RSAT - peak-motifs result

Analysis: TRIM63_internal_promoter (26/02/2026 23:44)

peak-motifs  -v 1 -title TRIM63_internal_promoter -i $RSAT/public_html/tmp/www-data/2026/02/26/peak-motifs.2026-02-26.234255_2026-02-26.234255_NT9Wzo/peak-motifspeak_seq -max_seq_len 1000 -markov auto -disco oligos,positions -nmotifs 5 -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 -source getfasta -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/2026/02/26/peak-motifs.2026-02-26.234255_2026-02-26.234255_NT9Wzo

motif discovery
oligos_6nt_mkv1	oligos_6nt_mkv1_m1 assembly: cgctta (sig=0.11; e-value=0.78) RC: taagcg oligos_6nt_mkv1_m2 assembly: agtcaa (sig=0.02; e-value=0.95) RC: ttgact oligos_6nt_mkv1_m3 : (sig=; e-value=1) RC: oligos_6nt_mkv1_m4 : (sig=; e-value=1) RC: oligos_6nt_mkv1_m5 : (sig=; e-value=1) RC:	[ discovered words: text ] [ assembly: text sig matrices ] [ matrices: tab format transfac format ]
positions_6nt	Not a single significant pattern	[positions_6nt]
oligos_7nt_mkv1	oligos_7nt_mkv1_m1 assembly: agagtcaa (sig=0.93; e-value=0.12) RC: ttgactct oligos_7nt_mkv1_m2 assembly: gataagcgg (sig=0.85; e-value=0.14) RC: ccgcttatc oligos_7nt_mkv1_m3 assembly: ccctgcc (sig=0.54; e-value=0.29) RC: ggcaggg oligos_7nt_mkv1_m4 assembly: tccataacaca (sig=0.42; e-value=0.38) RC: tgtgttatgga oligos_7nt_mkv1_m5 assembly: cggggta (sig=0.41; e-value=0.39) RC: taccccg	[ discovered words: text ] [ assembly: text sig matrices ] [ matrices: tab format transfac format ]
positions_7nt	Not a single significant pattern	[positions_7nt]

Motif discovery
Motif 1   oligos_6nt_mkv1_m1	k-mer sig=0.11; evalue=0.78 CCCGCTTATC GATAAGCGGG	[ k-mers: statistics assemblies ] [ matrix: tab_format transfac_format ]
JASPAR2024_CORE_vertebrates_non-redundant name id strand Nb overlap % Pearson Normalized aligned col. motif aligned col. match       columns aligned correlation cor CCCGCTTATC GATA4 MA0482.3 D 7 0.6364 0.861 0.548 NA NA Gata3 MA0037.5 D 7 0.6364 0.860 0.547 NA NA GATA6 MA1104.3 D 7 0.6364 0.855 0.544 NA NA Total matches= 14 (11 more)		[ match table: html text ] [ alignments (logos): html text ]
Predicted sites on test peaks	Distribution of sites Nb of predicted sites per peak Nb peaks with at least one predicted site: 1 (100.00%) Max nb of predicted sites per peak: 1  (1:26066944-26067153) Mean nb of predicted sites per peak: 1.00	[ view in genome browser : ] [ sites: text BED (UCSC track) ] [ distribution: text ] [ sites per peak: text ] [ enrichment: text graph ]
Motif 2   oligos_6nt_mkv1_m2	k-mer sig=0.02; evalue=0.95 AGAGTCAAMW WKTTGACTCT	[ k-mers: statistics assemblies ] [ matrix: tab_format transfac_format ]
JASPAR2024_CORE_vertebrates_non-redundant name id strand Nb overlap % Pearson Normalized aligned col. motif aligned col. match       columns aligned correlation cor AGAGTCAAMW Nr2e1 MA0676.1 D 8 0.7273 0.806 0.586 NA NA ZNF652 MA1657.2 D 8 0.7273 0.794 0.578 NA NA BATF3 MA0835.3 R 7 0.7000 0.798 0.559 NA NA Total matches= 14 (11 more)		[ match table: html text ] [ alignments (logos): html text ]
Predicted sites on test peaks	Distribution of sites Nb of predicted sites per peak Nb peaks with at least one predicted site: 1 (100.00%) Max nb of predicted sites per peak: 2  (1:26066944-26067153) Mean nb of predicted sites per peak: 2.00	[ view in genome browser : ] [ sites: text BED (UCSC track) ] [ distribution: text ] [ sites per peak: text ] [ enrichment: text graph ]
Motif 3   oligos_7nt_mkv1_m1	k-mer sig=0.93; evalue=0.12 sRAGAGTCAAMW WKTTGACTCTYS	[ k-mers: statistics assemblies ] [ matrix: tab_format transfac_format ]
JASPAR2024_CORE_vertebrates_non-redundant name id strand Nb overlap % Pearson Normalized aligned col. motif aligned col. match       columns aligned correlation cor sRAGAGTCAAMW Nr2e1 MA0676.1 D 9 0.7500 0.793 0.595 NA NA ZNF652 MA1657.2 D 9 0.7500 0.769 0.577 NA NA Jun MA0489.3 R 8 0.6667 0.790 0.526 NA NA Total matches= 12 (9 more)		[ match table: html text ] [ alignments (logos): html text ]
Predicted sites on test peaks	Distribution of sites Nb of predicted sites per peak Nb peaks with at least one predicted site: 1 (100.00%) Max nb of predicted sites per peak: 2  (1:26066944-26067153) Mean nb of predicted sites per peak: 2.00	[ view in genome browser : ] [ sites: text BED (UCSC track) ] [ distribution: text ] [ sites per peak: text ] [ enrichment: text graph ]
Motif 4   oligos_7nt_mkv1_m2	k-mer sig=0.85; evalue=0.14 GTGATAAGCGGGG CCCCGCTTATCAC	[ k-mers: statistics assemblies ] [ matrix: tab_format transfac_format ]
JASPAR2024_CORE_vertebrates_non-redundant name id strand Nb overlap % Pearson Normalized aligned col. motif aligned col. match       columns aligned correlation cor GTGATAAGCGGGG GATA5 MA0766.3 D 8 0.6154 0.809 0.498 NA NA GATA2 MA0036.4 R 7 0.5385 0.858 0.462 NA NA GATA6 MA1104.3 R 8 0.6154 0.747 0.460 NA NA Total matches= 8 (5 more)		[ match table: html text ] [ alignments (logos): html text ]
Predicted sites on test peaks	Distribution of sites Nb of predicted sites per peak Nb peaks with at least one predicted site: 1 (100.00%) Max nb of predicted sites per peak: 1  (1:26066944-26067153) Mean nb of predicted sites per peak: 1.00	[ view in genome browser : ] [ sites: text BED (UCSC track) ] [ distribution: text ] [ sites per peak: text ] [ enrichment: text graph ]
Motif 5   oligos_7nt_mkv1_m3	k-mer sig=0.54; evalue=0.29 wwCCCTGCCyW WRGGCAGGGWW	[ k-mers: statistics assemblies ] [ matrix: tab_format transfac_format ]
JASPAR2024_CORE_vertebrates_non-redundant name id strand Nb overlap % Pearson Normalized aligned col. motif aligned col. match       columns aligned correlation cor wwCCCTGCCyW KLF5 MA0599.1 D 10 0.9091 0.707 0.643 NA NA KLF12 MA0742.2 R 9 0.8182 0.769 0.629 NA NA Zfp809 MA2125.1 D 9 0.8182 0.766 0.627 NA NA Total matches= 18 (15 more)		[ match table: html text ] [ alignments (logos): html text ]
Predicted sites on test peaks	Distribution of sites Nb of predicted sites per peak Nb peaks with at least one predicted site: 1 (100.00%) Max nb of predicted sites per peak: 3  (1:26066944-26067153) Mean nb of predicted sites per peak: 3.00	[ view in genome browser : ] [ sites: text BED (UCSC track) ] [ distribution: text ] [ sites per peak: text ] [ enrichment: text graph ]
Motif 6   oligos_7nt_mkv1_m4	k-mer sig=0.42; evalue=0.38 TCTCCATAACACAAG CTTGTGTTATGGAGA	[ k-mers: statistics assemblies ] [ matrix: tab_format transfac_format ]
JASPAR2024_CORE_vertebrates_non-redundant name id strand Nb overlap % Pearson Normalized aligned col. motif aligned col. match       columns aligned correlation cor TCTCCATAACACAAG ZBTB26 MA1579.2 D 8 0.5333 0.783 0.417 NA NA Prdm5 MA1999.2 D 9 0.5294 0.761 0.403 NA NA Total matches= 2		[ match table: html text ] [ alignments (logos): html text ]
Predicted sites on test peaks	Distribution of sites Nb of predicted sites per peak Nb peaks with at least one predicted site: 1 (100.00%) Max nb of predicted sites per peak: 1  (1:26066944-26067153) Mean nb of predicted sites per peak: 1.00	[ view in genome browser : ] [ sites: text BED (UCSC track) ] [ distribution: text ] [ sites per peak: text ] [ enrichment: text graph ]
Motif 7   oligos_7nt_mkv1_m5	k-mer sig=0.41; evalue=0.39 AGCGGGGTAGG CCTACCCCGCT	[ k-mers: statistics assemblies ] [ matrix: tab_format transfac_format ]
JASPAR2024_CORE_vertebrates_non-redundant name id strand Nb overlap % Pearson Normalized aligned col. motif aligned col. match       columns aligned correlation cor AGCGGGGTAGG Wt1 MA1627.2 R 10 0.9091 0.740 0.673 NA NA ZNF281 MA1630.3 D 8 0.6154 0.805 0.495 NA NA ZNF784 MA1717.2 R 7 0.5833 0.839 0.489 NA NA Total matches= 16 (13 more)		[ match table: html text ] [ alignments (logos): html text ]
Predicted sites on test peaks	Distribution of sites Nb of predicted sites per peak Nb peaks with at least one predicted site: 1 (100.00%) Max nb of predicted sites per peak: 1  (1:26066944-26067153) Mean nb of predicted sites per peak: 1.00	[ view in genome browser : ] [ sites: text BED (UCSC track) ] [ distribution: text ] [ sites per peak: text ] [ enrichment: text graph ]

Predicted sites on test peaks (all motifs)

[tab] [bed]

Command:  peak-motifs  -v 1 -title TRIM63_internal_promoter -i $RSAT/public_html/tmp/www-data/2026/02/26/peak-motifs.2026-02-26.234255_2026-02-26.234255_NT9Wzo/peak-motifspeak_seq -max_seq_len 1000 -markov auto -disco oligos,positions -nmotifs 5 -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 -source getfasta -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/2026/02/26/peak-motifs.2026-02-26.234255_2026-02-26.234255_NT9Wzo

Warning: Not a single pattern was found in file tmp/www-data/2026/02/26/peak-motifs.2026-02-26.234255_2026-02-26.234255_NT9Wzo/results/positions_6nt/peak-motifs_positions-2str-noov_6nt_ci50.tab

Warning: Not a single pattern was found in file tmp/www-data/2026/02/26/peak-motifs.2026-02-26.234255_2026-02-26.234255_NT9Wzo/results/positions_7nt/peak-motifs_positions-2str-noov_7nt_ci50.tab