peak-motifs MEsalmon4

Motif discovery

Motif 1 oligos_6nt_test_vs_ctrl_m1

k-mer sig=2.66; evalue=0.0022

ybaGGCCCAtsm

KSATGGGCCTVR

[ 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 ybaGGCCCAtsm

TZP2:EEAD0062:EEADannot TZP2/EEAD0062/EEADannot R 12 0.8000 0.947 0.758 NA NA

ASR1:MA1812.1:JASPAR ASR1/MA1812.1/JASPAR D 12 0.8000 0.923 0.739 NA NA

ASR1:MA1812.2:JASPAR ASR1/MA1812.2/JASPAR D 9 0.7500 0.928 0.696 NA NA

Total matches= 25 (22 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: 78 (14.77%)
Max nb of predicted sites per peak: 4
(gene-Lalb_Chr23g0268801)
Mean nb of predicted sites per peak: 1.35

[ sites: text ]
[ distribution: text ]
[ sites per peak: text ]
[ enrichment: text graph ]

Motif 2 oligos_6nt_test_vs_ctrl_m2

k-mer sig=1.76; evalue=0.017

cvAaGCCCAtwa

TWATGGGCTTBG

[ 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 cvAaGCCCAtwa

TZP2:EEAD0062:EEADannot TZP2/EEAD0062/EEADannot R 12 0.8000 0.877 0.702 NA NA

ASR1:MA1812.1:JASPAR ASR1/MA1812.1/JASPAR D 12 0.8000 0.787 0.630 NA NA

ASR1:MA1812.2:JASPAR ASR1/MA1812.2/JASPAR D 9 0.7500 0.789 0.592 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: 64 (12.12%)
Max nb of predicted sites per peak: 3
(gene-Lalb_Chr11g0075791)
Mean nb of predicted sites per peak: 1.20

[ sites: text ]
[ distribution: text ]
[ sites per peak: text ]
[ enrichment: text graph ]

Motif 3 oligos_6nt_test_vs_ctrl_m3

k-mer sig=2.66; evalue=0.0022

rkaGGCCCAathy

RDATTGGGCCTMY

[ 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 rkaGGCCCAathy

ASR1:MA1812.1:JASPAR ASR1/MA1812.1/JASPAR D 13 0.8667 0.987 0.856 NA NA

TZP2:EEAD0062:EEADannot TZP2/EEAD0062/EEADannot R 13 0.8667 0.939 0.814 NA NA

ASR1:MA1812.2:JASPAR ASR1/MA1812.2/JASPAR D 9 0.6923 0.997 0.690 NA NA

Total matches= 10 (7 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: 73 (13.83%)
Max nb of predicted sites per peak: 3
(gene-Lalb_Chr23g0268801)
Mean nb of predicted sites per peak: 1.38

[ sites: text ]
[ distribution: text ]
[ sites per peak: text ]
[ enrichment: text graph ]

Motif 4 oligos_6nt_test_vs_ctrl_m4

k-mer sig=0.25; evalue=0.56

bsCGaatCgv

BCGATTCGSV

[ 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 bsCGaatCgv

ARR14:ARR14:ArabidopsisPBM ARR14/ARR14/ArabidopsisPBM R 10 1.0000 0.828 0.828 NA NA

OsRR22:MA1409.1:JASPAR OsRR22/MA1409.1/JASPAR R 10 1.0000 0.799 0.799 NA NA

ARR1:MA0945.1:JASPAR ARR1/MA0945.1/JASPAR D 10 1.0000 0.794 0.794 NA NA

Total matches= 65 (62 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: 66 (12.50%)
Max nb of predicted sites per peak: 3
(gene-Lalb_Chr10g0100541)
Mean nb of predicted sites per peak: 1.12

[ sites: text ]
[ distribution: text ]
[ sites per peak: text ]
[ enrichment: text graph ]

Motif 5 oligos_6nt_test_vs_ctrl_m5

k-mer sig=0.19; evalue=0.65

smCGGGTCrr

YYGACCCGKS

[ 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 smCGGGTCrr

GLYMA-08G357600:UN0420.1:JASPAR GLYMA-08G357600/UN0420.1/JASPAR D 10 1.0000 0.795 0.795 NA NA

ABF3:MA0930.2:JASPAR ABF3/MA0930.2/JASPAR D 10 1.0000 0.761 0.761 NA NA

CMTA3:MA0970.1:JASPAR CMTA3/MA0970.1/JASPAR D 9 0.9000 0.707 0.636 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: 38 (7.20%)
Max nb of predicted sites per peak: 2
(gene-Lalb_Chr15g0087881)
Mean nb of predicted sites per peak: 1.13

[ sites: text ]
[ distribution: text ]
[ sites per peak: text ]
[ enrichment: text graph ]

Motif 6 oligos_6nt_test_vs_ctrl_m6

k-mer sig=0.02; evalue=0.95

amCTAATAwt

AWTATTAGKT

[ 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 amCTAATAwt

GLYMA-04G093300:UN0418.1:JASPAR GLYMA-04G093300/UN0418.1/JASPAR D 10 1.0000 0.776 0.776 NA NA

Q1T448:M1215_1.02:CISBP Q1T448/M1215_1.02/CISBP R 9 0.8182 0.761 0.623 NA NA

Os02g0706600:M1116_1.02:CISBP Os02g0706600/M1116_1.02/CISBP D 9 0.8182 0.755 0.618 NA NA

Total matches= 36 (33 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: 137 (25.95%)
Max nb of predicted sites per peak: 4
(gene-Lalb_Chr25g0279951)
Mean nb of predicted sites per peak: 1.25

[ sites: text ]
[ distribution: text ]
[ sites per peak: text ]
[ enrichment: text graph ]

Motif 7 oligos_7nt_test_vs_ctrl_m1

k-mer sig=1.57; evalue=0.027

ssGaGGCCCAtsw

WSATGGGCCTCSS

[ 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 ssGaGGCCCAtsw

ASR1:MA1812.1:JASPAR ASR1/MA1812.1/JASPAR D 13 0.8667 0.902 0.782 NA NA

TZP2:EEAD0062:EEADannot TZP2/EEAD0062/EEADannot R 13 0.8667 0.901 0.781 NA NA

ASR1:MA1812.2:JASPAR ASR1/MA1812.2/JASPAR D 9 0.6923 0.928 0.642 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: 72 (13.64%)
Max nb of predicted sites per peak: 2
(gene-Lalb_Chr25g0278611)
Mean nb of predicted sites per peak: 1.22

[ sites: text ]
[ distribution: text ]
[ sites per peak: text ]
[ enrichment: text graph ]

Motif 8 oligos_7nt_test_vs_ctrl_m2

k-mer sig=1.27; evalue=0.054

hsaaGCCCAwa

TWTGGGCTTSD

[ 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 hsaaGCCCAwa

ASR1:MA1812.2:JASPAR ASR1/MA1812.2/JASPAR D 9 0.8182 0.842 0.689 NA NA

TZP2:EEAD0062:EEADannot TZP2/EEAD0062/EEADannot R 11 0.7333 0.903 0.662 NA NA

ASR1:MA1812.1:JASPAR ASR1/MA1812.1/JASPAR D 11 0.7333 0.838 0.614 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: 67 (12.69%)
Max nb of predicted sites per peak: 3
(gene-Lalb_Chr12g0202261)
Mean nb of predicted sites per peak: 1.30

[ sites: text ]
[ distribution: text ]
[ sites per peak: text ]
[ enrichment: text graph ]

Motif 9 oligos_7nt_test_vs_ctrl_m3

k-mer sig=0.70; evalue=0.2

rraTTGGGCyk

MRGCCCAATYY

[ 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 rraTTGGGCyk

ASR1:MA1812.2:JASPAR ASR1/MA1812.2/JASPAR R 9 0.8182 0.880 0.720 NA NA

ASR1:MA1812.1:JASPAR ASR1/MA1812.1/JASPAR R 11 0.7333 0.877 0.643 NA NA

TZP2:EEAD0062:EEADannot TZP2/EEAD0062/EEADannot D 11 0.7333 0.867 0.636 NA NA

Total matches= 20 (17 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: 42 (7.95%)
Max nb of predicted sites per peak: 2
(gene-Lalb_Chr25g0283681)
Mean nb of predicted sites per peak: 1.10

[ sites: text ]
[ distribution: text ]
[ sites per peak: text ]
[ enrichment: text graph ]

Motif 10 oligos_7nt_test_vs_ctrl_m4

k-mer sig=0.44; evalue=0.36

btGACCCGArs

SYTCGGGTCAV

[ 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 btGACCCGArs

TCP16.DAP:M0767:AthalianaCistrome TCP16.DAP/M0767/AthalianaCistrome R 10 0.8333 0.701 0.584 NA NA

GATA20:MA1324.1:JASPAR GATA20/MA1324.1/JASPAR R 8 0.7273 0.709 0.516 NA NA

LOC_Os03g25430:M1621_1.02:CISBP LOC_Os03g25430/M1621_1.02/CISBP D 8 0.6667 0.731 0.487 NA NA

Total matches= 38 (35 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: 36 (6.82%)
Max nb of predicted sites per peak: 2
(gene-Lalb_Chr15g0087881)
Mean nb of predicted sites per peak: 1.17

[ sites: text ]
[ distribution: text ]
[ sites per peak: text ]
[ enrichment: text graph ]

Motif 11 oligos_7nt_test_vs_ctrl_m5

k-mer sig=0.29; evalue=0.51

rrAGaaaaGrr

YYCTTTTCTYY

[ 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 rrAGaaaaGrr

ONAC127:UN0430.1:JASPAR ONAC127/UN0430.1/JASPAR D 11 0.9167 0.914 0.838 NA NA

AT5G04760:MA2031.1:JASPAR AT5G04760/MA2031.1/JASPAR R 11 1.0000 0.737 0.737 NA NA

ONAC127:UN0430.2:JASPAR ONAC127/UN0430.2/JASPAR D 8 0.7273 0.931 0.677 NA NA

Total matches= 86 (83 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: 103 (19.51%)
Max nb of predicted sites per peak: 2
(gene-Lalb_Chr24g0402691)
Mean nb of predicted sites per peak: 1.14

[ sites: text ]
[ distribution: text ]
[ sites per peak: text ]
[ enrichment: text graph ]

Motif 12 oligos_8nt_test_vs_ctrl_m1

k-mer sig=0.03; evalue=0.93

kvCSCGtGGakg

CMTCCACGSGBM

[ 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 kvCSCGtGGakg

Zm00001d034298:MA1834.1:JASPAR Zm00001d034298/MA1834.1/JASPAR R 11 0.9167 0.864 0.792 NA NA

LOC_Os02g49560:M0327_1.02:CISBP LOC_Os02g49560/M0327_1.02/CISBP R 11 0.9167 0.819 0.751 NA NA

HBI1:MA1025.1:JASPAR HBI1/MA1025.1/JASPAR R 12 1.0000 0.729 0.729 NA NA

Total matches= 190 (187 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: 64 (12.12%)
Max nb of predicted sites per peak: 4
(gene-Lalb_Chr17g0347221)
Mean nb of predicted sites per peak: 1.30

[ sites: text ]
[ distribution: text ]
[ sites per peak: text ]
[ enrichment: text graph ]

Motif 13 dyads_test_vs_ctrl_m1

k-mer sig=1.90; evalue=0.013

ykrGGCCCAtbh

DVATGGGCCYMR

[ 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 ykrGGCCCAtbh

TZP2:EEAD0062:EEADannot TZP2/EEAD0062/EEADannot R 12 0.8000 0.933 0.746 NA NA

ASR1:MA1812.1:JASPAR ASR1/MA1812.1/JASPAR D 12 0.8000 0.878 0.702 NA NA

ASR1:MA1812.2:JASPAR ASR1/MA1812.2/JASPAR D 9 0.7500 0.884 0.663 NA NA

Total matches= 32 (29 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: 64 (12.12%)
Max nb of predicted sites per peak: 3
(gene-Lalb_Chr24g0401001)
Mean nb of predicted sites per peak: 1.33

[ sites: text ]
[ distribution: text ]
[ sites per peak: text ]
[ enrichment: text graph ]

Motif 14 dyads_test_vs_ctrl_m2

k-mer sig=1.90; evalue=0.013

sgCGtGGKssGCCrs

SYGGCSSMCCACGCS

[ 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 sgCGtGGKssGCCrs

RAP2.3:RAP2.3_2:ArabidopsisPBM RAP2.3/RAP2.3_2/ArabidopsisPBM D 10 0.6667 0.718 0.479 NA NA

ERF1:M0025_1.02:CISBP ERF1/M0025_1.02/CISBP D 10 0.6667 0.717 0.478 NA NA

BIM1:MA0964.1:JASPAR BIM1/MA0964.1/JASPAR D 9 0.5625 0.759 0.427 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: 60 (11.36%)
Max nb of predicted sites per peak: 5
(gene-Lalb_Chr21g0317031)
Mean nb of predicted sites per peak: 1.50

[ sites: text ]
[ distribution: text ]
[ sites per peak: text ]
[ enrichment: text graph ]

Motif 15 dyads_test_vs_ctrl_m3

k-mer sig=0.97; evalue=0.11

cvAaGCCCAtwa

TWATGGGCTTBG

[ 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 cvAaGCCCAtwa

TZP2:EEAD0062:EEADannot TZP2/EEAD0062/EEADannot R 12 0.8000 0.877 0.702 NA NA

ASR1:MA1812.1:JASPAR ASR1/MA1812.1/JASPAR D 12 0.8000 0.787 0.630 NA NA

ASR1:MA1812.2:JASPAR ASR1/MA1812.2/JASPAR D 9 0.7500 0.789 0.592 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: 64 (12.12%)
Max nb of predicted sites per peak: 3
(gene-Lalb_Chr11g0075791)
Mean nb of predicted sites per peak: 1.20

[ sites: text ]
[ distribution: text ]
[ sites per peak: text ]
[ enrichment: text graph ]

Motif 16 dyads_test_vs_ctrl_m4

k-mer sig=1.90; evalue=0.013

ssaatsSsCcmrsRCSysksvbksCGtss

SSACGSMVBSMSRSGYSYKGGSSSATTSS

[ 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 ssaatsSsCcmrsRCSysksvbksCGtss

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: 68 (12.88%)
Max nb of predicted sites per peak: 11
(gene-Lalb_Chr21g0317031)
Mean nb of predicted sites per peak: 2.07

[ sites: text ]
[ distribution: text ]
[ sites per peak: text ]
[ enrichment: text graph ]

Motif 17 dyads_test_vs_ctrl_m5

k-mer sig=1.90; evalue=0.013

ssCGtSssSssCCaCGcsksvsGyGvCss

SSGBCRCSBSMSGCGTGGSSSSSSACGSS

[ 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 ssCGtSssSssCCaCGcsksvsGyGvCss

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: 77 (14.58%)
Max nb of predicted sites per peak: 28
(gene-Lalb_Chr21g0317031)
Mean nb of predicted sites per peak: 4.12

[ sites: text ]
[ distribution: text ]
[ sites per peak: text ]
[ enrichment: text graph ]

Word significance table
Word comparisons		[tab] [html] [heatmap]
Comparisons between discovered motifs
Discovered motifs versus discovered motifs		[ Discovered motif(s): tf ] [ table: html txt ] [ alignments (logo): html text ] [ clustering: html ] [ graph: gml (for CytoScape) ]
Discovered motifs versus transcription factor databases
Motifs versus footprintDB-plants database		[ table: html txt ] [ alignments (logo): html text ] [ graph: gml (for CytoScape) ]

Log files
Parameters and files		[txt] [html]
Time log		[time table] [time log] [html]

RSAT - peak-motifs result

Analysis: MEsalmon4 (21/05/2025 03:30)

Command

Sequence composition

Discovered motifs (by algorithm)

Discovered motifs (with motif comparison)

footprintDB-plants

name id strand Nb overlap % Pearson Normalized aligned col. motif aligned col. match

columns aligned correlation cor ssaatsSsCcmrsRCSysksvbksCGtss

Total matches= 0

footprintDB-plants

name id strand Nb overlap % Pearson Normalized aligned col. motif aligned col. match

columns aligned correlation cor ssCGtSssSssCCaCGcsksvsGyGvCss

Total matches= 0

Motif locations (sites)

Motif comparisons

Logs and parameter files

Publications

Results

RSAT - peak-motifs result

Analysis: MEsalmon4 (21/05/2025 03:30)

Command

Sequence composition

Discovered motifs (by algorithm)

Discovered motifs (with motif comparison)

footprintDB-plants name id strand Nb overlap % Pearson Normalized aligned col. motif aligned col. match columns aligned correlation cor ssaatsSsCcmrsRCSysksvbksCGtss Total matches= 0

footprintDB-plants name id strand Nb overlap % Pearson Normalized aligned col. motif aligned col. match columns aligned correlation cor ssCGtSssSssCCaCGcsksvsGyGvCss Total matches= 0

Motif locations (sites)

Motif comparisons

Logs and parameter files

Publications

Results

footprintDB-plants

name id strand Nb overlap % Pearson Normalized aligned col. motif aligned col. match

columns aligned correlation cor ssaatsSsCcmrsRCSysksvbksCGtss

Total matches= 0

footprintDB-plants

name id strand Nb overlap % Pearson Normalized aligned col. motif aligned col. match

columns aligned correlation cor ssCGtSssSssCCaCGcsksvsGyGvCss

Total matches= 0