RSAT - peak-motifs result

Analysis: m3 (19/06/2025 08:58)

peak-motifs  -v 1 -title m3 -i $RSAT/public_html/tmp/www-data/2025/06/19/peak-motifs.2025-06-19.085648_2025-06-19.085648_Mm8b1C/peak-motifspeak_seq -max_seq_len 1000 -markov auto -disco oligos,positions -nmotifs 5 -minol 6 -maxol 8 -merge_lengths -2str -origin center -motif_db footprintDB-plants tf $RSAT/public_html/motif_databases/footprintDB/footprintDB.plants.motif.tf -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/2025/06/19/peak-motifs.2025-06-19.085648_2025-06-19.085648_Mm8b1C

motif discovery
positions_6-8nt	Not a single significant pattern	[positions_6-8nt]
oligos_6-8nt	oligos_6-8nt_m1 assembly: tacagta (sig=2.96; e-value=0.0011) RC: tactgta oligos_6-8nt_m2 assembly: taccgta (sig=1.74; e-value=0.018) RC: tacggta oligos_6-8nt_m3 assembly: gcacgcac (sig=1.04; e-value=0.091) RC: gtgcgtgc oligos_6-8nt_m4 assembly: ataata (sig=1.01; e-value=0.098) RC: tattat oligos_6-8nt_m5 assembly: cccgcc (sig=1.00; e-value=0.1) RC: ggcggg	[ discovered words: text ] [ assembly: text sig matrices ] [ matrices: tab format transfac format ]

Motif discovery
Motif 1   oligos_6-8nt_m1	k-mer sig=2.96; evalue=0.0011 wwTACAGTAww WWTACTGTAWW	[ k-mers: statistics assemblies ] [ matrix: tab_format transfac_format ]
footprintDB-plants name id strand Nb overlap % Pearson Normalized aligned col. motif aligned col. match       columns aligned correlation cor wwTACAGTAww ALOG:EEAD0170:EEADannot ALOG/EEAD0170/EEADannot R 11 1.0000 0.740 0.740 NA NA AtMYB104_I:AtMYB104_I:AthaMYB AtMYB104_I/AtMYB104_I/AthaMYB R 8 0.7273 0.752 0.547 NA NA SPL14:M1561_1.02:CISBP SPL14/M1561_1.02/CISBP D 7 0.5385 0.767 0.413 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: 31 (13.30%) Max nb of predicted sites per peak: 7  (CHLRE_07g332300v5) Mean nb of predicted sites per peak: 2.35	[ sites: text ] [ distribution: text ] [ sites per peak: text ] [ enrichment: text graph ]
Motif 2   oligos_6-8nt_m2	k-mer sig=1.74; evalue=0.018 waTACcGTAyw WRTACGGTATW	[ k-mers: statistics assemblies ] [ matrix: tab_format transfac_format ]
footprintDB-plants name id strand Nb overlap % Pearson Normalized aligned col. motif aligned col. match       columns aligned correlation cor waTACcGTAyw RGL2:M0821_1.02:CISBP RGL2/M0821_1.02/CISBP R 9 0.8182 0.766 0.626 NA NA SPL4:MA1058.1:JASPAR SPL4/MA1058.1/JASPAR R 9 0.8182 0.761 0.623 NA NA SPL4:M1563_1.02:CISBP SPL4/M1563_1.02/CISBP R 9 0.8182 0.759 0.621 NA NA Total matches= 55 (52 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: 37 (15.88%) Max nb of predicted sites per peak: 8  (CHLRE_07g332300v5) Mean nb of predicted sites per peak: 2.54	[ sites: text ] [ distribution: text ] [ sites per peak: text ] [ enrichment: text graph ]
Motif 3   oligos_6-8nt_m3	k-mer sig=1.04; evalue=0.091 vyGCACGCACvv BBGTGCGTGCRB	[ k-mers: statistics assemblies ] [ matrix: tab_format transfac_format ]
footprintDB-plants name id strand Nb overlap % Pearson Normalized aligned col. motif aligned col. match       columns aligned correlation cor vyGCACGCACvv bHLH172:UN0431.1:JASPAR bHLH172/UN0431.1/JASPAR D 10 0.8333 0.922 0.768 NA NA ANAC58:ANAC58:ArabidopsisPBM ANAC58/ANAC58/ArabidopsisPBM D 10 0.8333 0.741 0.617 NA NA fgenesh1_pg.C_Chr_14.0001000151:M0253_1.02:CISBP fgenesh1_pg.C_Chr_14.0001000151/M0253_1.02/CISBP R 10 0.8333 0.718 0.598 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: 13 (5.58%) Max nb of predicted sites per peak: 3  (CHLRE_16g650750v5) Mean nb of predicted sites per peak: 1.23	[ sites: text ] [ distribution: text ] [ sites per peak: text ] [ enrichment: text graph ]
Motif 4   oligos_6-8nt_m4	k-mer sig=1.01; evalue=0.098 wwATAATAww WWTATTATWW	[ k-mers: statistics assemblies ] [ matrix: tab_format transfac_format ]
footprintDB-plants name id strand Nb overlap % Pearson Normalized aligned col. motif aligned col. match       columns aligned correlation cor wwATAATAww YAB1:YAB1:ArabidopsisPBM YAB1/YAB1/ArabidopsisPBM D 10 1.0000 0.788 0.788 NA NA TRANSCRIPTION:1qn6_B:3D-footprint TRANSCRIPTION/1qn6_B/3D-footprint D 8 0.8000 0.903 0.723 NA NA estExt_gwp_gw1.C_70211:M1195_1.02:CISBP estExt_gwp_gw1.C_70211/M1195_1.02/CISBP D 10 1.0000 0.706 0.706 NA NA Total matches= 44 (41 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: 41 (17.60%) Max nb of predicted sites per peak: 3  (CHLRE_16g692228v5) Mean nb of predicted sites per peak: 1.27	[ sites: text ] [ distribution: text ] [ sites per peak: text ] [ enrichment: text graph ]
Motif 5   oligos_6-8nt_m5	k-mer sig=1.00; evalue=0.1 ssCCCGCCmc GKGGCGGGSS	[ k-mers: statistics assemblies ] [ matrix: tab_format transfac_format ]
footprintDB-plants name id strand Nb overlap % Pearson Normalized aligned col. motif aligned col. match       columns aligned correlation cor ssCCCGCCmc ERF1:M0025_1.02:CISBP ERF1/M0025_1.02/CISBP D 10 1.0000 0.752 0.752 NA NA AT5G23930:UN0357.1:JASPAR AT5G23930/UN0357.1/JASPAR D 10 1.0000 0.739 0.739 NA NA ERF105:MA1000.3:JASPAR ERF105/MA1000.3/JASPAR R 10 1.0000 0.722 0.722 NA NA Total matches= 123 (120 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: 77 (33.05%) Max nb of predicted sites per peak: 5  (CHLRE_11g478750v5) Mean nb of predicted sites per peak: 1.49	[ sites: text ] [ distribution: text ] [ sites per peak: text ] [ enrichment: text graph ]

Command:  peak-motifs  -v 1 -title m3 -i $RSAT/public_html/tmp/www-data/2025/06/19/peak-motifs.2025-06-19.085648_2025-06-19.085648_Mm8b1C/peak-motifspeak_seq -max_seq_len 1000 -markov auto -disco oligos,positions -nmotifs 5 -minol 6 -maxol 8 -merge_lengths -2str -origin center -motif_db footprintDB-plants tf $RSAT/public_html/motif_databases/footprintDB/footprintDB.plants.motif.tf -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/2025/06/19/peak-motifs.2025-06-19.085648_2025-06-19.085648_Mm8b1C

Warning: Not a single pattern was found in file tmp/www-data/2025/06/19/peak-motifs.2025-06-19.085648_2025-06-19.085648_Mm8b1C/results/positions_6-8nt/peak-motifs_positions-2str-noov_6-8nt_ci50.tab