RSAT - peak-motifs result

Analysis: AT (07/11/2025 14:47)

peak-motifs  -v 1 -title AT -i $RSAT/public_html/tmp/www-data/2025/11/07/peak-motifs.2025-11-07.144553_2025-11-07.144553_0jTHd8/peak-motifspeak_seq -max_seq_len 1000 -markov auto -disco oligos,dyads,positions -nmotifs 5 -minol 6 -maxol 8 -no_merge_lengths -2str -origin center -motif_db JASPAR2024_CORE_plants_non-redundant tf $RSAT/public_html/motif_databases/JASPAR/Jaspar_2024/JASPAR2024_CORE_plants_non-redundant_pfms_transfac.txt -scan_markov 2 -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/2025/11/07/peak-motifs.2025-11-07.144553_2025-11-07.144553_0jTHd8

motif discovery
oligos_6nt_mkv1	oligos_6nt_mkv1_m1 assembly: agtgca (sig=0.16; e-value=0.69) RC: tgcact oligos_6nt_mkv1_m2 : (sig=; e-value=1) RC: 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: ctgtgga (sig=0.75; e-value=0.18) RC: tccacag oligos_7nt_mkv1_m2 assembly: atggctc (sig=0.67; e-value=0.21) RC: gagccat oligos_7nt_mkv1_m3 assembly: gaagtgc (sig=0.66; e-value=0.22) RC: gcacttc oligos_7nt_mkv1_m4 assembly: aaaagag (sig=0.14; e-value=0.72) RC: ctctttt oligos_7nt_mkv1_m5 : (sig=; e-value=1) RC:	[ discovered words: text ] [ assembly: text sig matrices ] [ matrices: tab format transfac format ]
positions_7nt	Not a single significant pattern	[positions_7nt]
oligos_8nt_mkv1	oligos_8nt_mkv1_m1 assembly: ctgtggaa (sig=1.94; e-value=0.011) RC: ttccacag oligos_8nt_mkv1_m2 assembly: gaagtgca (sig=1.68; e-value=0.021) RC: tgcacttc oligos_8nt_mkv1_m3 assembly: cactatgg (sig=0.52; e-value=0.3) RC: ccatagtg oligos_8nt_mkv1_m4 assembly: aaagctcct (sig=0.38; e-value=0.42) RC: aggagcttt oligos_8nt_mkv1_m5 assembly: caatatta (sig=0.21; e-value=0.62) RC: taatattg	[ discovered words: text ] [ assembly: text sig matrices ] [ matrices: tab format transfac format ]
positions_8nt	Not a single significant pattern	[positions_8nt]
dyads	dyads_m1 assembly: aggnnnnnnnnnnnnnnnnnnnaga (sig=0.01; e-value=0.98) RC: tctnnnnnnnnnnnnnnnnnnncct dyads_m2 : (sig=; e-value=1) RC: dyads_m3 : (sig=; e-value=1) RC: dyads_m4 : (sig=; e-value=1) RC: dyads_m5 : (sig=; e-value=1) RC:	[ discovered words: text ] [ assembly: text sig matrices ] [ matrices: tab format transfac format ]

Motif discovery
Motif 1   oligos_6nt_mkv1_m1	k-mer sig=0.16; evalue=0.69 SdAGTGCArw WYTGCACTHS	[ k-mers: statistics assemblies ] [ matrix: tab_format transfac_format ]
JASPAR2024_CORE_plants_non-redundant name id strand Nb overlap % Pearson Normalized aligned col. motif aligned col. match       columns aligned correlation cor SdAGTGCArw SBP6 MA2420.1 D 8 0.8000 0.710 0.568 NA NA AT3G46070 MA1381.2 R 7 0.7000 0.791 0.554 NA NA ZAT10 MA1372.2 R 8 0.6667 0.722 0.481 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: 2 (100.00%) Max nb of predicted sites per peak: 4  (CYP82C4) Mean nb of predicted sites per peak: 3.00	[ sites: text ] [ distribution: text ] [ sites per peak: text ] [ enrichment: text graph ]
Motif 2   oligos_7nt_mkv1_m1	k-mer sig=0.75; evalue=0.18 SbCTGTGGAwk MWTCCACAGVS	[ k-mers: statistics assemblies ] [ matrix: tab_format transfac_format ]
JASPAR2024_CORE_plants_non-redundant name id strand Nb overlap % Pearson Normalized aligned col. motif aligned col. match       columns aligned correlation cor SbCTGTGGAwk 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: 2 (100.00%) Max nb of predicted sites per peak: 3  (F6'H1) Mean nb of predicted sites per peak: 2.50	[ sites: text ] [ distribution: text ] [ sites per peak: text ] [ enrichment: text graph ]
Motif 3   oligos_7nt_mkv1_m2	k-mer sig=0.67; evalue=0.21 syATGGCyCwt AWGRGCCATRS	[ k-mers: statistics assemblies ] [ matrix: tab_format transfac_format ]
JASPAR2024_CORE_plants_non-redundant name id strand Nb overlap % Pearson Normalized aligned col. motif aligned col. match       columns aligned correlation cor syATGGCyCwt NLP7 MA1794.2 D 8 0.7273 0.743 0.540 NA NA E2FA MA1414.2 R 6 0.5455 0.784 0.428 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: 2 (100.00%) Max nb of predicted sites per peak: 5  (CYP82C4) Mean nb of predicted sites per peak: 3.00	[ sites: text ] [ distribution: text ] [ sites per peak: text ] [ enrichment: text graph ]
Motif 4   oligos_7nt_mkv1_m3	k-mer sig=0.66; evalue=0.22 GyGAAGTGCAw WTGCACTTCRC	[ k-mers: statistics assemblies ] [ matrix: tab_format transfac_format ]
JASPAR2024_CORE_plants_non-redundant name id strand Nb overlap % Pearson Normalized aligned col. motif aligned col. match       columns aligned correlation cor GyGAAGTGCAw UB3 MA2419.1 D 9 0.7500 0.802 0.602 NA NA SBP6 MA2420.1 D 8 0.7273 0.794 0.578 NA NA SBP8 MA2421.1 D 8 0.7273 0.749 0.545 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: 2 (100.00%) Max nb of predicted sites per peak: 2  (F6'H1) Mean nb of predicted sites per peak: 1.50	[ sites: text ] [ distribution: text ] [ sites per peak: text ] [ enrichment: text graph ]
Motif 5   oligos_7nt_mkv1_m4	k-mer sig=0.14; evalue=0.72 yGAAAAGAGSR YSCTCTTTTCR	[ k-mers: statistics assemblies ] [ matrix: tab_format transfac_format ]
JASPAR2024_CORE_plants_non-redundant name id strand Nb overlap % Pearson Normalized aligned col. motif aligned col. match       columns aligned correlation cor yGAAAAGAGSR REF6 MA1415.2 D 9 0.8182 0.746 0.610 NA NA CDF3 MA0974.3 D 8 0.7273 0.775 0.564 NA NA DOF2.5 MA0977.1 D 8 0.7273 0.715 0.520 NA NA Total matches= 17 (14 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: 2 (100.00%) Max nb of predicted sites per peak: 3  (CYP82C4) Mean nb of predicted sites per peak: 2.00	[ sites: text ] [ distribution: text ] [ sites per peak: text ] [ enrichment: text graph ]
Motif 6   oligos_8nt_mkv1_m1	k-mer sig=1.94; evalue=0.011 YbCTGTGGAAky RMTTCCACAGVR	[ k-mers: statistics assemblies ] [ matrix: tab_format transfac_format ]
JASPAR2024_CORE_plants_non-redundant name id strand Nb overlap % Pearson Normalized aligned col. motif aligned col. match       columns aligned correlation cor YbCTGTGGAAky LBD13 MA2021.2 R 8 0.6667 0.715 0.477 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: 1 (50.00%) Max nb of predicted sites per peak: 3  (F6'H1) Mean nb of predicted sites per peak: 3.00	[ sites: text ] [ distribution: text ] [ sites per peak: text ] [ enrichment: text graph ]
Motif 7   oligos_8nt_mkv1_m2	k-mer sig=1.68; evalue=0.021 GyGAAGTGCAww WWTGCACTTCRC	[ k-mers: statistics assemblies ] [ matrix: tab_format transfac_format ]
JASPAR2024_CORE_plants_non-redundant name id strand Nb overlap % Pearson Normalized aligned col. motif aligned col. match       columns aligned correlation cor GyGAAGTGCAww UB3 MA2419.1 D 10 0.8333 0.756 0.630 NA NA SBP6 MA2420.1 D 8 0.6667 0.794 0.530 NA NA SBP8 MA2421.1 D 8 0.6667 0.749 0.500 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: 2 (100.00%) Max nb of predicted sites per peak: 2  (F6'H1) Mean nb of predicted sites per peak: 1.50	[ sites: text ] [ distribution: text ] [ sites per peak: text ] [ enrichment: text graph ]
Motif 8   oligos_8nt_mkv1_m3	k-mer sig=0.52; evalue=0.3 rsCmCTATGGyT ARCCATAGKGSY	[ k-mers: statistics assemblies ] [ matrix: tab_format transfac_format ]
JASPAR2024_CORE_plants_non-redundant name id strand Nb overlap % Pearson Normalized aligned col. motif aligned col. match       columns aligned correlation cor rsCmCTATGGyT GT-4 MA1368.3 D 11 0.8462 0.713 0.603 NA NA OsTRBF3 MA2404.1 D 7 0.5833 0.753 0.439 NA NA P0510F09.23 MA1030.2 D 7 0.5833 0.753 0.439 NA NA Total matches= 4 (1 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: 2 (100.00%) Max nb of predicted sites per peak: 2  (CYP82C4) Mean nb of predicted sites per peak: 1.50	[ sites: text ] [ distribution: text ] [ sites per peak: text ] [ enrichment: text graph ]
Motif 9   oligos_8nt_mkv1_m4	k-mer sig=0.38; evalue=0.42 wAAAAGCTCCTRy RYAGGAGCTTTTW	[ k-mers: statistics assemblies ] [ matrix: tab_format transfac_format ]
JASPAR2024_CORE_plants_non-redundant name id strand Nb overlap % Pearson Normalized aligned col. motif aligned col. match       columns aligned correlation cor wAAAAGCTCCTRy DOF4.3 MA1747.2 R 12 0.8571 0.714 0.612 NA NA MYB88 MA2029.2 D 9 0.6923 0.734 0.508 NA NA CDF2 MA0973.2 D 7 0.5385 0.876 0.471 NA NA Total matches= 7 (4 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: 2 (100.00%) Max nb of predicted sites per peak: 1  (F6'H1) Mean nb of predicted sites per peak: 1.00	[ sites: text ] [ distribution: text ] [ sites per peak: text ] [ enrichment: text graph ]
Motif 10   oligos_8nt_mkv1_m5	k-mer sig=0.21; evalue=0.62 vCCAATaTTAry RYTAATATTGGB	[ k-mers: statistics assemblies ] [ matrix: tab_format transfac_format ]
JASPAR2024_CORE_plants_non-redundant name id strand Nb overlap % Pearson Normalized aligned col. motif aligned col. match       columns aligned correlation cor vCCAATaTTAry 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: 2 (100.00%) Max nb of predicted sites per peak: 3  (CYP82C4) Mean nb of predicted sites per peak: 2.00	[ sites: text ] [ distribution: text ] [ sites per peak: text ] [ enrichment: text graph ]
Motif 11   dyads_m1	k-mer sig=0.01; evalue=0.98 rsaGGrddbtkrywywgrkykwkGaGAkK MMTCTCMWMRMYCWRWRYMAVHHYCCTSY	[ k-mers: statistics assemblies ] [ matrix: tab_format transfac_format ]
JASPAR2024_CORE_plants_non-redundant name id strand Nb overlap % Pearson Normalized aligned col. motif aligned col. match       columns aligned correlation cor rsaGGrddbtkrywywgrkykwkGaGAkK 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: 2 (100.00%) Max nb of predicted sites per peak: 8  (F6'H1) Mean nb of predicted sites per peak: 6.00	[ sites: text ] [ distribution: text ] [ sites per peak: text ] [ enrichment: text graph ]

Command:  peak-motifs  -v 1 -title AT -i $RSAT/public_html/tmp/www-data/2025/11/07/peak-motifs.2025-11-07.144553_2025-11-07.144553_0jTHd8/peak-motifspeak_seq -max_seq_len 1000 -markov auto -disco oligos,dyads,positions -nmotifs 5 -minol 6 -maxol 8 -no_merge_lengths -2str -origin center -motif_db JASPAR2024_CORE_plants_non-redundant tf $RSAT/public_html/motif_databases/JASPAR/Jaspar_2024/JASPAR2024_CORE_plants_non-redundant_pfms_transfac.txt -scan_markov 2 -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/2025/11/07/peak-motifs.2025-11-07.144553_2025-11-07.144553_0jTHd8

Warning: Not a single pattern was found in file tmp/www-data/2025/11/07/peak-motifs.2025-11-07.144553_2025-11-07.144553_0jTHd8/results/positions_6nt/peak-motifs_positions-2str-noov_6nt_ci50.tab

Warning: Not a single pattern was found in file tmp/www-data/2025/11/07/peak-motifs.2025-11-07.144553_2025-11-07.144553_0jTHd8/results/positions_7nt/peak-motifs_positions-2str-noov_7nt_ci50.tab

Warning: Not a single pattern was found in file tmp/www-data/2025/11/07/peak-motifs.2025-11-07.144553_2025-11-07.144553_0jTHd8/results/positions_8nt/peak-motifs_positions-2str-noov_8nt_ci50.tab