RSAT - peak-motifs result

Analysis: iggonly_ecoli_wenbo_brac_3 (19/03/2026 13:57)

peak-motifs  -v 1 -title iggonly_ecoli_wenbo_brac_3 -i $RSAT/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135349_2026-03-19.135349_WDqUmM/peak-motifspeak_seq -max_seq_len 1000 -markov auto -disco oligos,positions -nmotifs 10 -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/2026/03/19/peak-motifs.2026-03-19.135349_2026-03-19.135349_WDqUmM

motif discovery
oligos_6nt_mkv2	oligos_6nt_mkv2_m1 assembly: cactgta (sig=4.58; e-value=2.6e-05) RC: tacagtg oligos_6nt_mkv2_m2 assembly: tgcatgca (sig=1.50; e-value=0.032) RC: tgcatgca oligos_6nt_mkv2_m3 assembly: attgta (sig=1.10; e-value=0.079) RC: tacaat oligos_6nt_mkv2_m4 assembly: cttctc (sig=1.03; e-value=0.093) RC: gagaag oligos_6nt_mkv2_m5 assembly: gctagc (sig=1.01; e-value=0.098) RC: gctagc oligos_6nt_mkv2_m6 assembly: gtacta (sig=0.85; e-value=0.14) RC: tagtac oligos_6nt_mkv2_m7 assembly: aaaata (sig=0.78; e-value=0.17) RC: tatttt oligos_6nt_mkv2_m8 assembly: aacgaga (sig=0.58; e-value=0.26) RC: tctcgtt oligos_6nt_mkv2_m9 assembly: cgtgca (sig=0.48; e-value=0.33) RC: tgcacg oligos_6nt_mkv2_m10 assembly: agtcta (sig=0.38; e-value=0.42) RC: tagact	[ 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: agtacagta (sig=2.04; e-value=0.0091) RC: tactgtact oligos_7nt_mkv2_m2 assembly: actccctg (sig=1.62; e-value=0.024) RC: cagggagt oligos_7nt_mkv2_m3 assembly: tacgactc (sig=1.24; e-value=0.058) RC: gagtcgta oligos_7nt_mkv2_m4 assembly: cactgac (sig=0.75; e-value=0.18) RC: gtcagtg oligos_7nt_mkv2_m5 assembly: ccttctc (sig=0.71; e-value=0.19) RC: gagaagg oligos_7nt_mkv2_m6 assembly: catgcacg (sig=0.68; e-value=0.21) RC: cgtgcatg oligos_7nt_mkv2_m7 assembly: aacgagaa (sig=0.61; e-value=0.25) RC: ttctcgtt oligos_7nt_mkv2_m8 : (sig=; e-value=1) RC: oligos_7nt_mkv2_m9 : (sig=; e-value=1) RC: oligos_7nt_mkv2_m10 : (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]

Motif discovery
Motif 1   oligos_6nt_mkv2_m1	k-mer sig=4.58; evalue=2.6e-05 wdyACTGTAyw WRTACAGTRHW	[ 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 wdyACTGTAyw ZBTB32 MA1580.1 R 10 0.9091 0.920 0.837 NA NA SOX13 MA1120.2 R 7 0.6364 0.729 0.464 NA NA SOX2 MA0143.5 R 7 0.6364 0.725 0.461 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: 47 (16.97%) Max nb of predicted sites per peak: 4  (brac1_R4.macs2_peak_216::scahrs1_348:5726598-5726748(.)) Mean nb of predicted sites per peak: 1.21	[ sites: text ] [ distribution: text ] [ sites per peak: text ] [ enrichment: text graph ]
Motif 2   oligos_6nt_mkv2_m2	k-mer sig=1.50; evalue=0.032 crTGCATGCAyg CRTGCATGCAYG	[ 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 crTGCATGCAyg POU5F1 MA1115.2 R 7 0.5833 0.809 0.472 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: 19 (6.86%) Max nb of predicted sites per peak: 6  (brac1_R4.macs2_peak_222::scahrs1_348:24088052-24088202(.)) Mean nb of predicted sites per peak: 2.42	[ sites: text ] [ distribution: text ] [ sites per peak: text ] [ enrichment: text graph ]
Motif 3   oligos_6nt_mkv2_m3	k-mer sig=1.10; evalue=0.079 wyATTGTAmw WKTACAATRW	[ 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 wyATTGTAmw Sox17 MA0078.3 R 10 1.0000 0.740 0.740 NA NA ZBTB32 MA1580.1 R 10 1.0000 0.719 0.719 NA NA Sox7 MA2095.1 R 10 1.0000 0.714 0.714 NA NA Total matches= 52 (49 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: 38 (13.72%) Max nb of predicted sites per peak: 3  (brac1_R4.macs2_peak_82::scahrs1_100:147960117-147960267(.)) Mean nb of predicted sites per peak: 1.21	[ sites: text ] [ distribution: text ] [ sites per peak: text ] [ enrichment: text graph ]
Motif 4   oligos_6nt_mkv2_m4	k-mer sig=1.03; evalue=0.093 ycCTTCTCck MGGAGAAGGR	[ 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 ycCTTCTCck ZNF768 MA1731.2 D 9 0.9000 0.706 0.635 NA NA GATA4 MA0482.3 D 8 0.8000 0.736 0.589 NA NA PRDM1 MA0508.4 D 7 0.7000 0.748 0.523 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: 25 (9.03%) Max nb of predicted sites per peak: 2  (brac1_R4.macs2_peak_233::scahrs1_348:53233769-53233919(.)) Mean nb of predicted sites per peak: 1.04	[ sites: text ] [ distribution: text ] [ sites per peak: text ] [ enrichment: text graph ]
Motif 5   oligos_6nt_mkv2_m5	k-mer sig=1.01; evalue=0.098 ssGCTAGCss SSGCTAGCSS	[ 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 ssGCTAGCss ZKSCAN3 MA1973.2 R 10 0.7143 0.781 0.558 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: 20 (7.22%) Max nb of predicted sites per peak: 4  (brac1_R4.macs2_peak_210::scahrs1_3201:15511-15661(.)) Mean nb of predicted sites per peak: 2.15	[ sites: text ] [ distribution: text ] [ sites per peak: text ] [ enrichment: text graph ]
Motif 6   oligos_6nt_mkv2_m6	k-mer sig=0.85; evalue=0.14 yaGTACTAcw WGTAGTACTR	[ 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 yaGTACTAcw ZSCAN21 MA2336.1 D 7 0.7000 0.711 0.497 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: 40 (14.44%) Max nb of predicted sites per peak: 3  (brac1_R4.macs2_peak_81::scahrs1_100:147826505-147826655(.)) Mean nb of predicted sites per peak: 1.38	[ sites: text ] [ distribution: text ] [ sites per peak: text ] [ enrichment: text graph ]
Motif 7   oligos_6nt_mkv2_m7	k-mer sig=0.78; evalue=0.17 wdAAAATAms SKTATTTTHW	[ 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 wdAAAATAms MEF2C MA0497.2 D 10 0.9091 0.872 0.793 NA NA MEF2A MA0052.5 D 9 0.8182 0.878 0.718 NA NA ZNF384 MA1125.2 D 8 0.8000 0.789 0.631 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: 24 (8.66%) Max nb of predicted sites per peak: 4  (brac1_R4.macs2_peak_41::scahrs1_100:63951207-63951357(.)) Mean nb of predicted sites per peak: 1.21	[ sites: text ] [ distribution: text ] [ sites per peak: text ] [ enrichment: text graph ]
Motif 8   oligos_6nt_mkv2_m8	k-mer sig=0.58; evalue=0.26 rrAACGAGAac GTTCTCGTTYY	[ 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 rrAACGAGAac PRDM1 MA0508.4 R 6 0.5000 0.837 0.418 NA NA BARHL1 MA0877.4 R 6 0.5455 0.759 0.414 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: 12 (4.33%) Max nb of predicted sites per peak: 2  (brac1_R4.macs2_peak_263::scahrs1_54:34934605-34934755(.)) Mean nb of predicted sites per peak: 1.17	[ sites: text ] [ distribution: text ] [ sites per peak: text ] [ enrichment: text graph ]
Motif 9   oligos_6nt_mkv2_m9	k-mer sig=0.48; evalue=0.33 vrCGTGCAyk MRTGCACGYB	[ 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 vrCGTGCAyk ZBTB14 MA1650.2 D 8 0.8000 0.707 0.566 NA NA EPAS1 MA2325.1 R 8 0.7273 0.769 0.559 NA NA SOHLH2 MA1560.2 D 7 0.6364 0.855 0.544 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: 31 (11.19%) Max nb of predicted sites per peak: 2  (brac1_R4.macs2_peak_63::scahrs1_100:110553236-110553386(.)) Mean nb of predicted sites per peak: 1.19	[ sites: text ] [ distribution: text ] [ sites per peak: text ] [ enrichment: text graph ]
Motif 10   oligos_6nt_mkv2_m10	k-mer sig=0.38; evalue=0.42 ryAGTCTAyk MRTAGACTRY	[ 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 ryAGTCTAyk ZSCAN29 MA1602.2 D 8 0.6154 0.810 0.499 NA NA Smad4 MA1153.2 D 7 0.7000 0.707 0.495 NA NA SMAD3 MA0795.1 D 8 0.6667 0.711 0.474 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: 27 (9.75%) Max nb of predicted sites per peak: 2  (brac1_R4.macs2_peak_56::scahrs1_100:100837410-100837560(.)) Mean nb of predicted sites per peak: 1.15	[ sites: text ] [ distribution: text ] [ sites per peak: text ] [ enrichment: text graph ]
Motif 11   oligos_7nt_mkv2_m1	k-mer sig=2.04; evalue=0.0091 mywGTACAGTAsw WSTACTGTACWRK	[ 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 mywGTACAGTAsw ZBTB32 MA1580.1 D 10 0.7692 0.950 0.731 NA NA OSR1 MA1542.2 R 8 0.6154 0.799 0.492 NA NA ZKSCAN1 MA1585.2 D 8 0.5714 0.716 0.409 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: 34 (12.27%) Max nb of predicted sites per peak: 4  (brac1_R4.macs2_peak_71::scahrs1_100:129347450-129347600(.)) Mean nb of predicted sites per peak: 1.68	[ sites: text ] [ distribution: text ] [ sites per peak: text ] [ enrichment: text graph ]
Motif 12   oligos_7nt_mkv2_m2	k-mer sig=1.62; evalue=0.024 sbACTCCCTGyy RRCAGGGAGTVS	[ 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 sbACTCCCTGyy GABPA MA0062.4 D 10 0.8333 0.794 0.662 NA NA Erg MA0474.4 R 10 0.8333 0.781 0.650 NA NA ZNF175 MA2332.1 R 9 0.7500 0.805 0.604 NA NA Total matches= 18 (15 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: 20 (7.22%) Max nb of predicted sites per peak: 2  (brac1_R4.macs2_peak_69::scahrs1_100:126556316-126556466(.)) Mean nb of predicted sites per peak: 1.15	[ sites: text ] [ distribution: text ] [ sites per peak: text ] [ enrichment: text graph ]
Motif 13   oligos_7nt_mkv2_m3	k-mer sig=1.24; evalue=0.058 yyTACGACTCsc GSGAGTCGTARR	[ 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 yyTACGACTCsc HOXD12::ELK1 MA1958.2 R 12 0.9231 0.728 0.672 NA NA HOXD12 MA0873.2 R 9 0.6923 0.815 0.565 NA NA HOXC11 MA0651.3 R 10 0.7692 0.731 0.563 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: 22 (7.94%) Max nb of predicted sites per peak: 3  (brac1_R4.macs2_peak_69::scahrs1_100:126556316-126556466(.)) Mean nb of predicted sites per peak: 1.23	[ sites: text ] [ distribution: text ] [ sites per peak: text ] [ enrichment: text graph ]
Motif 14   oligos_7nt_mkv2_m4	k-mer sig=0.75; evalue=0.18 awCACTGAChw WDGTCAGTGWT	[ 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 awCACTGAChw BCL11A MA2324.1 D 7 0.6364 0.873 0.555 NA NA NR2F1 MA1538.1 D 11 0.7333 0.725 0.532 NA NA NR2F6 MA1539.1 D 11 0.7333 0.720 0.528 NA NA Total matches= 18 (15 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: 26 (9.39%) Max nb of predicted sites per peak: 3  (brac1_R4.macs2_peak_270::scahrs1_63:28484559-28484709(.)) Mean nb of predicted sites per peak: 1.08	[ sites: text ] [ distribution: text ] [ sites per peak: text ] [ enrichment: text graph ]
Motif 15   oligos_7nt_mkv2_m5	k-mer sig=0.71; evalue=0.19 gbCCTTCTCyy RRGAGAAGGVC	[ 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 gbCCTTCTCyy GATA4 MA0482.3 D 8 0.7273 0.744 0.541 NA NA PRDM1 MA0508.4 D 7 0.6364 0.806 0.513 NA NA GATA2 MA0036.4 D 7 0.6364 0.711 0.453 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: 16 (5.78%) Max nb of predicted sites per peak: 1  (brac1_R4.macs2_peak_8::scahrs1_100:20129162-20129312(.)) Mean nb of predicted sites per peak: 1.00	[ sites: text ] [ distribution: text ] [ sites per peak: text ] [ enrichment: text graph ]
Motif 16   oligos_7nt_mkv2_m6	k-mer sig=0.68; evalue=0.21 tgCATGCACGms SKCGTGCATGCA	[ 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 tgCATGCACGms EPAS1 MA2325.1 D 8 0.6154 0.750 0.462 NA NA SOHLH2 MA1560.2 R 7 0.5385 0.824 0.444 NA NA HIF1A MA1106.2 R 6 0.5000 0.879 0.440 NA NA Total matches= 11 (8 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 (4.69%) Max nb of predicted sites per peak: 2  (brac1_R4.macs2_peak_109::scahrs1_106:13075561-13075711(.)) Mean nb of predicted sites per peak: 1.08	[ sites: text ] [ distribution: text ] [ sites per peak: text ] [ enrichment: text graph ]
Motif 17   oligos_7nt_mkv2_m7	k-mer sig=0.61; evalue=0.25 rrAACGAGAAbg CVTTCTCGTTYY	[ 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 rrAACGAGAAbg PRDM1 MA0508.4 R 7 0.5833 0.833 0.486 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: 26 (9.39%) Max nb of predicted sites per peak: 2  (brac1_R4.macs2_peak_240::scahrs1_40:7076398-7076548(.)) Mean nb of predicted sites per peak: 1.04	[ sites: text ] [ distribution: text ] [ sites per peak: text ] [ enrichment: text graph ]

Command:  peak-motifs  -v 1 -title iggonly_ecoli_wenbo_brac_3 -i $RSAT/public_html/tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135349_2026-03-19.135349_WDqUmM/peak-motifspeak_seq -max_seq_len 1000 -markov auto -disco oligos,positions -nmotifs 10 -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/2026/03/19/peak-motifs.2026-03-19.135349_2026-03-19.135349_WDqUmM

Warning: Not a single pattern was found in file tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135349_2026-03-19.135349_WDqUmM/results/positions_6nt/peak-motifs_positions-2str-noov_6nt_ci50.tab

Warning: Not a single pattern was found in file tmp/www-data/2026/03/19/peak-motifs.2026-03-19.135349_2026-03-19.135349_WDqUmM/results/positions_7nt/peak-motifs_positions-2str-noov_7nt_ci50.tab