RSAT - peak-motifs result

Analysis: Direct_PEAKS_Homer+Icis (23/07/2026 18:28)

peak-motifs  -v 1 -title Direct_PEAKS_Homer+Icis -i $RSAT/public_html/tmp/www-data/2026/07/23/peak-motifs.2026-07-23.182531_2026-07-23.182531_YkpBYN/peak-motifspeak_seq -max_seq_len 1200 -markov auto -disco oligos,positions -nmotifs 5 -minol 7 -maxol 8 -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/2026/07/23/peak-motifs.2026-07-23.182531_2026-07-23.182531_YkpBYN

motif discovery
positions_7-8nt	positions_7-8nt_m1 assembly: aggaggccccaggggcccct (sig=300; e-value=1e-300) RC: aggggcccctggggcctcct positions_7-8nt_m2 assembly: cccaggggccccagg (sig=300; e-value=1e-300) RC: cctggggcccctggg positions_7-8nt_m3 assembly: ggaggcccctggggccccca (sig=300; e-value=1e-300) RC: tgggggccccaggggcctcc positions_7-8nt_m4 assembly: aggaggcccctggggcccag (sig=300; e-value=1e-300) RC: ctgggccccaggggcctcct positions_7-8nt_m5 assembly: ccagggcccctggggcccag (sig=300; e-value=1e-300) RC: ctgggccccaggggccctgg	[ discovered words: text ] [ assembly: text sig matrices ] [ matrices: tab format transfac format ]
oligos_7-8nt	oligos_7-8nt_m1 assembly: agaggccca (sig=20.37; e-value=4.3e-21) RC: tgggcctct oligos_7-8nt_m2 assembly: cccccaccccca (sig=11.59; e-value=2.6e-12) RC: tgggggtggggg oligos_7-8nt_m3 assembly: ccccctcccc (sig=9.64; e-value=2.3e-10) RC: ggggaggggg oligos_7-8nt_m4 assembly: aaaacaaaa (sig=7.95; e-value=1.1e-08) RC: ttttgtttt oligos_7-8nt_m5 assembly: gcgccccgcccgc (sig=7.67; e-value=2.1e-08) RC: gcgggcggggcgc	[ discovered words: text ] [ assembly: text sig matrices ] [ matrices: tab format transfac format ]

Motif discovery
Motif 1   positions_7-8nt_m1	k-mer sig=300; evalue=1e-300 mvagGAGGcCcCAGgGgCCCCtsk MSAGGGGCCCCTGGGGCCTCCTBK	[ 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 mvagGAGGcCcCAGgGgCCCCtsk PLAG1 MA0163.1 R 14 0.5833 0.718 0.419 NA NA Total matches= 1		[ 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: 134 (11.87%) Max nb of predicted sites per peak: 26  (Interval_5818) Mean nb of predicted sites per peak: 2.96	[ sites: text ] [ distribution: text ] [ sites per peak: text ] [ enrichment: text graph ]
Motif 2   positions_7-8nt_m2	k-mer sig=300; evalue=1e-300 sscccAGGGGCCCCAggss SSCCTGGGGCCCCTGGGSS	[ 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 sscccAGGGGCCCCAggss PLAG1 MA0163.1 D 13 0.6500 0.725 0.471 NA NA Total matches= 1		[ 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: 247 (21.88%) Max nb of predicted sites per peak: 15  (Interval_5818) Mean nb of predicted sites per peak: 2.02	[ sites: text ] [ distribution: text ] [ sites per peak: text ] [ enrichment: text graph ]
Motif 3   positions_7-8nt_m3	k-mer sig=300; evalue=1e-300 bsgGAGGCCcCtGGGGcCcCcrks SMYGGGGGCCCCAGGGGCCTCCSV	[ 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 bsgGAGGCCcCtGGGGcCcCcrks ZNF320 MA1976.2 R 20 0.8333 0.720 0.600 NA NA PLAG1 MA0163.1 R 14 0.5833 0.757 0.442 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: 149 (13.20%) Max nb of predicted sites per peak: 51  (Interval_5818) Mean nb of predicted sites per peak: 6.42	[ sites: text ] [ distribution: text ] [ sites per peak: text ] [ enrichment: text graph ]
Motif 4   positions_7-8nt_m4	k-mer sig=300; evalue=1e-300 ssmgGAGGCCcCTGGGgcCCagsg CSCTGGGCCCCAGGGGCCTCCKSS	[ 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 ssmgGAGGCCcCTGGGgcCCagsg Total matches= 0		No match
Predicted sites on test peaks	Distribution of sites Nb of predicted sites per peak Nb peaks with at least one predicted site: 152 (13.46%) Max nb of predicted sites per peak: 55  (Interval_5818) Mean nb of predicted sites per peak: 5.44	[ sites: text ] [ distribution: text ] [ sites per peak: text ] [ enrichment: text graph ]
Motif 5   positions_7-8nt_m5	k-mer sig=300; evalue=1e-300 ssssrGGGcCCCtGGGGCCCmgss SSCKGGGCCCCAGGGGCCCYSSSS	[ 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 ssssrGGGcCCCtGGGGCCCmgss PLAG1 MA0163.1 R 14 0.5833 0.710 0.414 NA NA Total matches= 1		[ 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: 150 (13.29%) Max nb of predicted sites per peak: 76  (Interval_5818) Mean nb of predicted sites per peak: 8.85	[ sites: text ] [ distribution: text ] [ sites per peak: text ] [ enrichment: text graph ]
Motif 6   oligos_7-8nt_m1	k-mer sig=20.37; evalue=4.3e-21 msAGAGGCCCagg CCTGGGCCTCTSK	[ 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 msAGAGGCCCagg Zfx MA0146.3 R 9 0.6429 0.868 0.558 NA NA ZNF692 MA1986.2 D 8 0.6154 0.853 0.525 NA NA PLAGL2 MA1548.2 R 8 0.6154 0.753 0.463 NA NA Total matches= 10 (7 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: 269 (23.83%) Max nb of predicted sites per peak: 11  (Interval_10828) Mean nb of predicted sites per peak: 1.24	[ sites: text ] [ distribution: text ] [ sites per peak: text ] [ enrichment: text graph ]
Motif 7   oligos_7-8nt_m2	k-mer sig=11.59; evalue=2.6e-12 cscCCCCACCCccmsc GSKGGGGGTGGGGGSG	[ 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 cscCCCCACCCccmsc PATZ1 MA1961.2 R 11 0.6875 0.926 0.637 NA NA ZNF281 MA1630.3 R 10 0.6250 0.913 0.571 NA NA ZNF148 MA1653.2 D 10 0.6250 0.886 0.554 NA NA Total matches= 26 (23 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: 299 (26.48%) Max nb of predicted sites per peak: 23  (Interval_5890) Mean nb of predicted sites per peak: 3.51	[ sites: text ] [ distribution: text ] [ sites per peak: text ] [ enrichment: text graph ]
Motif 8   oligos_7-8nt_m3	k-mer sig=9.64; evalue=2.3e-10 cscCCCCTCCCccc GGGGGGAGGGGGSG	[ 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 cscCCCCTCCCccc PATZ1 MA1961.2 R 11 0.7857 0.952 0.748 NA NA ZNF148 MA1653.2 D 10 0.7143 0.985 0.703 NA NA ZNF281 MA1630.3 R 10 0.7143 0.944 0.674 NA NA Total matches= 30 (27 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: 292 (25.86%) Max nb of predicted sites per peak: 15  (Interval_13) Mean nb of predicted sites per peak: 2.11	[ sites: text ] [ distribution: text ] [ sites per peak: text ] [ enrichment: text graph ]
Motif 9   oligos_7-8nt_m4	k-mer sig=7.95; evalue=1.1e-08 aaAAAAmAAAAaa TTTTTTKTTTTTT	[ 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 aaAAAAmAAAAaa Stat2 MA1623.2 D 10 0.7692 0.750 0.577 NA NA FOXD3 MA0041.3 D 12 0.8000 0.711 0.568 NA NA ZNF384 MA1125.2 D 8 0.6154 0.910 0.560 NA NA Total matches= 20 (17 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: 287 (25.42%) Max nb of predicted sites per peak: 35  (Interval_4222) Mean nb of predicted sites per peak: 4.96	[ sites: text ] [ distribution: text ] [ sites per peak: text ] [ enrichment: text graph ]
Motif 10   oligos_7-8nt_m5	k-mer sig=7.67; evalue=2.1e-08 sssCgCCCCGCCCgcss SSGCGGGCGGGGCGSSS	[ 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 sssCgCCCCGCCCgcss PATZ1 MA1961.2 R 11 0.6471 0.878 0.568 NA NA ZBED4 MA2328.1 D 10 0.5882 0.936 0.550 NA NA SP3 MA0746.3 D 11 0.6471 0.797 0.516 NA NA Total matches= 25 (22 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: 173 (15.32%) Max nb of predicted sites per peak: 96  (Interval_11783) Mean nb of predicted sites per peak: 11.08	[ sites: text ] [ distribution: text ] [ sites per peak: text ] [ enrichment: text graph ]

Command:  peak-motifs  -v 1 -title Direct_PEAKS_Homer+Icis -i $RSAT/public_html/tmp/www-data/2026/07/23/peak-motifs.2026-07-23.182531_2026-07-23.182531_YkpBYN/peak-motifspeak_seq -max_seq_len 1200 -markov auto -disco oligos,positions -nmotifs 5 -minol 7 -maxol 8 -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/2026/07/23/peak-motifs.2026-07-23.182531_2026-07-23.182531_YkpBYN

Warning: Number of patterns = 153. Exceeds top number = 100. Only the top 100 patterns will be assembled.