RSAT - peak-motifs result

Analysis: reg (02/03/2025 09:13)

peak-motifs  -v 1 -title reg -i $RSAT/public_html/tmp/www-data/2025/03/02/peak-motifs.2025-03-02.091145_2025-03-02.091145_IYXNXa/peak-motifspeak_seq -markov auto -disco oligos,dyads,positions -nmotifs 5 -minol 6 -maxol 7 -no_merge_lengths -2str -origin center -motif_db footprintDB tf $RSAT/public_html/motif_databases/footprintDB/footprintDB.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/2025/03/02/peak-motifs.2025-03-02.091145_2025-03-02.091145_IYXNXa

motif discovery
oligos_6nt_mkv2	oligos_6nt_mkv2_m1 assembly: aaagaa (sig=0.16; e-value=0.69) RC: ttcttt oligos_6nt_mkv2_m2 : (sig=; e-value=1) RC: oligos_6nt_mkv2_m3 : (sig=; e-value=1) RC: oligos_6nt_mkv2_m4 : (sig=; e-value=1) RC: oligos_6nt_mkv2_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_mkv2	oligos_7nt_mkv2_m1 assembly: cggcaac (sig=0.63; e-value=0.23) RC: gttgccg oligos_7nt_mkv2_m2 : (sig=; e-value=1) RC: oligos_7nt_mkv2_m3 : (sig=; e-value=1) RC: oligos_7nt_mkv2_m4 : (sig=; e-value=1) RC: oligos_7nt_mkv2_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]
dyads	dyads_m1 assembly: gcannngga (sig=0.27; e-value=0.54) RC: tccnnntgc dyads_m2 assembly: ggannnnnnnnnncga (sig=0.09; e-value=0.81) RC: tcgnnnnnnnnnntcc dyads_m3 assembly: accnnnnnnnnnnnnnnnnnnnncag (sig=0.05; e-value=0.89) RC: ctgnnnnnnnnnnnnnnnnnnnnggt 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_mkv2_m1	k-mer sig=0.16; evalue=0.69 kaAAAGAArw WYTTCTTTTM	[ k-mers: statistics assemblies ] [ matrix: tab_format transfac_format ]
footprintDB name id strand Nb overlap % Pearson Normalized aligned col. motif aligned col. match       columns aligned correlation cor kaAAAGAArw AZF1:MA0277.1:JASPAR AZF1/MA0277.1/JASPAR D 9 0.9000 0.895 0.805 NA NA sqz:UN0438.1:JASPAR sqz/UN0438.1/JASPAR D 10 1.0000 0.775 0.775 NA NA Zm00001d027846:MA1823.1:JASPAR Zm00001d027846/MA1823.1/JASPAR D 10 0.8333 0.922 0.768 NA NA Total matches= 244 (241 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: 1 (4.35%) Max nb of predicted sites per peak: 1  (NZ_CP037899.1:7618-7818) Mean nb of predicted sites per peak: 1.00	[ sites: text ] [ distribution: text ] [ sites per peak: text ] [ enrichment: text graph ]
Motif 2   oligos_7nt_mkv2_m1	k-mer sig=0.63; evalue=0.23 kbCGGCAACbb VVGTTGCCGVM	[ k-mers: statistics assemblies ] [ matrix: tab_format transfac_format ]
footprintDB name id strand Nb overlap % Pearson Normalized aligned col. motif aligned col. match       columns aligned correlation cor kbCGGCAACbb ZFP57:MA1583.1:JASPAR ZFP57/MA1583.1/JASPAR R 11 0.8462 0.795 0.672 NA NA RFX1:M1536_1.02:CISBP RFX1/M1536_1.02/CISBP D 10 0.9091 0.734 0.667 NA NA RFX7:RFX7_methyl_1:HT-SELEX2 RFX7/RFX7_methyl_1/HT-SELEX2 R 9 0.8182 0.809 0.662 NA NA Total matches= 99 (96 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: 5 (21.74%) Max nb of predicted sites per peak: 18  (NZ_CP037899.1:949092-950181) Mean nb of predicted sites per peak: 5.60	[ sites: text ] [ distribution: text ] [ sites per peak: text ] [ enrichment: text graph ]
Motif 3   dyads_m1	k-mer sig=0.27; evalue=0.54 crGCArvwGGAcm KGTCCWBYTGCYG	[ k-mers: statistics assemblies ] [ matrix: tab_format transfac_format ]
footprintDB name id strand Nb overlap % Pearson Normalized aligned col. motif aligned col. match       columns aligned correlation cor crGCArvwGGAcm ZNF527:UN0625.1:JASPAR ZNF527/UN0625.1/JASPAR D 13 0.8125 0.712 0.579 NA NA CG3956:sna_FlyReg_FBgn0003448:FlyZincFinger CG3956/sna_FlyReg_FBgn0003448/FlyZincFinger R 10 0.7692 0.726 0.559 NA NA ZNF527:UN0625.2:JASPAR ZNF527/UN0625.2/JASPAR D 11 0.7333 0.736 0.540 NA NA Total matches= 66 (63 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: 6 (26.09%) Max nb of predicted sites per peak: 12  (NZ_CP037899.1:949092-950181) Mean nb of predicted sites per peak: 3.33	[ sites: text ] [ distribution: text ] [ sites per peak: text ] [ enrichment: text graph ]
Motif 4   dyads_m2	k-mer sig=0.09; evalue=0.81 mmGGAckcaasrysvCGAmr YKTCGBSRYSTTGMGTCCKK	[ k-mers: statistics assemblies ] [ matrix: tab_format transfac_format ]
footprintDB name id strand Nb overlap % Pearson Normalized aligned col. motif aligned col. match       columns aligned correlation cor mmGGAckcaasrysvCGAmr CG1856:ttk-PF_SOLEXA_FBgn0003870:FlyZincFinger CG1856/ttk-PF_SOLEXA_FBgn0003870/FlyZincFinger D 11 0.5500 0.823 0.453 NA NA Signal:4y5w_AC:3D-footprint Signal/4y5w_AC/3D-footprint D 12 0.5455 0.798 0.435 NA NA RS1:5mhk_CDJ:3D-footprint RS1/5mhk_CDJ/3D-footprint D 12 0.6000 0.711 0.427 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: 5 (21.74%) Max nb of predicted sites per peak: 21  (NZ_CP037899.1:949092-950181) Mean nb of predicted sites per peak: 5.20	[ sites: text ] [ distribution: text ] [ sites per peak: text ] [ enrichment: text graph ]
Motif 5   dyads_m3	k-mer sig=0.05; evalue=0.89 khaCCtksctyysmbdyrysrbrgsCaGkr YMCTGSCYVYSRYRHVKSRRAGSMAGGTDM	[ k-mers: statistics assemblies ] [ matrix: tab_format transfac_format ]
footprintDB name id strand Nb overlap % Pearson Normalized aligned col. motif aligned col. match       columns aligned correlation cor khaCCtksctyysmbdyrysrbrgsCaGkr MYB39.ampDAP:M0559:AthalianaCistrome MYB39.ampDAP/M0559/AthalianaCistrome R 19 0.5938 0.707 0.420 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: 5 (21.74%) Max nb of predicted sites per peak: 24  (NZ_CP037899.1:949092-950181) Mean nb of predicted sites per peak: 5.80	[ sites: text ] [ distribution: text ] [ sites per peak: text ] [ enrichment: text graph ]

Command:  peak-motifs  -v 1 -title reg -i $RSAT/public_html/tmp/www-data/2025/03/02/peak-motifs.2025-03-02.091145_2025-03-02.091145_IYXNXa/peak-motifspeak_seq -markov auto -disco oligos,dyads,positions -nmotifs 5 -minol 6 -maxol 7 -no_merge_lengths -2str -origin center -motif_db footprintDB tf $RSAT/public_html/motif_databases/footprintDB/footprintDB.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/2025/03/02/peak-motifs.2025-03-02.091145_2025-03-02.091145_IYXNXa

Warning: Not a single pattern was found in file tmp/www-data/2025/03/02/peak-motifs.2025-03-02.091145_2025-03-02.091145_IYXNXa/results/positions_6nt/peak-motifs_positions-2str-noov_6nt_ci50.tab

Warning: Not a single pattern was found in file tmp/www-data/2025/03/02/peak-motifs.2025-03-02.091145_2025-03-02.091145_IYXNXa/results/positions_7nt/peak-motifs_positions-2str-noov_7nt_ci50.tab

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