RSAT - peak-motifs result

Analysis: test_astro_up (15/05/2025 22:19)

peak-motifs  -v 1 -title test_astro_up -i $RSAT/public_html/tmp/www-data/2025/05/15/peak-motifs.2025-05-15.221347_2025-05-15.221347_TLksEo/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 -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/2025/05/15/peak-motifs.2025-05-15.221347_2025-05-15.221347_TLksEo

motif discovery
oligos_6nt_mkv3	oligos_6nt_mkv3_m1 assembly: tgactcag (sig=7.09; e-value=8.1e-08) RC: ctgagtca oligos_6nt_mkv3_m2 assembly: taatta (sig=4.39; e-value=4.1e-05) RC: taatta oligos_6nt_mkv3_m3 assembly: cgccgc (sig=3.15; e-value=0.00071) RC: gcggcg oligos_6nt_mkv3_m4 assembly: cctccc (sig=2.74; e-value=0.0018) RC: gggagg oligos_6nt_mkv3_m5 assembly: cttggc (sig=2.58; e-value=0.0026) RC: gccaag	[ discovered words: text ] [ assembly: text sig matrices ] [ matrices: tab format transfac format ]
positions_6nt	Not a single significant pattern	[positions_6nt]
oligos_7nt_mkv4	oligos_7nt_mkv4_m1 assembly: tgactca (sig=4.92; e-value=1.2e-05) RC: tgagtca oligos_7nt_mkv4_m2 assembly: cccccacc (sig=2.71; e-value=0.0019) RC: ggtggggg oligos_7nt_mkv4_m3 assembly: cccctcc (sig=1.08; e-value=0.083) RC: ggagggg oligos_7nt_mkv4_m4 assembly: aagaaaa (sig=0.77; e-value=0.17) RC: ttttctt oligos_7nt_mkv4_m5 assembly: cgccgcg (sig=0.64; e-value=0.23) RC: cgcggcg	[ 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_mkv3_m1	k-mer sig=7.09; evalue=8.1e-08 ksTGACTCAGms SKCTGAGTCASM	[ 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 ksTGACTCAGms Mafg MA0659.4 D 12 1.0000 0.887 0.887 NA NA Bach1::Mafk MA0591.2 D 12 1.0000 0.875 0.875 NA NA MAFG::NFE2L1 MA0089.3 D 11 0.9167 0.873 0.800 NA NA Total matches= 35 (32 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: 74 (36.10%) Max nb of predicted sites per peak: 4  (chr7:131243912-131244973) Mean nb of predicted sites per peak: 1.47	[ sites: text ] [ distribution: text ] [ sites per peak: text ] [ enrichment: text graph ]
Motif 2   oligos_6nt_mkv3_m2	k-mer sig=4.39; evalue=4.1e-05 wwTAATTAww WWTAATTAWW	[ 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 wwTAATTAww Lhx1 MA1518.3 D 10 1.0000 0.865 0.865 NA NA LMX1B MA0703.3 R 8 0.8000 0.940 0.752 NA NA Alx1 MA0854.2 D 8 0.8000 0.936 0.749 NA NA Total matches= 108 (105 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: 52 (25.37%) Max nb of predicted sites per peak: 10  (chr19:38665847-38668163) Mean nb of predicted sites per peak: 2.52	[ sites: text ] [ distribution: text ] [ sites per peak: text ] [ enrichment: text graph ]
Motif 3   oligos_6nt_mkv3_m3	k-mer sig=3.15; evalue=0.00071 ssCGCCGCss SSGCGGCGSS	[ 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 ssCGCCGCss ZNF610 MA1713.2 D 9 0.8182 0.804 0.658 NA NA KLF12 MA0742.2 R 8 0.7273 0.721 0.524 NA NA SP1 MA0079.5 R 8 0.7273 0.712 0.518 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: 24 (11.71%) Max nb of predicted sites per peak: 50  (chr17:78358810-78361046) Mean nb of predicted sites per peak: 7.79	[ sites: text ] [ distribution: text ] [ sites per peak: text ] [ enrichment: text graph ]
Motif 4   oligos_6nt_mkv3_m4	k-mer sig=2.74; evalue=0.0018 ccCCTCCCys SRGGGAGGGG	[ 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 ccCCTCCCys ZNF148 MA1653.2 D 10 1.0000 0.866 0.866 NA NA ZNF281 MA1630.3 R 10 1.0000 0.793 0.793 NA NA SP4 MA0685.2 R 9 0.9000 0.814 0.732 NA NA Total matches= 27 (24 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: 79 (38.54%) Max nb of predicted sites per peak: 9  (chr21:8212969-8213431) Mean nb of predicted sites per peak: 1.75	[ sites: text ] [ distribution: text ] [ sites per peak: text ] [ enrichment: text graph ]
Motif 5   oligos_6nt_mkv3_m5	k-mer sig=2.58; evalue=0.0026 srCTTGGCws SWGCCAAGYS	[ 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 srCTTGGCws NFIC MA0161.3 D 7 0.7000 0.937 0.656 NA NA ZNF416 MA1979.2 D 9 0.8182 0.729 0.596 NA NA NFIX MA0671.2 R 6 0.6000 0.961 0.577 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: 42 (20.49%) Max nb of predicted sites per peak: 5  (chr17:78351273-78354165) Mean nb of predicted sites per peak: 1.17	[ sites: text ] [ distribution: text ] [ sites per peak: text ] [ enrichment: text graph ]
Motif 6   oligos_7nt_mkv4_m1	k-mer sig=4.92; evalue=1.2e-05 rrTGACTCAyy RRTGAGTCAYY	[ 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 rrTGACTCAyy BACH2 MA1101.3 D 11 1.0000 0.874 0.874 NA NA FOSL2 MA0478.2 D 10 0.9091 0.960 0.873 NA NA NFE2 MA0841.2 D 10 0.9091 0.912 0.829 NA NA Total matches= 35 (32 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: 85 (41.46%) Max nb of predicted sites per peak: 4  (chr14:72476585-72477216) Mean nb of predicted sites per peak: 1.45	[ sites: text ] [ distribution: text ] [ sites per peak: text ] [ enrichment: text graph ]
Motif 7   oligos_7nt_mkv4_m2	k-mer sig=2.71; evalue=0.0019 csCCCCCACCcc GGGGTGGGGGSG	[ 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 csCCCCCACCcc PATZ1 MA1961.2 R 10 0.7692 0.858 0.660 NA NA ZNF740 MA0753.3 D 10 0.8333 0.792 0.660 NA NA KLF5 MA0599.1 D 10 0.8333 0.792 0.660 NA NA Total matches= 27 (24 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: 62 (30.24%) Max nb of predicted sites per peak: 10  (chr21:8212969-8213431) Mean nb of predicted sites per peak: 2.26	[ sites: text ] [ distribution: text ] [ sites per peak: text ] [ enrichment: text graph ]
Motif 8   oligos_7nt_mkv4_m3	k-mer sig=1.08; evalue=0.083 ysCCCCTCCcs SGGGAGGGGSR	[ 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 ysCCCCTCCcs KLF5 MA0599.1 D 10 0.9091 0.854 0.776 NA NA PATZ1 MA1961.2 R 10 0.8333 0.914 0.762 NA NA ZNF148 MA1653.2 D 9 0.7500 0.965 0.724 NA NA Total matches= 27 (24 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: 63 (30.73%) Max nb of predicted sites per peak: 17  (chr17:78358810-78361046) Mean nb of predicted sites per peak: 2.16	[ sites: text ] [ distribution: text ] [ sites per peak: text ] [ enrichment: text graph ]
Motif 9   oligos_7nt_mkv4_m4	k-mer sig=0.77; evalue=0.17 rwAAGAAAAwa TWTTTTCTTWY	[ 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 rwAAGAAAAwa ZNF677 MA2101.1 D 11 0.9167 0.709 0.650 NA NA HOXB13 MA0901.3 D 9 0.8182 0.756 0.619 NA NA HOXD9 MA0913.3 D 9 0.8182 0.710 0.581 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: 84 (40.98%) Max nb of predicted sites per peak: 7  (chr15:72561691-72562440) Mean nb of predicted sites per peak: 1.64	[ sites: text ] [ distribution: text ] [ sites per peak: text ] [ enrichment: text graph ]
Motif 10   oligos_7nt_mkv4_m5	k-mer sig=0.64; evalue=0.23 ssCGCCGCGss SSCGCGGCGSS	[ 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 ssCGCCGCGss ZBED4 MA2328.1 D 10 0.9091 0.752 0.684 NA NA ZNF610 MA1713.2 D 10 0.9091 0.714 0.649 NA NA KLF12 MA0742.2 R 8 0.6667 0.726 0.484 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: 30 (14.63%) Max nb of predicted sites per peak: 78  (chr17:78358810-78361046) Mean nb of predicted sites per peak: 9.13	[ sites: text ] [ distribution: text ] [ sites per peak: text ] [ enrichment: text graph ]

Command:  peak-motifs  -v 1 -title test_astro_up -i $RSAT/public_html/tmp/www-data/2025/05/15/peak-motifs.2025-05-15.221347_2025-05-15.221347_TLksEo/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 -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/2025/05/15/peak-motifs.2025-05-15.221347_2025-05-15.221347_TLksEo

Warning: Not a single pattern was found in file tmp/www-data/2025/05/15/peak-motifs.2025-05-15.221347_2025-05-15.221347_TLksEo/results/positions_6nt/peak-motifs_positions-2str-noov_6nt_ci50.tab

Warning: Not a single pattern was found in file tmp/www-data/2025/05/15/peak-motifs.2025-05-15.221347_2025-05-15.221347_TLksEo/results/positions_7nt/peak-motifs_positions-2str-noov_7nt_ci50.tab