_site_distrib.png


; 2026-03-19.135853
$RSAT/perl-scripts/contingency-table -i $RSAT/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/discovered_motifs/oligos_6nt_mkv3_m10/peak-motifs_oligos_6nt_mkv3_m10_sites.tab | $RSAT/perl-scripts/classfreq -v 1 -ci 1 -o $RSAT/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/discovered_motifs/oligos_6nt_mkv3_m10/peak-motifs_oligos_6nt_mkv3_m10_sites_per_peak.tab


; 2026-03-19.135853
$RSAT/perl-scripts/XYgraph -format png -i $RSAT/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/discovered_motifs/oligos_6nt_mkv3_m10/peak-motifs_oligos_6nt_mkv3_m10_sites_per_peak.tab -lines -xcol 1 -ycol 4  -xsize 500 -xcol 1 -xleg1 'Number of sites' -ysize 250 -ycol 4,6 -yleg1 'Number of peaks' -legend -xgstep1 5 -xgstep2 1 -title1 'Nb predicted sites : oligos_6nt_mkv3_m10' -o $RSAT/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/discovered_motifs/oligos_6nt_mkv3_m10/peak-motifs_oligos_6nt_mkv3_m10_sites_per_peak.png


; 2026-03-19.135853
time -o $RSAT/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/discovered_motifs/positions_6nt_m1/peak-motifs_positions_6nt_m1_sites.tab_time.txt $RSAT/perl-scripts/matrix-scan -quick -v 1 -seq_format fasta -i $RSAT/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/data/sequences/peak-motifs_test_maxlen1000.fasta -matrix_format transfac -m $RSAT/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/discovered_motifs/positions_6nt_m1/peak-motifs_positions_6nt_m1.tf -bg_format inclusive -bgfile $RSAT/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/composition/peak-motifs_test_inclusive-1str-ovlp_2nt.txt  -pseudo 1 -2str -decimals 1 -bg_pseudo 0.01 -n score  -lth score 7.5 -origin center -offset 0 -return sites -o $RSAT/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/discovered_motifs/positions_6nt_m1/peak-motifs_positions_6nt_m1_sites.tab


; 2026-03-19.135853
grep -v '^;' $RSAT/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/discovered_motifs/positions_6nt_m1/peak-motifs_positions_6nt_m1_sites.tab | grep -v '^#' | awk '{print ($6+$5)/2}' | $RSAT/perl-scripts/classfreq -v 1 -ci 20 -o $RSAT/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/discovered_motifs/positions_6nt_m1/peak-motifs_positions_6nt_m1_site_distrib.tab


; 2026-03-19.135853
$RSAT/perl-scripts/XYgraph -format png -i $RSAT/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/discovered_motifs/positions_6nt_m1/peak-motifs_positions_6nt_m1_site_distrib.tab -lines -xcol 3 -ycol 4 -ysize 250 -ycol 4 -yleg1 'Number of sites' -xsize 600 -xcol 3 -xleg1 'Position relative to sequence center' -xgstep2 20 -vline '#666666' 0 -title1 'Predicted sites : positions_6nt_m1' -o $RSAT/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/discovered_motifs/positions_6nt_m1/peak-motifs_positions_6nt_m1_site_distrib.png


; 2026-03-19.135853
$RSAT/perl-scripts/contingency-table -i $RSAT/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/discovered_motifs/positions_6nt_m1/peak-motifs_positions_6nt_m1_sites.tab | $RSAT/perl-scripts/classfreq -v 1 -ci 1 -o $RSAT/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/discovered_motifs/positions_6nt_m1/peak-motifs_positions_6nt_m1_sites_per_peak.tab


; 2026-03-19.135854
$RSAT/perl-scripts/XYgraph -format png -i $RSAT/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/discovered_motifs/positions_6nt_m1/peak-motifs_positions_6nt_m1_sites_per_peak.tab -lines -xcol 1 -ycol 4  -xsize 500 -xcol 1 -xleg1 'Number of sites' -ysize 250 -ycol 4,6 -yleg1 'Number of peaks' -legend -xgstep1 5 -xgstep2 1 -title1 'Nb predicted sites : positions_6nt_m1' -o $RSAT/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/discovered_motifs/positions_6nt_m1/peak-motifs_positions_6nt_m1_sites_per_peak.png


; 2026-03-19.135854
time -o $RSAT/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/discovered_motifs/oligos_7nt_mkv4_m1/peak-motifs_oligos_7nt_mkv4_m1_sites.tab_time.txt $RSAT/perl-scripts/matrix-scan -quick -v 1 -seq_format fasta -i $RSAT/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/data/sequences/peak-motifs_test_maxlen1000.fasta -matrix_format transfac -m $RSAT/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/discovered_motifs/oligos_7nt_mkv4_m1/peak-motifs_oligos_7nt_mkv4_m1.tf -bg_format inclusive -bgfile $RSAT/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/composition/peak-motifs_test_inclusive-1str-ovlp_2nt.txt  -pseudo 1 -2str -decimals 1 -bg_pseudo 0.01 -n score  -lth score 7.5 -origin center -offset 0 -return sites -o $RSAT/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/discovered_motifs/oligos_7nt_mkv4_m1/peak-motifs_oligos_7nt_mkv4_m1_sites.tab


; 2026-03-19.135854
grep -v '^;' $RSAT/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/discovered_motifs/oligos_7nt_mkv4_m1/peak-motifs_oligos_7nt_mkv4_m1_sites.tab | grep -v '^#' | awk '{print ($6+$5)/2}' | $RSAT/perl-scripts/classfreq -v 1 -ci 20 -o $RSAT/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/discovered_motifs/oligos_7nt_mkv4_m1/peak-motifs_oligos_7nt_mkv4_m1_site_distrib.tab


; 2026-03-19.135854
$RSAT/perl-scripts/XYgraph -format png -i $RSAT/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/discovered_motifs/oligos_7nt_mkv4_m1/peak-motifs_oligos_7nt_mkv4_m1_site_distrib.tab -lines -xcol 3 -ycol 4 -ysize 250 -ycol 4 -yleg1 'Number of sites' -xsize 600 -xcol 3 -xleg1 'Position relative to sequence center' -xgstep2 20 -vline '#666666' 0 -title1 'Predicted sites : oligos_7nt_mkv4_m1' -o $RSAT/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/discovered_motifs/oligos_7nt_mkv4_m1/peak-motifs_oligos_7nt_mkv4_m1_site_distrib.png


; 2026-03-19.135854
$RSAT/perl-scripts/contingency-table -i $RSAT/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/discovered_motifs/oligos_7nt_mkv4_m1/peak-motifs_oligos_7nt_mkv4_m1_sites.tab | $RSAT/perl-scripts/classfreq -v 1 -ci 1 -o $RSAT/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/discovered_motifs/oligos_7nt_mkv4_m1/peak-motifs_oligos_7nt_mkv4_m1_sites_per_peak.tab


; 2026-03-19.135855
$RSAT/perl-scripts/XYgraph -format png -i $RSAT/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/discovered_motifs/oligos_7nt_mkv4_m1/peak-motifs_oligos_7nt_mkv4_m1_sites_per_peak.tab -lines -xcol 1 -ycol 4  -xsize 500 -xcol 1 -xleg1 'Number of sites' -ysize 250 -ycol 4,6 -yleg1 'Number of peaks' -legend -xgstep1 5 -xgstep2 1 -title1 'Nb predicted sites : oligos_7nt_mkv4_m1' -o $RSAT/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/discovered_motifs/oligos_7nt_mkv4_m1/peak-motifs_oligos_7nt_mkv4_m1_sites_per_peak.png


; 2026-03-19.135855
time -o $RSAT/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/discovered_motifs/oligos_7nt_mkv4_m2/peak-motifs_oligos_7nt_mkv4_m2_sites.tab_time.txt $RSAT/perl-scripts/matrix-scan -quick -v 1 -seq_format fasta -i $RSAT/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/data/sequences/peak-motifs_test_maxlen1000.fasta -matrix_format transfac -m $RSAT/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/discovered_motifs/oligos_7nt_mkv4_m2/peak-motifs_oligos_7nt_mkv4_m2.tf -bg_format inclusive -bgfile $RSAT/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/composition/peak-motifs_test_inclusive-1str-ovlp_2nt.txt  -pseudo 1 -2str -decimals 1 -bg_pseudo 0.01 -n score  -lth score 7.5 -origin center -offset 0 -return sites -o $RSAT/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/discovered_motifs/oligos_7nt_mkv4_m2/peak-motifs_oligos_7nt_mkv4_m2_sites.tab


; 2026-03-19.135855
grep -v '^;' $RSAT/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/discovered_motifs/oligos_7nt_mkv4_m2/peak-motifs_oligos_7nt_mkv4_m2_sites.tab | grep -v '^#' | awk '{print ($6+$5)/2}' | $RSAT/perl-scripts/classfreq -v 1 -ci 20 -o $RSAT/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/discovered_motifs/oligos_7nt_mkv4_m2/peak-motifs_oligos_7nt_mkv4_m2_site_distrib.tab


; 2026-03-19.135855
$RSAT/perl-scripts/XYgraph -format png -i $RSAT/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/discovered_motifs/oligos_7nt_mkv4_m2/peak-motifs_oligos_7nt_mkv4_m2_site_distrib.tab -lines -xcol 3 -ycol 4 -ysize 250 -ycol 4 -yleg1 'Number of sites' -xsize 600 -xcol 3 -xleg1 'Position relative to sequence center' -xgstep2 20 -vline '#666666' 0 -title1 'Predicted sites : oligos_7nt_mkv4_m2' -o $RSAT/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/discovered_motifs/oligos_7nt_mkv4_m2/peak-motifs_oligos_7nt_mkv4_m2_site_distrib.png


; 2026-03-19.135855
$RSAT/perl-scripts/contingency-table -i $RSAT/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/discovered_motifs/oligos_7nt_mkv4_m2/peak-motifs_oligos_7nt_mkv4_m2_sites.tab | $RSAT/perl-scripts/classfreq -v 1 -ci 1 -o $RSAT/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/discovered_motifs/oligos_7nt_mkv4_m2/peak-motifs_oligos_7nt_mkv4_m2_sites_per_peak.tab


; 2026-03-19.135856
$RSAT/perl-scripts/XYgraph -format png -i $RSAT/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/discovered_motifs/oligos_7nt_mkv4_m2/peak-motifs_oligos_7nt_mkv4_m2_sites_per_peak.tab -lines -xcol 1 -ycol 4  -xsize 500 -xcol 1 -xleg1 'Number of sites' -ysize 250 -ycol 4,6 -yleg1 'Number of peaks' -legend -xgstep1 5 -xgstep2 1 -title1 'Nb predicted sites : oligos_7nt_mkv4_m2' -o $RSAT/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/discovered_motifs/oligos_7nt_mkv4_m2/peak-motifs_oligos_7nt_mkv4_m2_sites_per_peak.png


; 2026-03-19.135856
time -o $RSAT/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/discovered_motifs/oligos_7nt_mkv4_m3/peak-motifs_oligos_7nt_mkv4_m3_sites.tab_time.txt $RSAT/perl-scripts/matrix-scan -quick -v 1 -seq_format fasta -i $RSAT/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/data/sequences/peak-motifs_test_maxlen1000.fasta -matrix_format transfac -m $RSAT/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/discovered_motifs/oligos_7nt_mkv4_m3/peak-motifs_oligos_7nt_mkv4_m3.tf -bg_format inclusive -bgfile $RSAT/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/composition/peak-motifs_test_inclusive-1str-ovlp_2nt.txt  -pseudo 1 -2str -decimals 1 -bg_pseudo 0.01 -n score  -lth score 7.5 -origin center -offset 0 -return sites -o $RSAT/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/discovered_motifs/oligos_7nt_mkv4_m3/peak-motifs_oligos_7nt_mkv4_m3_sites.tab


; 2026-03-19.135856
grep -v '^;' $RSAT/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/discovered_motifs/oligos_7nt_mkv4_m3/peak-motifs_oligos_7nt_mkv4_m3_sites.tab | grep -v '^#' | awk '{print ($6+$5)/2}' | $RSAT/perl-scripts/classfreq -v 1 -ci 20 -o $RSAT/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/discovered_motifs/oligos_7nt_mkv4_m3/peak-motifs_oligos_7nt_mkv4_m3_site_distrib.tab


; 2026-03-19.135856
$RSAT/perl-scripts/XYgraph -format png -i $RSAT/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/discovered_motifs/oligos_7nt_mkv4_m3/peak-motifs_oligos_7nt_mkv4_m3_site_distrib.tab -lines -xcol 3 -ycol 4 -ysize 250 -ycol 4 -yleg1 'Number of sites' -xsize 600 -xcol 3 -xleg1 'Position relative to sequence center' -xgstep2 20 -vline '#666666' 0 -title1 'Predicted sites : oligos_7nt_mkv4_m3' -o $RSAT/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/discovered_motifs/oligos_7nt_mkv4_m3/peak-motifs_oligos_7nt_mkv4_m3_site_distrib.png


; 2026-03-19.135856
$RSAT/perl-scripts/contingency-table -i $RSAT/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/discovered_motifs/oligos_7nt_mkv4_m3/peak-motifs_oligos_7nt_mkv4_m3_sites.tab | $RSAT/perl-scripts/classfreq -v 1 -ci 1 -o $RSAT/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/discovered_motifs/oligos_7nt_mkv4_m3/peak-motifs_oligos_7nt_mkv4_m3_sites_per_peak.tab


; 2026-03-19.135857
$RSAT/perl-scripts/XYgraph -format png -i $RSAT/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/discovered_motifs/oligos_7nt_mkv4_m3/peak-motifs_oligos_7nt_mkv4_m3_sites_per_peak.tab -lines -xcol 1 -ycol 4  -xsize 500 -xcol 1 -xleg1 'Number of sites' -ysize 250 -ycol 4,6 -yleg1 'Number of peaks' -legend -xgstep1 5 -xgstep2 1 -title1 'Nb predicted sites : oligos_7nt_mkv4_m3' -o $RSAT/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/discovered_motifs/oligos_7nt_mkv4_m3/peak-motifs_oligos_7nt_mkv4_m3_sites_per_peak.png


; 2026-03-19.135857
time -o $RSAT/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/discovered_motifs/oligos_7nt_mkv4_m4/peak-motifs_oligos_7nt_mkv4_m4_sites.tab_time.txt $RSAT/perl-scripts/matrix-scan -quick -v 1 -seq_format fasta -i $RSAT/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/data/sequences/peak-motifs_test_maxlen1000.fasta -matrix_format transfac -m $RSAT/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/discovered_motifs/oligos_7nt_mkv4_m4/peak-motifs_oligos_7nt_mkv4_m4.tf -bg_format inclusive -bgfile $RSAT/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/composition/peak-motifs_test_inclusive-1str-ovlp_2nt.txt  -pseudo 1 -2str -decimals 1 -bg_pseudo 0.01 -n score  -lth score 7.5 -origin center -offset 0 -return sites -o $RSAT/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/discovered_motifs/oligos_7nt_mkv4_m4/peak-motifs_oligos_7nt_mkv4_m4_sites.tab


; 2026-03-19.135857
grep -v '^;' $RSAT/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/discovered_motifs/oligos_7nt_mkv4_m4/peak-motifs_oligos_7nt_mkv4_m4_sites.tab | grep -v '^#' | awk '{print ($6+$5)/2}' | $RSAT/perl-scripts/classfreq -v 1 -ci 20 -o $RSAT/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/discovered_motifs/oligos_7nt_mkv4_m4/peak-motifs_oligos_7nt_mkv4_m4_site_distrib.tab


; 2026-03-19.135857
$RSAT/perl-scripts/XYgraph -format png -i $RSAT/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/discovered_motifs/oligos_7nt_mkv4_m4/peak-motifs_oligos_7nt_mkv4_m4_site_distrib.tab -lines -xcol 3 -ycol 4 -ysize 250 -ycol 4 -yleg1 'Number of sites' -xsize 600 -xcol 3 -xleg1 'Position relative to sequence center' -xgstep2 20 -vline '#666666' 0 -title1 'Predicted sites : oligos_7nt_mkv4_m4' -o $RSAT/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/discovered_motifs/oligos_7nt_mkv4_m4/peak-motifs_oligos_7nt_mkv4_m4_site_distrib.png


; 2026-03-19.135857
$RSAT/perl-scripts/contingency-table -i $RSAT/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/discovered_motifs/oligos_7nt_mkv4_m4/peak-motifs_oligos_7nt_mkv4_m4_sites.tab | $RSAT/perl-scripts/classfreq -v 1 -ci 1 -o $RSAT/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/discovered_motifs/oligos_7nt_mkv4_m4/peak-motifs_oligos_7nt_mkv4_m4_sites_per_peak.tab


; 2026-03-19.135858
$RSAT/perl-scripts/XYgraph -format png -i $RSAT/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/discovered_motifs/oligos_7nt_mkv4_m4/peak-motifs_oligos_7nt_mkv4_m4_sites_per_peak.tab -lines -xcol 1 -ycol 4  -xsize 500 -xcol 1 -xleg1 'Number of sites' -ysize 250 -ycol 4,6 -yleg1 'Number of peaks' -legend -xgstep1 5 -xgstep2 1 -title1 'Nb predicted sites : oligos_7nt_mkv4_m4' -o $RSAT/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/discovered_motifs/oligos_7nt_mkv4_m4/peak-motifs_oligos_7nt_mkv4_m4_sites_per_peak.png


; 2026-03-19.135858
time -o $RSAT/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/discovered_motifs/oligos_7nt_mkv4_m5/peak-motifs_oligos_7nt_mkv4_m5_sites.tab_time.txt $RSAT/perl-scripts/matrix-scan -quick -v 1 -seq_format fasta -i $RSAT/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/data/sequences/peak-motifs_test_maxlen1000.fasta -matrix_format transfac -m $RSAT/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/discovered_motifs/oligos_7nt_mkv4_m5/peak-motifs_oligos_7nt_mkv4_m5.tf -bg_format inclusive -bgfile $RSAT/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/composition/peak-motifs_test_inclusive-1str-ovlp_2nt.txt  -pseudo 1 -2str -decimals 1 -bg_pseudo 0.01 -n score  -lth score 7.5 -origin center -offset 0 -return sites -o $RSAT/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/discovered_motifs/oligos_7nt_mkv4_m5/peak-motifs_oligos_7nt_mkv4_m5_sites.tab


; 2026-03-19.135858
grep -v '^;' $RSAT/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/discovered_motifs/oligos_7nt_mkv4_m5/peak-motifs_oligos_7nt_mkv4_m5_sites.tab | grep -v '^#' | awk '{print ($6+$5)/2}' | $RSAT/perl-scripts/classfreq -v 1 -ci 20 -o $RSAT/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/discovered_motifs/oligos_7nt_mkv4_m5/peak-motifs_oligos_7nt_mkv4_m5_site_distrib.tab


; 2026-03-19.135858
$RSAT/perl-scripts/XYgraph -format png -i $RSAT/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/discovered_motifs/oligos_7nt_mkv4_m5/peak-motifs_oligos_7nt_mkv4_m5_site_distrib.tab -lines -xcol 3 -ycol 4 -ysize 250 -ycol 4 -yleg1 'Number of sites' -xsize 600 -xcol 3 -xleg1 'Position relative to sequence center' -xgstep2 20 -vline '#666666' 0 -title1 'Predicted sites : oligos_7nt_mkv4_m5' -o $RSAT/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/discovered_motifs/oligos_7nt_mkv4_m5/peak-motifs_oligos_7nt_mkv4_m5_site_distrib.png


; 2026-03-19.135858
$RSAT/perl-scripts/contingency-table -i $RSAT/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/discovered_motifs/oligos_7nt_mkv4_m5/peak-motifs_oligos_7nt_mkv4_m5_sites.tab | $RSAT/perl-scripts/classfreq -v 1 -ci 1 -o $RSAT/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/discovered_motifs/oligos_7nt_mkv4_m5/peak-motifs_oligos_7nt_mkv4_m5_sites_per_peak.tab


; 2026-03-19.135858
$RSAT/perl-scripts/XYgraph -format png -i $RSAT/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/discovered_motifs/oligos_7nt_mkv4_m5/peak-motifs_oligos_7nt_mkv4_m5_sites_per_peak.tab -lines -xcol 1 -ycol 4  -xsize 500 -xcol 1 -xleg1 'Number of sites' -ysize 250 -ycol 4,6 -yleg1 'Number of peaks' -legend -xgstep1 5 -xgstep2 1 -title1 'Nb predicted sites : oligos_7nt_mkv4_m5' -o $RSAT/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/discovered_motifs/oligos_7nt_mkv4_m5/peak-motifs_oligos_7nt_mkv4_m5_sites_per_peak.png


; 2026-03-19.135859
time -o $RSAT/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/discovered_motifs/positions_7nt_m1/peak-motifs_positions_7nt_m1_sites.tab_time.txt $RSAT/perl-scripts/matrix-scan -quick -v 1 -seq_format fasta -i $RSAT/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/data/sequences/peak-motifs_test_maxlen1000.fasta -matrix_format transfac -m $RSAT/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/discovered_motifs/positions_7nt_m1/peak-motifs_positions_7nt_m1.tf -bg_format inclusive -bgfile $RSAT/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/composition/peak-motifs_test_inclusive-1str-ovlp_2nt.txt  -pseudo 1 -2str -decimals 1 -bg_pseudo 0.01 -n score  -lth score 7.5 -origin center -offset 0 -return sites -o $RSAT/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/discovered_motifs/positions_7nt_m1/peak-motifs_positions_7nt_m1_sites.tab


; 2026-03-19.135859
grep -v '^;' $RSAT/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/discovered_motifs/positions_7nt_m1/peak-motifs_positions_7nt_m1_sites.tab | grep -v '^#' | awk '{print ($6+$5)/2}' | $RSAT/perl-scripts/classfreq -v 1 -ci 20 -o $RSAT/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/discovered_motifs/positions_7nt_m1/peak-motifs_positions_7nt_m1_site_distrib.tab


; 2026-03-19.135859
$RSAT/perl-scripts/XYgraph -format png -i $RSAT/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/discovered_motifs/positions_7nt_m1/peak-motifs_positions_7nt_m1_site_distrib.tab -lines -xcol 3 -ycol 4 -ysize 250 -ycol 4 -yleg1 'Number of sites' -xsize 600 -xcol 3 -xleg1 'Position relative to sequence center' -xgstep2 20 -vline '#666666' 0 -title1 'Predicted sites : positions_7nt_m1' -o $RSAT/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/discovered_motifs/positions_7nt_m1/peak-motifs_positions_7nt_m1_site_distrib.png


; 2026-03-19.135859
$RSAT/perl-scripts/contingency-table -i $RSAT/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/discovered_motifs/positions_7nt_m1/peak-motifs_positions_7nt_m1_sites.tab | $RSAT/perl-scripts/classfreq -v 1 -ci 1 -o $RSAT/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/discovered_motifs/positions_7nt_m1/peak-motifs_positions_7nt_m1_sites_per_peak.tab


; 2026-03-19.135859
$RSAT/perl-scripts/XYgraph -format png -i $RSAT/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/discovered_motifs/positions_7nt_m1/peak-motifs_positions_7nt_m1_sites_per_peak.tab -lines -xcol 1 -ycol 4  -xsize 500 -xcol 1 -xleg1 'Number of sites' -ysize 250 -ycol 4,6 -yleg1 'Number of peaks' -legend -xgstep1 5 -xgstep2 1 -title1 'Nb predicted sites : positions_7nt_m1' -o $RSAT/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/discovered_motifs/positions_7nt_m1/peak-motifs_positions_7nt_m1_sites_per_peak.png


; 2026-03-19.135900
cat $RSAT/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/discovered_motifs/oligos_6nt_mkv3_m1/peak-motifs_oligos_6nt_mkv3_m1_sites.tab $RSAT/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/discovered_motifs/oligos_6nt_mkv3_m2/peak-motifs_oligos_6nt_mkv3_m2_sites.tab $RSAT/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/discovered_motifs/oligos_6nt_mkv3_m3/peak-motifs_oligos_6nt_mkv3_m3_sites.tab $RSAT/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/discovered_motifs/oligos_6nt_mkv3_m4/peak-motifs_oligos_6nt_mkv3_m4_sites.tab $RSAT/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/discovered_motifs/oligos_6nt_mkv3_m5/peak-motifs_oligos_6nt_mkv3_m5_sites.tab $RSAT/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/discovered_motifs/oligos_6nt_mkv3_m6/peak-motifs_oligos_6nt_mkv3_m6_sites.tab $RSAT/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/discovered_motifs/oligos_6nt_mkv3_m7/peak-motifs_oligos_6nt_mkv3_m7_sites.tab $RSAT/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/discovered_motifs/oligos_6nt_mkv3_m8/peak-motifs_oligos_6nt_mkv3_m8_sites.tab $RSAT/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/discovered_motifs/oligos_6nt_mkv3_m9/peak-motifs_oligos_6nt_mkv3_m9_sites.tab $RSAT/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/discovered_motifs/oligos_6nt_mkv3_m10/peak-motifs_oligos_6nt_mkv3_m10_sites.tab $RSAT/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/discovered_motifs/positions_6nt_m1/peak-motifs_positions_6nt_m1_sites.tab $RSAT/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/discovered_motifs/oligos_7nt_mkv4_m1/peak-motifs_oligos_7nt_mkv4_m1_sites.tab $RSAT/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/discovered_motifs/oligos_7nt_mkv4_m2/peak-motifs_oligos_7nt_mkv4_m2_sites.tab $RSAT/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/discovered_motifs/oligos_7nt_mkv4_m3/peak-motifs_oligos_7nt_mkv4_m3_sites.tab $RSAT/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/discovered_motifs/oligos_7nt_mkv4_m4/peak-motifs_oligos_7nt_mkv4_m4_sites.tab $RSAT/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/discovered_motifs/oligos_7nt_mkv4_m5/peak-motifs_oligos_7nt_mkv4_m5_sites.tab $RSAT/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/discovered_motifs/positions_7nt_m1/peak-motifs_positions_7nt_m1_sites.tab $RSAT/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/discovered_motifs/oligos_6nt_mkv3_m1/peak-motifs_oligos_6nt_mkv3_m1_sites.tab $RSAT/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/discovered_motifs/oligos_6nt_mkv3_m2/peak-motifs_oligos_6nt_mkv3_m2_sites.tab $RSAT/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/discovered_motifs/oligos_6nt_mkv3_m3/peak-motifs_oligos_6nt_mkv3_m3_sites.tab $RSAT/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/discovered_motifs/oligos_6nt_mkv3_m4/peak-motifs_oligos_6nt_mkv3_m4_sites.tab $RSAT/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/discovered_motifs/oligos_6nt_mkv3_m5/peak-motifs_oligos_6nt_mkv3_m5_sites.tab $RSAT/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/discovered_motifs/oligos_6nt_mkv3_m6/peak-motifs_oligos_6nt_mkv3_m6_sites.tab $RSAT/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/discovered_motifs/oligos_6nt_mkv3_m7/peak-motifs_oligos_6nt_mkv3_m7_sites.tab $RSAT/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/discovered_motifs/oligos_6nt_mkv3_m8/peak-motifs_oligos_6nt_mkv3_m8_sites.tab $RSAT/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/discovered_motifs/oligos_6nt_mkv3_m9/peak-motifs_oligos_6nt_mkv3_m9_sites.tab $RSAT/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/discovered_motifs/oligos_6nt_mkv3_m10/peak-motifs_oligos_6nt_mkv3_m10_sites.tab $RSAT/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/discovered_motifs/positions_6nt_m1/peak-motifs_positions_6nt_m1_sites.tab $RSAT/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/discovered_motifs/oligos_7nt_mkv4_m1/peak-motifs_oligos_7nt_mkv4_m1_sites.tab $RSAT/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/discovered_motifs/oligos_7nt_mkv4_m2/peak-motifs_oligos_7nt_mkv4_m2_sites.tab $RSAT/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/discovered_motifs/oligos_7nt_mkv4_m3/peak-motifs_oligos_7nt_mkv4_m3_sites.tab $RSAT/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/discovered_motifs/oligos_7nt_mkv4_m4/peak-motifs_oligos_7nt_mkv4_m4_sites.tab $RSAT/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/discovered_motifs/oligos_7nt_mkv4_m5/peak-motifs_oligos_7nt_mkv4_m5_sites.tab $RSAT/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/discovered_motifs/positions_7nt_m1/peak-motifs_positions_7nt_m1_sites.tab $RSAT/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/discovered_motifs/oligos_6nt_mkv3_m1/peak-motifs_oligos_6nt_mkv3_m1_sites.tab $RSAT/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/discovered_motifs/oligos_6nt_mkv3_m2/peak-motifs_oligos_6nt_mkv3_m2_sites.tab $RSAT/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/discovered_motifs/oligos_6nt_mkv3_m3/peak-motifs_oligos_6nt_mkv3_m3_sites.tab $RSAT/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/discovered_motifs/oligos_6nt_mkv3_m4/peak-motifs_oligos_6nt_mkv3_m4_sites.tab $RSAT/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/discovered_motifs/oligos_6nt_mkv3_m5/peak-motifs_oligos_6nt_mkv3_m5_sites.tab $RSAT/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/discovered_motifs/oligos_6nt_mkv3_m6/peak-motifs_oligos_6nt_mkv3_m6_sites.tab $RSAT/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/discovered_motifs/oligos_6nt_mkv3_m7/peak-motifs_oligos_6nt_mkv3_m7_sites.tab $RSAT/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/discovered_motifs/oligos_6nt_mkv3_m8/peak-motifs_oligos_6nt_mkv3_m8_sites.tab $RSAT/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/discovered_motifs/oligos_6nt_mkv3_m9/peak-motifs_oligos_6nt_mkv3_m9_sites.tab $RSAT/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/discovered_motifs/oligos_6nt_mkv3_m10/peak-motifs_oligos_6nt_mkv3_m10_sites.tab $RSAT/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/discovered_motifs/positions_6nt_m1/peak-motifs_positions_6nt_m1_sites.tab $RSAT/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/discovered_motifs/oligos_7nt_mkv4_m1/peak-motifs_oligos_7nt_mkv4_m1_sites.tab $RSAT/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/discovered_motifs/oligos_7nt_mkv4_m2/peak-motifs_oligos_7nt_mkv4_m2_sites.tab $RSAT/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/discovered_motifs/oligos_7nt_mkv4_m3/peak-motifs_oligos_7nt_mkv4_m3_sites.tab $RSAT/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/discovered_motifs/oligos_7nt_mkv4_m4/peak-motifs_oligos_7nt_mkv4_m4_sites.tab $RSAT/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/discovered_motifs/oligos_7nt_mkv4_m5/peak-motifs_oligos_7nt_mkv4_m5_sites.tab $RSAT/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/discovered_motifs/positions_7nt_m1/peak-motifs_positions_7nt_m1_sites.tab > $RSAT/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/sites/peak-motifs_all_motifs_seqcoord.tab


; 2026-03-19.135900
$RSAT/perl-scripts/text-to-html -font variable -i $RSAT/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/reports/peak-motifs_timelog.txt -o $RSAT/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/reports/peak-motifs_timelog.html

; peak-motifs  -v 1 -title iggonly_ecoli_wenbo_brac_2 -i $RSAT/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/peak-motifspeak_seq -max_seq_len 1000 -markov auto -disco oligos,positions -nmotifs 10 -minol 6 -maxol 7 -no_merge_lengths -2str -origin center -motif_db JASPAR2024_CORE_vertebrates_non-redundant tf $RSAT/public_html/motif_databases/JASPAR/Jaspar_2024/JASPAR2024_CORE_vertebrates_non-redundant_pfms_transfac.txt -scan_markov 1 -task purge,seqlen,composition,disco,merge_motifs,split_motifs,motifs_vs_motifs,timelog,archive,synthesis,small_summary,motifs_vs_db,scan -prefix peak-motifs -noov -img_format png -outdir $RSAT/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35
; Program version       	1.256
; Parameter values
;	seq_format            	fasta
;	img_format            	png
;	ref_motifs_format     	transfac
;	purge_match_length    	40
;	purge_mismatches      	3
;	origin                	center
;	offset                	0
;	profiles_ci           	20
;	profiles_max_graphs   	20
;	profiles_strand       	-1str
;	composition_oligo_lengths	1,2
;	profiles_noov         	-ovlp
;	strand                	-2str
;	disco_noov            	-noov
;	oligo_min_len         	6
;	oligo_max_len         	7
;	patterns_max_rank     	100
;	min_ratio             	1
;	min_zscore            	6
;	min_sig               	0
;	oligo_min_mkv         	-3
;	oligo_max_mkv         	-3
;	under_represented     	0
;	positions_max_graphs  	20
;	asmb_toppat           	100
;	max_asmb_width        	20
;	matrix_nmotifs        	10
; Input files
;	motif_db_JASPAR2024_CORE_vertebrates_non-redundant	/var/www/html/rsat/public_html/motif_databases/JASPAR/Jaspar_2024/JASPAR2024_CORE_vertebrates_non-redundant_pfms_transfac.txt
;	test_seq              	/var/www/html/rsat/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/peak-motifspeak_seq
; Directories
;	output                        	/var/www/html/rsat/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/
;	oligos_6nt_mkv3_m1            	/var/www/html/rsat/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/discovered_motifs/oligos_6nt_mkv3_m1/
;	oligos_6nt_mkv3_m2            	/var/www/html/rsat/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/discovered_motifs/oligos_6nt_mkv3_m2/
;	oligos_6nt_mkv3_m3            	/var/www/html/rsat/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/discovered_motifs/oligos_6nt_mkv3_m3/
;	oligos_6nt_mkv3_m4            	/var/www/html/rsat/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/discovered_motifs/oligos_6nt_mkv3_m4/
;	oligos_6nt_mkv3_m5            	/var/www/html/rsat/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/discovered_motifs/oligos_6nt_mkv3_m5/
;	oligos_6nt_mkv3_m6            	/var/www/html/rsat/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/discovered_motifs/oligos_6nt_mkv3_m6/
;	oligos_6nt_mkv3_m7            	/var/www/html/rsat/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/discovered_motifs/oligos_6nt_mkv3_m7/
;	oligos_6nt_mkv3_m8            	/var/www/html/rsat/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/discovered_motifs/oligos_6nt_mkv3_m8/
;	oligos_6nt_mkv3_m9            	/var/www/html/rsat/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/discovered_motifs/oligos_6nt_mkv3_m9/
;	oligos_6nt_mkv3_m10           	/var/www/html/rsat/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/discovered_motifs/oligos_6nt_mkv3_m10/
;	positions_6nt_m1              	/var/www/html/rsat/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/discovered_motifs/positions_6nt_m1/
;	oligos_7nt_mkv4_m1            	/var/www/html/rsat/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/discovered_motifs/oligos_7nt_mkv4_m1/
;	oligos_7nt_mkv4_m2            	/var/www/html/rsat/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/discovered_motifs/oligos_7nt_mkv4_m2/
;	oligos_7nt_mkv4_m3            	/var/www/html/rsat/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/discovered_motifs/oligos_7nt_mkv4_m3/
;	oligos_7nt_mkv4_m4            	/var/www/html/rsat/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/discovered_motifs/oligos_7nt_mkv4_m4/
;	oligos_7nt_mkv4_m5            	/var/www/html/rsat/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/discovered_motifs/oligos_7nt_mkv4_m5/
;	positions_7nt_m1              	/var/www/html/rsat/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/discovered_motifs/positions_7nt_m1/
; Output files
;	1nt_test_freq                 	/var/www/html/rsat/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/composition/peak-motifs_test_freq-1str-ovlp_1nt.tab
;	1nt_test_heatmap              	/var/www/html/rsat/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/composition/peak-motifs_test_heatmap-1str-ovlp_1nt.png
;	1nt_test_inclusive            	/var/www/html/rsat/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/composition/peak-motifs_test_inclusive-1str-ovlp_1nt.txt
;	1nt_test_profiles             	/var/www/html/rsat/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/composition/peak-motifs_test_profiles-1str-ovlp_1nt_ci20.tab
;	1nt_test_profiles_graph       	/var/www/html/rsat/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/composition/peak-motifs_test_profiles-1str-ovlp_1nt_ci20.png
;	1nt_test_profiles_index       	/var/www/html/rsat/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/composition/peak-motifs_test_profiles-1str-ovlp_1nt_ci20_graph_index.html
;	1nt_test_transitions          	/var/www/html/rsat/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/composition/peak-motifs_test_transitions-1str-ovlp_1nt.tab
;	2nt_test_freq                 	/var/www/html/rsat/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/composition/peak-motifs_test_freq-1str-ovlp_2nt.tab
;	2nt_test_heatmap              	/var/www/html/rsat/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/composition/peak-motifs_test_heatmap-1str-ovlp_2nt.png
;	2nt_test_inclusive            	/var/www/html/rsat/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/composition/peak-motifs_test_inclusive-1str-ovlp_2nt.txt
;	2nt_test_profiles             	/var/www/html/rsat/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/composition/peak-motifs_test_profiles-1str-ovlp_2nt_ci20.tab
;	2nt_test_profiles_graph       	/var/www/html/rsat/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/composition/peak-motifs_test_profiles-1str-ovlp_2nt_ci20.png
;	2nt_test_profiles_index       	/var/www/html/rsat/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/composition/peak-motifs_test_profiles-1str-ovlp_2nt_ci20_graph_index.html
;	2nt_test_transitions          	/var/www/html/rsat/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/composition/peak-motifs_test_transitions-1str-ovlp_2nt.tab
;	archive                       	/var/www/html/rsat/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/peak-motifs_archive.zip
;	links                         	/var/www/html/rsat/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/reports/peak-motifs_links.html
;	log                           	/var/www/html/rsat/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/reports/peak-motifs_log.txt
;	merged_sites                  	/var/www/html/rsat/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/sites/peak-motifs_all_motifs_seqcoord.tab
;	merged_sites_bed              	/var/www/html/rsat/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/sites/peak-motifs_all_motifs_seqcoord.bed
;	merged_words                  	/var/www/html/rsat/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/merged_words/peak-motifs_merged_words.tab
;	merged_words_heatmap          	/var/www/html/rsat/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/merged_words/peak-motifs_merged_words_heatmap.png
;	merged_words_html             	/var/www/html/rsat/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/merged_words/peak-motifs_merged_words.html
;	motifs_disco_clusters         	/var/www/html/rsat/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/discovered_motifs/peak-motifs_motifs_discovered_clusters
;	motifs_disco_clusters_html    	/var/www/html/rsat/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/discovered_motifs/peak-motifs_motifs_discovered_clusters_SUMMARY.html
;	motifs_disco_compa            	/var/www/html/rsat/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/discovered_motifs/peak-motifs_motifs_disco_compa.tab
;	motifs_disco_compa_alignments_1ton	/var/www/html/rsat/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/discovered_motifs/peak-motifs_motifs_disco_compa_alignments_1ton.tab
;	motifs_disco_compa_alignments_1ton_html	/var/www/html/rsat/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/discovered_motifs/peak-motifs_motifs_disco_compa_alignments_1ton.html
;	motifs_disco_compa_gml        	/var/www/html/rsat/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/discovered_motifs/peak-motifs_motifs_disco_compa.gml
;	motifs_disco_compa_html       	/var/www/html/rsat/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/discovered_motifs/peak-motifs_motifs_disco_compa.html
;	motifs_discovered             	/var/www/html/rsat/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/discovered_motifs/peak-motifs_motifs_discovered.tf
;	motifs_discovered_table       	/var/www/html/rsat/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/discovered_motifs/peak-motifs_motifs_discovered_table.tab
;	motifs_vs_db_JASPAR2024_CORE_vertebrates_non-redundant	/var/www/html/rsat/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/discovered_vs_db/peak-motifs_motifs_vs_db_JASPAR2024_CORE_vertebrates_non-redundant.tab
;	motifs_vs_db_JASPAR2024_CORE_vertebrates_non-redundant_alignments_1ton	/var/www/html/rsat/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/discovered_vs_db/peak-motifs_motifs_vs_db_JASPAR2024_CORE_vertebrates_non-redundant_alignments_1ton.tab
;	motifs_vs_db_JASPAR2024_CORE_vertebrates_non-redundant_alignments_1ton_html	/var/www/html/rsat/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/discovered_vs_db/peak-motifs_motifs_vs_db_JASPAR2024_CORE_vertebrates_non-redundant_alignments_1ton.html
;	motifs_vs_db_JASPAR2024_CORE_vertebrates_non-redundant_gml	/var/www/html/rsat/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/discovered_vs_db/peak-motifs_motifs_vs_db_JASPAR2024_CORE_vertebrates_non-redundant.gml
;	motifs_vs_db_JASPAR2024_CORE_vertebrates_non-redundant_html	/var/www/html/rsat/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/discovered_vs_db/peak-motifs_motifs_vs_db_JASPAR2024_CORE_vertebrates_non-redundant.html
;	oligos_6nt_mkv3               	/var/www/html/rsat/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/oligos_6nt_mkv3/peak-motifs_oligos-2str-noov_6nt_mkv3.tab
;	oligos_6nt_mkv3_2pssm         	/var/www/html/rsat/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/oligos_6nt_mkv3/peak-motifs_oligos-2str-noov_6nt_mkv3_pssm_log.txt
;	oligos_6nt_mkv3_asmb          	/var/www/html/rsat/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/oligos_6nt_mkv3/peak-motifs_oligos-2str-noov_6nt_mkv3_pssm.asmb
;	oligos_6nt_mkv3_m10_logo      	/var/www/html/rsat/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/discovered_motifs/oligos_6nt_mkv3_m10/peak-motifs_oligos_6nt_mkv3_m10_logo.png
;	oligos_6nt_mkv3_m10_logo_rc   	/var/www/html/rsat/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/discovered_motifs/oligos_6nt_mkv3_m10/peak-motifs_oligos_6nt_mkv3_m10_logo_rc.png
;	oligos_6nt_mkv3_m10_pssm_enrichment	/var/www/html/rsat/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/discovered_motifs/oligos_6nt_mkv3_m10/peak-motifs_oligos_6nt_mkv3_m10_scan_mkv1_enrichment.tab
;	oligos_6nt_mkv3_m10_pssm_enrichment_png	/var/www/html/rsat/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/discovered_motifs/oligos_6nt_mkv3_m10/peak-motifs_oligos_6nt_mkv3_m10_scan_mkv1_enrichment.png
;	oligos_6nt_mkv3_m10_pssm_site_distrib	/var/www/html/rsat/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/discovered_motifs/oligos_6nt_mkv3_m10/peak-motifs_oligos_6nt_mkv3_m10_site_distrib.tab
;	oligos_6nt_mkv3_m10_pssm_site_distrib_graph	/var/www/html/rsat/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/discovered_motifs/oligos_6nt_mkv3_m10/peak-motifs_oligos_6nt_mkv3_m10_site_distrib.png
;	oligos_6nt_mkv3_m10_pssm_sites	/var/www/html/rsat/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/discovered_motifs/oligos_6nt_mkv3_m10/peak-motifs_oligos_6nt_mkv3_m10_sites.tab
;	oligos_6nt_mkv3_m10_pssm_sites_per_peak	/var/www/html/rsat/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/discovered_motifs/oligos_6nt_mkv3_m10/peak-motifs_oligos_6nt_mkv3_m10_sites_per_peak.tab
;	oligos_6nt_mkv3_m10_pssm_sites_per_peak_graph	/var/www/html/rsat/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/discovered_motifs/oligos_6nt_mkv3_m10/peak-motifs_oligos_6nt_mkv3_m10_sites_per_peak.png
;	oligos_6nt_mkv3_m10_tab       	/var/www/html/rsat/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/discovered_motifs/oligos_6nt_mkv3_m10/peak-motifs_oligos_6nt_mkv3_m10.tab
;	oligos_6nt_mkv3_m10_tf        	/var/www/html/rsat/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/discovered_motifs/oligos_6nt_mkv3_m10/peak-motifs_oligos_6nt_mkv3_m10.tf
;	oligos_6nt_mkv3_m10_vs_db_JASPAR2024_CORE_vertebrates_non-redundant	/var/www/html/rsat/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/discovered_motifs/oligos_6nt_mkv3_m10/peak-motifs_oligos_6nt_mkv3_m10_vs_db_JASPAR2024_CORE_vertebrates_non-redundant.tab
;	oligos_6nt_mkv3_m10_vs_db_JASPAR2024_CORE_vertebrates_non-redundant_html	/var/www/html/rsat/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/discovered_motifs/oligos_6nt_mkv3_m10/peak-motifs_oligos_6nt_mkv3_m10_vs_db_JASPAR2024_CORE_vertebrates_non-redundant.html
;	oligos_6nt_mkv3_m10_vs_ref    	/var/www/html/rsat/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/discovered_motifs/oligos_6nt_mkv3_m10/peak-motifs_oligos_6nt_mkv3_m10_vs_ref.tab
;	oligos_6nt_mkv3_m10_vs_ref_html	/var/www/html/rsat/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/discovered_motifs/oligos_6nt_mkv3_m10/peak-motifs_oligos_6nt_mkv3_m10_vs_ref.html
;	oligos_6nt_mkv3_m1_logo       	/var/www/html/rsat/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/discovered_motifs/oligos_6nt_mkv3_m1/peak-motifs_oligos_6nt_mkv3_m1_logo.png
;	oligos_6nt_mkv3_m1_logo_rc    	/var/www/html/rsat/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/discovered_motifs/oligos_6nt_mkv3_m1/peak-motifs_oligos_6nt_mkv3_m1_logo_rc.png
;	oligos_6nt_mkv3_m1_pssm_enrichment	/var/www/html/rsat/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/discovered_motifs/oligos_6nt_mkv3_m1/peak-motifs_oligos_6nt_mkv3_m1_scan_mkv1_enrichment.tab
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;	positions_7nt_m1_pssm_sites   	/var/www/html/rsat/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/discovered_motifs/positions_7nt_m1/peak-motifs_positions_7nt_m1_sites.tab
;	positions_7nt_m1_pssm_sites_per_peak	/var/www/html/rsat/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/discovered_motifs/positions_7nt_m1/peak-motifs_positions_7nt_m1_sites_per_peak.tab
;	positions_7nt_m1_pssm_sites_per_peak_graph	/var/www/html/rsat/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/discovered_motifs/positions_7nt_m1/peak-motifs_positions_7nt_m1_sites_per_peak.png
;	positions_7nt_m1_tab          	/var/www/html/rsat/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/discovered_motifs/positions_7nt_m1/peak-motifs_positions_7nt_m1.tab
;	positions_7nt_m1_tf           	/var/www/html/rsat/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/discovered_motifs/positions_7nt_m1/peak-motifs_positions_7nt_m1.tf
;	positions_7nt_m1_vs_db_JASPAR2024_CORE_vertebrates_non-redundant	/var/www/html/rsat/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/discovered_motifs/positions_7nt_m1/peak-motifs_positions_7nt_m1_vs_db_JASPAR2024_CORE_vertebrates_non-redundant.tab
;	positions_7nt_m1_vs_db_JASPAR2024_CORE_vertebrates_non-redundant_html	/var/www/html/rsat/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/discovered_motifs/positions_7nt_m1/peak-motifs_positions_7nt_m1_vs_db_JASPAR2024_CORE_vertebrates_non-redundant.html
;	positions_7nt_m1_vs_ref       	/var/www/html/rsat/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/discovered_motifs/positions_7nt_m1/peak-motifs_positions_7nt_m1_vs_ref.tab
;	positions_7nt_m1_vs_ref_html  	/var/www/html/rsat/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/discovered_motifs/positions_7nt_m1/peak-motifs_positions_7nt_m1_vs_ref.html
;	positions_7nt_pssm_counts     	/var/www/html/rsat/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/positions_7nt/peak-motifs_positions-2str-noov_7nt_ci50_pssm_count_matrices.txt
;	positions_7nt_pssm_logo1      	/var/www/html/rsat/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/positions_7nt/peak-motifs_positions-2str-noov_7nt_ci50_pssm_count_matrices_logo_m1.png
;	positions_7nt_pssm_logo10     	/var/www/html/rsat/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/positions_7nt/peak-motifs_positions-2str-noov_7nt_ci50_pssm_count_matrices_logo_m10.png
;	positions_7nt_pssm_logo2      	/var/www/html/rsat/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/positions_7nt/peak-motifs_positions-2str-noov_7nt_ci50_pssm_count_matrices_logo_m2.png
;	positions_7nt_pssm_logo3      	/var/www/html/rsat/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/positions_7nt/peak-motifs_positions-2str-noov_7nt_ci50_pssm_count_matrices_logo_m3.png
;	positions_7nt_pssm_logo4      	/var/www/html/rsat/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/positions_7nt/peak-motifs_positions-2str-noov_7nt_ci50_pssm_count_matrices_logo_m4.png
;	positions_7nt_pssm_logo5      	/var/www/html/rsat/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/positions_7nt/peak-motifs_positions-2str-noov_7nt_ci50_pssm_count_matrices_logo_m5.png
;	positions_7nt_pssm_logo6      	/var/www/html/rsat/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/positions_7nt/peak-motifs_positions-2str-noov_7nt_ci50_pssm_count_matrices_logo_m6.png
;	positions_7nt_pssm_logo7      	/var/www/html/rsat/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/positions_7nt/peak-motifs_positions-2str-noov_7nt_ci50_pssm_count_matrices_logo_m7.png
;	positions_7nt_pssm_logo8      	/var/www/html/rsat/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/positions_7nt/peak-motifs_positions-2str-noov_7nt_ci50_pssm_count_matrices_logo_m8.png
;	positions_7nt_pssm_logo9      	/var/www/html/rsat/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/positions_7nt/peak-motifs_positions-2str-noov_7nt_ci50_pssm_count_matrices_logo_m9.png
;	positions_7nt_pssm_logo_rc1   	/var/www/html/rsat/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/positions_7nt/peak-motifs_positions-2str-noov_7nt_ci50_pssm_count_matrices_logo_m1_rc.png
;	positions_7nt_pssm_logo_rc10  	/var/www/html/rsat/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/positions_7nt/peak-motifs_positions-2str-noov_7nt_ci50_pssm_count_matrices_logo_m10_rc.png
;	positions_7nt_pssm_logo_rc2   	/var/www/html/rsat/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/positions_7nt/peak-motifs_positions-2str-noov_7nt_ci50_pssm_count_matrices_logo_m2_rc.png
;	positions_7nt_pssm_logo_rc3   	/var/www/html/rsat/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/positions_7nt/peak-motifs_positions-2str-noov_7nt_ci50_pssm_count_matrices_logo_m3_rc.png
;	positions_7nt_pssm_logo_rc4   	/var/www/html/rsat/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/positions_7nt/peak-motifs_positions-2str-noov_7nt_ci50_pssm_count_matrices_logo_m4_rc.png
;	positions_7nt_pssm_logo_rc5   	/var/www/html/rsat/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/positions_7nt/peak-motifs_positions-2str-noov_7nt_ci50_pssm_count_matrices_logo_m5_rc.png
;	positions_7nt_pssm_logo_rc6   	/var/www/html/rsat/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/positions_7nt/peak-motifs_positions-2str-noov_7nt_ci50_pssm_count_matrices_logo_m6_rc.png
;	positions_7nt_pssm_logo_rc7   	/var/www/html/rsat/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/positions_7nt/peak-motifs_positions-2str-noov_7nt_ci50_pssm_count_matrices_logo_m7_rc.png
;	positions_7nt_pssm_logo_rc8   	/var/www/html/rsat/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/positions_7nt/peak-motifs_positions-2str-noov_7nt_ci50_pssm_count_matrices_logo_m8_rc.png
;	positions_7nt_pssm_logo_rc9   	/var/www/html/rsat/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/positions_7nt/peak-motifs_positions-2str-noov_7nt_ci50_pssm_count_matrices_logo_m9_rc.png
;	positions_7nt_pssm_sig        	/var/www/html/rsat/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/positions_7nt/peak-motifs_positions-2str-noov_7nt_ci50_pssm_sig_matrices.tf
;	positions_7nt_pssm_tf         	/var/www/html/rsat/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/results/positions_7nt/peak-motifs_positions-2str-noov_7nt_ci50_pssm_count_matrices.tf
;	small_summary                 	/var/www/html/rsat/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/peak-motifs_small_summary.html
;	small_summary_txt             	/var/www/html/rsat/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/reports/peak-motifs_small_summary.txt
;	synthesis                     	/var/www/html/rsat/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/peak-motifs_synthesis.html
;	test_converted                	/var/www/html/rsat/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/data/sequences/peak-motifs_test_maxlen1000.fasta
;	test_purged                   	/var/www/html/rsat/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/data/sequences/peak-motifs_test_maxlen1000_purged_ml40_mis3.fasta
;	test_seqlen                   	/var/www/html/rsat/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/data/sequences/peak-motifs_test_seqlen.tab
;	test_seqlen_distrib           	/var/www/html/rsat/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/data/sequences/peak-motifs_test_seqlen_distrib.tab
;	test_seqlen_distrib_graph     	/var/www/html/rsat/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/data/sequences/peak-motifs_test_seqlen_distrib.png
;	timelog                       	/var/www/html/rsat/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/reports/peak-motifs_timelog.txt
;	timelog_html                  	/var/www/html/rsat/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/reports/peak-motifs_timelog.html
;	timetable                     	/var/www/html/rsat/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/reports/peak-motifs_timetable.txt

; 2026-03-19.135900
(cd $RSAT/public_html/tmp/www-data/2026/03/19 ;  zip -ryq peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35/peak-motifs_archive.zip peak-motifs.2026-03-19.135315_2026-03-19.135315_TQdT35 -x peak-motifs_archive.zip)

