peak-motifs MEsalmon4_Up3

Motif discovery

Motif 1 oligos_6nt_test_vs_ctrl_m1

k-mer sig=3.03; evalue=0.00093

cgaGGCCCAtbm

KVATGGGCCTCG

[ 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 cgaGGCCCAtbm

TZP2:EEAD0062:EEADannot TZP2/EEAD0062/EEADannot R 12 0.8000 0.944 0.755 NA NA

ASR1:MA1812.1:JASPAR ASR1/MA1812.1/JASPAR D 12 0.8000 0.924 0.739 NA NA

ASR1:MA1812.2:JASPAR ASR1/MA1812.2/JASPAR D 9 0.7500 0.929 0.697 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: 77 (14.86%)
Max nb of predicted sites per peak: 3
(gene-Lalb_Chr14g0364111)
Mean nb of predicted sites per peak: 1.25

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

Motif 2 oligos_6nt_test_vs_ctrl_m2

k-mer sig=2.10; evalue=0.0079

csAaGCCCAtwa

TWATGGGCTTSG

[ 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 csAaGCCCAtwa

TZP2:EEAD0062:EEADannot TZP2/EEAD0062/EEADannot R 12 0.8000 0.879 0.703 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: 63 (12.16%)
Max nb of predicted sites per peak: 3
(gene-Lalb_Chr11g0075791)
Mean nb of predicted sites per peak: 1.21

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

Motif 3 oligos_6nt_test_vs_ctrl_m3

k-mer sig=3.03; evalue=0.00093

rkaGGCCCAatay

RTATTGGGCCTMY

[ 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 rkaGGCCCAatay

ASR1:MA1812.1:JASPAR ASR1/MA1812.1/JASPAR D 13 0.8667 0.990 0.858 NA NA

TZP2:EEAD0062:EEADannot TZP2/EEAD0062/EEADannot R 13 0.8667 0.942 0.816 NA NA

ASR1:MA1812.2:JASPAR ASR1/MA1812.2/JASPAR D 9 0.6923 0.998 0.691 NA NA

Total matches= 9 (6 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: 76 (14.67%)
Max nb of predicted sites per peak: 3
(gene-Lalb_Chr23g0268801)
Mean nb of predicted sites per peak: 1.36

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

Motif 4 oligos_6nt_test_vs_ctrl_m4

k-mer sig=0.49; evalue=0.32

ksCGaatCgv

BCGATTCGSM

[ 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 ksCGaatCgv

ARR14:ARR14:ArabidopsisPBM ARR14/ARR14/ArabidopsisPBM R 10 1.0000 0.827 0.827 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: 64 (12.36%)
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=0.36; evalue=0.44

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 0.796 0.796 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= 56 (53 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 (7.34%)
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=0.22; evalue=0.6

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 0.622 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: 134 (25.87%)
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=1.80; evalue=0.016

ssGaGGCCCAtrw

WYATGGGCCTCSS

[ 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 ssGaGGCCCAtrw

TZP2:EEAD0062:EEADannot TZP2/EEAD0062/EEADannot R 13 0.8667 0.895 0.776 NA NA

ASR1:MA1812.1:JASPAR ASR1/MA1812.1/JASPAR D 13 0.8667 0.895 0.775 NA NA

ASR1:MA1812.2:JASPAR ASR1/MA1812.2/JASPAR D 9 0.6923 0.922 0.638 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: 68 (13.13%)
Max nb of predicted sites per peak: 2
(gene-Lalb_Chr25g0278611)
Mean nb of predicted sites per peak: 1.19

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

Motif 8 oligos_7nt_test_vs_ctrl_m2

k-mer sig=1.23; evalue=0.059

hgaaGCCCAwa

TWTGGGCTTCD

[ 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 hgaaGCCCAwa

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 0.615 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: 66 (12.74%)
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=0.59; evalue=0.26

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 0.881 0.720 NA NA

ASR1:MA1812.1:JASPAR ASR1/MA1812.1/JASPAR R 11 0.7333 0.878 0.644 NA NA

TZP2:EEAD0062:EEADannot TZP2/EEAD0062/EEADannot D 11 0.7333 0.868 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: 41 (7.92%)
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=0.57; evalue=0.27

bkGACCCGArs

SYTCGGGTCMV

[ 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 bkGACCCGArs

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 0.488 NA NA

Total matches= 39 (36 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 (6.95%)
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=0.19; evalue=0.65

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 0.915 0.839 NA NA

AT5G04760:MA2031.1:JASPAR AT5G04760/MA2031.1/JASPAR R 11 1.0000 0.738 0.738 NA NA

ONAC127:UN0430.2:JASPAR ONAC127/UN0430.2/JASPAR D 8 0.7273 0.932 0.678 NA NA

Total matches= 87 (84 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: 105 (20.27%)
Max nb of predicted sites per peak: 2
(gene-Lalb_Chr24g0402691)
Mean nb of predicted sites per peak: 1.12

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

Motif 12 oligos_8nt_test_vs_ctrl_m1

k-mer sig=0.10; evalue=0.79

cgaGGCCCAtbm

KVATGGGCCTCG

[ 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 cgaGGCCCAtbm

TZP2:EEAD0062:EEADannot TZP2/EEAD0062/EEADannot R 12 0.8000 0.918 0.734 NA NA

ASR1:MA1812.1:JASPAR ASR1/MA1812.1/JASPAR D 12 0.8000 0.912 0.730 NA NA

ASR1:MA1812.2:JASPAR ASR1/MA1812.2/JASPAR D 9 0.7500 0.919 0.689 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: 78 (15.06%)
Max nb of predicted sites per peak: 2
(gene-Lalb_Chr25g0278611)
Mean nb of predicted sites per peak: 1.21

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

Motif 13 oligos_8nt_test_vs_ctrl_m2

k-mer sig=0.09; evalue=0.81

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 0.865 0.793 NA NA

LOC_Os02g49560:M0327_1.02:CISBP LOC_Os02g49560/M0327_1.02/CISBP R 11 0.9167 0.820 0.752 NA NA

HBI1:MA1025.1:JASPAR HBI1/MA1025.1/JASPAR R 12 1.0000 0.731 0.731 NA NA

Total matches= 192 (189 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: 65 (12.55%)
Max nb of predicted sites per peak: 4
(gene-Lalb_Chr17g0347221)
Mean nb of predicted sites per peak: 1.29

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

Motif 14 dyads_test_vs_ctrl_m1

k-mer sig=2.28; evalue=0.0052

ykrGGCCCAtsy

RSATGGGCCYMR

[ 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 ykrGGCCCAtsy

TZP2:EEAD0062:EEADannot TZP2/EEAD0062/EEADannot R 12 0.8000 0.943 0.755 NA NA

ASR1:MA1812.1:JASPAR ASR1/MA1812.1/JASPAR D 12 0.8000 0.903 0.723 NA NA

ASR1:MA1812.2:JASPAR ASR1/MA1812.2/JASPAR D 9 0.7500 0.909 0.682 NA NA

Total matches= 28 (25 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: 71 (13.71%)
Max nb of predicted sites per peak: 4
(gene-Lalb_Chr23g0268801)
Mean nb of predicted sites per peak: 1.37

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

Motif 15 dyads_test_vs_ctrl_m2

k-mer sig=2.28; evalue=0.0052

sgCGtGRKssGCCrs

SYGGCSSMYCACGCS

[ 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 sgCGtGRKssGCCrs

RAP2.3:RAP2.3_2:ArabidopsisPBM RAP2.3/RAP2.3_2/ArabidopsisPBM D 10 0.6667 0.715 0.476 NA NA

ERF1:M0025_1.02:CISBP ERF1/M0025_1.02/CISBP D 10 0.6667 0.711 0.474 NA NA

BIM1:M0163_1.02:CISBP BIM1/M0163_1.02/CISBP D 9 0.5625 0.754 0.424 NA NA

Total matches= 14 (11 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: 58 (11.20%)
Max nb of predicted sites per peak: 5
(gene-Lalb_Chr21g0317031)
Mean nb of predicted sites per peak: 1.48

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

Motif 16 dyads_test_vs_ctrl_m3

k-mer sig=2.28; evalue=0.0052

ssaatsSsscassRCsysbsgcksCGtss

SSACGSMGCSVSRSGYSSTGSSSSATTSS

[ 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 ssaatsSsscassRCsysbsgcksCGtss

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: 72 (13.90%)
Max nb of predicted sites per peak: 13
(gene-Lalb_Chr21g0317031)
Mean nb of predicted sites per peak: 2.28

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

Motif 17 dyads_test_vs_ctrl_m4

k-mer sig=2.28; evalue=0.0052

ssCGtsSssssCSrCGcsksgsGyGvsss

SSSBCRCSCSMSGCGYSGSSSSSSACGSS

[ 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 ssCGtsSssssCSrCGcsksgsGyGvsss

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: 79 (15.25%)
Max nb of predicted sites per peak: 32
(gene-Lalb_Chr21g0317031)
Mean nb of predicted sites per peak: 4.41

[ 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_Up3_W1 (26/05/2025 03:41)

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 ssaatsSsscassRCsysbsgcksCGtss

Total matches= 0

footprintDB-plants

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

columns aligned correlation cor ssCGtsSssssCSrCGcsksgsGyGvsss

Total matches= 0

Motif locations (sites)

Motif comparisons

Logs and parameter files

Publications

Results

RSAT - peak-motifs result

Analysis: MEsalmon4_Up3_W1 (26/05/2025 03:41)

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 ssaatsSsscassRCsysbsgcksCGtss Total matches= 0

footprintDB-plants name id strand Nb overlap % Pearson Normalized aligned col. motif aligned col. match columns aligned correlation cor ssCGtsSssssCSrCGcsksgsGyGvsss 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 ssaatsSsscassRCsysbsgcksCGtss

Total matches= 0

footprintDB-plants

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

columns aligned correlation cor ssCGtsSssssCSrCGcsksgsGyGvsss

Total matches= 0