RSAT - peak-motifs result

Analysis: H3K27ac_bot2k_scorediff (23/04/2025 15:53)

peak-motifs  -v 1 -title H3K27ac_bot2k_scorediff -i $RSAT/public_html/tmp/www-data/2025/04/23/peak-motifs.2025-04-23.155020_2025-04-23.155020_FKKNQh/peak-motifspeak_seq -max_seq_len 400 -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/2025/04/23/peak-motifs.2025-04-23.155020_2025-04-23.155020_FKKNQh

motif discovery
oligos_6nt_mkv3	oligos_6nt_mkv3_m1 assembly: gcgccgc (sig=4.28; e-value=5.2e-05) RC: gcggcgc oligos_6nt_mkv3_m2 assembly: ccgcccg (sig=3.58; e-value=0.00026) RC: cgggcgg oligos_6nt_mkv3_m3 assembly: cccaggc (sig=3.47; e-value=0.00034) RC: gcctggg oligos_6nt_mkv3_m4 assembly: cggccg (sig=3.26; e-value=0.00055) RC: cggccg oligos_6nt_mkv3_m5 assembly: aggctg (sig=2.82; e-value=0.0015) RC: cagcct	[ 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: cactgca (sig=2.44; e-value=0.0036) RC: tgcagtg oligos_7nt_mkv4_m2 assembly: agaccag (sig=1.91; e-value=0.012) RC: ctggtct oligos_7nt_mkv4_m3 assembly: cccaggc (sig=1.48; e-value=0.033) RC: gcctggg oligos_7nt_mkv4_m4 assembly: tgactca (sig=1.27; e-value=0.054) RC: tgagtca oligos_7nt_mkv4_m5 assembly: aaaatta (sig=1.06; e-value=0.087) RC: taatttt	[ 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=4.28; evalue=5.2e-05 ssGCGCCGCss SSGCGGCGCSS	[ 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 ssGCGCCGCss ZBED4 MA2328.1 D 9 0.7500 0.815 0.611 NA NA ZNF610 MA1713.2 D 9 0.7500 0.767 0.575 NA NA ZNF417 MA1727.2 R 7 0.6364 0.839 0.534 NA NA Total matches= 9 (6 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: 60 (12.68%) Max nb of predicted sites per peak: 23  (sum159_h3k27ac_peak17112::11:910313-911780) Mean nb of predicted sites per peak: 5.70	[ sites: text ] [ distribution: text ] [ sites per peak: text ] [ enrichment: text graph ]
Motif 2   oligos_6nt_mkv3_m2	k-mer sig=3.58; evalue=0.00026 ssCCGCCCGss SSCGGGCGGSS	[ 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 ssCCGCCCGss KLF15 MA1513.2 D 8 0.7273 0.945 0.687 NA NA SP9 MA1564.2 D 10 0.9091 0.738 0.671 NA NA KLF7 MA1959.2 R 8 0.7273 0.914 0.664 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: 70 (14.80%) Max nb of predicted sites per peak: 22  (sum159_h3k27ac_peak17112::11:910313-911780) Mean nb of predicted sites per peak: 4.14	[ sites: text ] [ distribution: text ] [ sites per peak: text ] [ enrichment: text graph ]
Motif 3   oligos_6nt_mkv3_m3	k-mer sig=3.47; evalue=0.00034 sgCCCAGGCys SRGCCTGGGCS	[ 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 sgCCCAGGCys ZNF213 MA2121.1 D 10 0.7692 0.955 0.735 NA NA TFAP2B MA0812.2 D 9 0.8182 0.736 0.602 NA NA Zfp809 MA2125.1 D 9 0.8182 0.729 0.597 NA NA Total matches= 13 (10 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: 120 (25.37%) Max nb of predicted sites per peak: 7  (sum159_h3k27ac_peak17112::11:910313-911780) Mean nb of predicted sites per peak: 1.42	[ sites: text ] [ distribution: text ] [ sites per peak: text ] [ enrichment: text graph ]
Motif 4   oligos_6nt_mkv3_m4	k-mer sig=3.26; evalue=0.00055 ssCGGCCGss SSCGGCCGSS	[ 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 ssCGGCCGss HINFP MA0131.3 R 8 0.8000 0.713 0.571 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: 60 (12.68%) Max nb of predicted sites per peak: 24  (sum159_h3k27ac_peak110847::7:138460426-138461570) Mean nb of predicted sites per peak: 5.88	[ sites: text ] [ distribution: text ] [ sites per peak: text ] [ enrichment: text graph ]
Motif 5   oligos_6nt_mkv3_m5	k-mer sig=2.82; evalue=0.0015 ssAGGCTGsg CSCAGCCTSS	[ 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 ssAGGCTGsg FEZF2 MA2341.1 R 8 0.8000 0.925 0.740 NA NA ZNF213 MA2121.1 D 10 0.8333 0.815 0.679 NA NA ZNF770 MA2099.1 R 8 0.8000 0.806 0.645 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: 135 (28.54%) Max nb of predicted sites per peak: 4  (sum159_h3k27ac_peak69714::3:48179245-48179667) Mean nb of predicted sites per peak: 1.44	[ sites: text ] [ distribution: text ] [ sites per peak: text ] [ enrichment: text graph ]
Motif 6   oligos_7nt_mkv4_m1	k-mer sig=2.44; evalue=0.0036 rwCACTGCAby RVTGCAGTGWY	[ 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 rwCACTGCAby GFI1 MA0038.3 D 9 0.6923 0.804 0.557 NA NA NKX2-4 MA2003.2 D 8 0.7273 0.720 0.524 NA NA Gfi1B MA0483.2 D 8 0.6154 0.736 0.453 NA NA Total matches= 3		[ 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: 55 (11.63%) Max nb of predicted sites per peak: 3  (sum159_h3k27ac_peak117174::8:128068224-128069135) Mean nb of predicted sites per peak: 1.25	[ sites: text ] [ distribution: text ] [ sites per peak: text ] [ enrichment: text graph ]
Motif 7   oligos_7nt_mkv4_m2	k-mer sig=1.91; evalue=0.012 rsAGACCAGmc GKCTGGTCTSY	[ 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 rsAGACCAGmc ZNF677 MA2101.1 D 10 0.7692 0.759 0.584 NA NA ZNF341 MA1655.2 D 8 0.7273 0.704 0.512 NA NA Hand1 MA2123.1 D 8 0.6667 0.739 0.493 NA NA Total matches= 6 (3 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 (13.32%) Max nb of predicted sites per peak: 2  (sum159_h3k27ac_peak87357::5:3958395-3959188) Mean nb of predicted sites per peak: 1.03	[ sites: text ] [ distribution: text ] [ sites per peak: text ] [ enrichment: text graph ]
Motif 8   oligos_7nt_mkv4_m3	k-mer sig=1.48; evalue=0.033 sgCCCAGGCys SRGCCTGGGCS	[ 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 sgCCCAGGCys ZNF213 MA2121.1 D 10 0.7692 0.955 0.735 NA NA TFAP2B MA0812.2 D 9 0.8182 0.737 0.603 NA NA Zfp809 MA2125.1 D 9 0.8182 0.729 0.597 NA NA Total matches= 13 (10 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: 120 (25.37%) Max nb of predicted sites per peak: 7  (sum159_h3k27ac_peak17112::11:910313-911780) Mean nb of predicted sites per peak: 1.40	[ sites: text ] [ distribution: text ] [ sites per peak: text ] [ enrichment: text graph ]
Motif 9   oligos_7nt_mkv4_m4	k-mer sig=1.27; evalue=0.054 drTGACTCAbw WVTGAGTCAYH	[ 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 drTGACTCAbw FOSL2 MA0478.2 D 10 0.9091 0.961 0.873 NA NA BACH2 MA1101.3 D 11 1.0000 0.852 0.852 NA NA NFE2 MA0841.2 D 10 0.9091 0.894 0.813 NA NA Total matches= 34 (31 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: 58 (12.26%) Max nb of predicted sites per peak: 5  (sum159_h3k27ac_peak41545::16:48157866-48159156) Mean nb of predicted sites per peak: 1.19	[ sites: text ] [ distribution: text ] [ sites per peak: text ] [ enrichment: text graph ]
Motif 10   oligos_7nt_mkv4_m5	k-mer sig=1.06; evalue=0.087 wwAAAATTAtw WATAATTTTWW	[ 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 wwAAAATTAtw MEF2C MA0497.2 D 11 1.0000 0.717 0.717 NA NA MEF2A MA0052.5 D 10 0.9091 0.737 0.670 NA NA BARX2 MA1471.2 D 9 0.8182 0.718 0.588 NA NA Total matches= 73 (70 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: 95 (20.08%) Max nb of predicted sites per peak: 3  (sum159_h3k27ac_peak6093::1:145908335-145910110) Mean nb of predicted sites per peak: 1.24	[ sites: text ] [ distribution: text ] [ sites per peak: text ] [ enrichment: text graph ]

Command:  peak-motifs  -v 1 -title H3K27ac_bot2k_scorediff -i $RSAT/public_html/tmp/www-data/2025/04/23/peak-motifs.2025-04-23.155020_2025-04-23.155020_FKKNQh/peak-motifspeak_seq -max_seq_len 400 -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/2025/04/23/peak-motifs.2025-04-23.155020_2025-04-23.155020_FKKNQh

Warning: Not a single pattern was found in file tmp/www-data/2025/04/23/peak-motifs.2025-04-23.155020_2025-04-23.155020_FKKNQh/results/positions_6nt/peak-motifs_positions-2str-noov_6nt_ci50.tab

Warning: Not a single pattern was found in file tmp/www-data/2025/04/23/peak-motifs.2025-04-23.155020_2025-04-23.155020_FKKNQh/results/positions_7nt/peak-motifs_positions-2str-noov_7nt_ci50.tab