peak-motifs MEsalmon4_Up4

motif discovery

oligos_6nt_test_vs_ctrl

oligos_6nt_test_vs_ctrl_m1	assembly: agcccaat (sig=4.52; e-value=3e-05)	RC: attgggct
oligos_6nt_test_vs_ctrl_m2	assembly: ggcccaat (sig=4.52; e-value=3e-05)	RC: attgggcc
oligos_6nt_test_vs_ctrl_m3	assembly: atgggct (sig=3.51; e-value=0.00031)	RC: agcccat
oligos_6nt_test_vs_ctrl_m4	assembly: aaaacg (sig=0.28; e-value=0.52)	RC: cgtttt
oligos_6nt_test_vs_ctrl_m5	assembly: atctta (sig=0.14; e-value=0.72)	RC: taagat
oligos_6nt_test_vs_ctrl_m6	: (sig=; e-value=1)	RC:
oligos_6nt_test_vs_ctrl_m7	: (sig=; e-value=1)	RC:
oligos_6nt_test_vs_ctrl_m8	: (sig=; e-value=1)	RC:
oligos_6nt_test_vs_ctrl_m9	: (sig=; e-value=1)	RC:
oligos_6nt_test_vs_ctrl_m10	: (sig=; e-value=1)	RC:

[ discovered words: text ]
[ assembly: text sig matrices ]
[ matrices: tab format transfac format ]

oligos_7nt_test_vs_ctrl

oligos_7nt_test_vs_ctrl_m1	assembly: attgggct (sig=5.36; e-value=4.4e-06)	RC: agcccaat
oligos_7nt_test_vs_ctrl_m2	assembly: agcccat (sig=0.13; e-value=0.74)	RC: atgggct
oligos_7nt_test_vs_ctrl_m3	: (sig=; e-value=1)	RC:
oligos_7nt_test_vs_ctrl_m4	: (sig=; e-value=1)	RC:
oligos_7nt_test_vs_ctrl_m5	: (sig=; e-value=1)	RC:
oligos_7nt_test_vs_ctrl_m6	: (sig=; e-value=1)	RC:
oligos_7nt_test_vs_ctrl_m7	: (sig=; e-value=1)	RC:
oligos_7nt_test_vs_ctrl_m8	: (sig=; e-value=1)	RC:
oligos_7nt_test_vs_ctrl_m9	: (sig=; e-value=1)	RC:
oligos_7nt_test_vs_ctrl_m10	: (sig=; e-value=1)	RC:

[ discovered words: text ]
[ assembly: text sig matrices ]
[ matrices: tab format transfac format ]

oligos_8nt_test_vs_ctrl

oligos_8nt_test_vs_ctrl_m1	assembly: agcccaatt (sig=3.61; e-value=0.00025)	RC: aattgggct
oligos_8nt_test_vs_ctrl_m2	assembly: gggcggac (sig=0.29; e-value=0.51)	RC: gtccgccc
oligos_8nt_test_vs_ctrl_m3	: (sig=; e-value=1)	RC:
oligos_8nt_test_vs_ctrl_m4	: (sig=; e-value=1)	RC:
oligos_8nt_test_vs_ctrl_m5	: (sig=; e-value=1)	RC:
oligos_8nt_test_vs_ctrl_m6	: (sig=; e-value=1)	RC:
oligos_8nt_test_vs_ctrl_m7	: (sig=; e-value=1)	RC:
oligos_8nt_test_vs_ctrl_m8	: (sig=; e-value=1)	RC:
oligos_8nt_test_vs_ctrl_m9	: (sig=; e-value=1)	RC:
oligos_8nt_test_vs_ctrl_m10	: (sig=; e-value=1)	RC:

[ discovered words: text ]
[ assembly: text sig matrices ]
[ matrices: tab format transfac format ]

dyads_test_vs_ctrl

dyads_test_vs_ctrl_m1	assembly: agcccaat (sig=3.63; e-value=0.00023)	RC: attgggct
dyads_test_vs_ctrl_m2	assembly: gaannnnnnnnnttc (sig=3.63; e-value=0.00023)	RC: gaannnnnnnnnttc
dyads_test_vs_ctrl_m3	: (sig=; e-value=1)	RC:
dyads_test_vs_ctrl_m4	: (sig=; e-value=1)	RC:
dyads_test_vs_ctrl_m5	: (sig=; e-value=1)	RC:
dyads_test_vs_ctrl_m6	: (sig=; e-value=1)	RC:
dyads_test_vs_ctrl_m7	: (sig=; e-value=1)	RC:
dyads_test_vs_ctrl_m8	: (sig=; e-value=1)	RC:
dyads_test_vs_ctrl_m9	: (sig=; e-value=1)	RC:
dyads_test_vs_ctrl_m10	: (sig=; e-value=1)	RC:

[ discovered words: text ]
[ assembly: text sig matrices ]
[ matrices: tab format transfac format ]

Motif discovery

Motif 1 oligos_6nt_test_vs_ctrl_m1

k-mer sig=4.52; evalue=3e-05

bsaGCCCAatym

KRATTGGGCTSV

[ 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 bsaGCCCAatym

TZP2:EEAD0062:EEADannot TZP2/EEAD0062/EEADannot R 12 0.8000 0.913 0.730 NA NA

ASR1:MA1812.1:JASPAR ASR1/MA1812.1/JASPAR D 12 0.8000 0.859 0.688 NA NA

ASR1:MA1812.2:JASPAR ASR1/MA1812.2/JASPAR D 9 0.7500 0.865 0.649 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: 22 (19.30%)
Max nb of predicted sites per peak: 3
(gene-Lalb_Chr12g0195891)
Mean nb of predicted sites per peak: 1.36

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

Motif 2 oligos_6nt_test_vs_ctrl_m2

k-mer sig=4.52; evalue=3e-05

bvGGCCCaatks

SMATTGGGCCBV

[ 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 bvGGCCCaatks

ASR1:MA1812.1:JASPAR ASR1/MA1812.1/JASPAR D 12 0.8000 0.959 0.767 NA NA

TZP2:EEAD0062:EEADannot TZP2/EEAD0062/EEADannot R 12 0.8000 0.950 0.760 NA NA

ASR1:MA1812.2:JASPAR ASR1/MA1812.2/JASPAR D 9 0.7500 0.963 0.722 NA NA

Total matches= 23 (20 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 (22.81%)
Max nb of predicted sites per peak: 4
(gene-Lalb_Chr23g0268801)
Mean nb of predicted sites per peak: 1.46

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

Motif 3 oligos_6nt_test_vs_ctrl_m3

k-mer sig=3.51; evalue=0.00031

awaTGGGCtbs

SVAGCCCATWT

[ 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 awaTGGGCtbs

TZP2:EEAD0062:EEADannot TZP2/EEAD0062/EEADannot D 11 0.7333 0.928 0.681 NA NA

ASR1:MA1812.2:JASPAR ASR1/MA1812.2/JASPAR R 9 0.8182 0.797 0.652 NA NA

ASR1:MA1812.1:JASPAR ASR1/MA1812.1/JASPAR R 11 0.7333 0.792 0.581 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: 23 (20.18%)
Max nb of predicted sites per peak: 3
(gene-Lalb_Chr12g0195891)
Mean nb of predicted sites per peak: 1.43

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

Motif 4 oligos_6nt_test_vs_ctrl_m4

k-mer sig=0.28; evalue=0.52

ksaAAaCGyh

DRCGTTTTSM

[ 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 ksaAAaCGyh

DOF2.2:MA1272.2:JASPAR DOF2.2/MA1272.2/JASPAR D 10 1.0000 0.766 0.766 NA NA

CDF5:UN0360.1:JASPAR CDF5/UN0360.1/JASPAR D 10 1.0000 0.762 0.762 NA NA

DOF4.7:M0652_1.02:CISBP DOF4.7/M0652_1.02/CISBP D 9 0.9000 0.798 0.718 NA NA

Total matches= 88 (85 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: 21 (18.42%)
Max nb of predicted sites per peak: 2
(gene-Lalb_Chr16g0385131)
Mean nb of predicted sites per peak: 1.10

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

Motif 5 oligos_6nt_test_vs_ctrl_m5

k-mer sig=0.14; evalue=0.72

wmATCTTAsy

RSTAAGATKW

[ 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 wmATCTTAsy

fgenesh1_pg.C_Chr_07.0001000042:M0808_1.02:CISBP fgenesh1_pg.C_Chr_07.0001000042/M0808_1.02/CISBP D 10 1.0000 0.725 0.725 NA NA

TOE2:TOE2_3:ArabidopsisPBM TOE2/TOE2_3/ArabidopsisPBM D 10 1.0000 0.714 0.714 NA NA

TOE1:TOE1_3:ArabidopsisPBM TOE1/TOE1_3/ArabidopsisPBM D 10 1.0000 0.712 0.712 NA NA

Total matches= 85 (82 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: 21 (18.42%)
Max nb of predicted sites per peak: 3
(gene-Lalb_Chr20g0111721)
Mean nb of predicted sites per peak: 1.24

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

Motif 6 oligos_7nt_test_vs_ctrl_m1

k-mer sig=5.36; evalue=4.4e-06

kraTTGGGCtss

SSAGCCCAATYM

[ 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 kraTTGGGCtss

TZP2:EEAD0062:EEADannot TZP2/EEAD0062/EEADannot D 12 0.8000 0.863 0.690 NA NA

ASR1:MA1812.1:JASPAR ASR1/MA1812.1/JASPAR R 12 0.8000 0.825 0.660 NA NA

ASR1:MA1812.2:JASPAR ASR1/MA1812.2/JASPAR R 9 0.7500 0.831 0.623 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: 20 (17.54%)
Max nb of predicted sites per peak: 3
(gene-Lalb_Chr12g0195891)
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_m2

k-mer sig=0.13; evalue=0.74

svaGCCCAtwt

AWATGGGCTBS

[ 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 svaGCCCAtwt

TZP2:EEAD0062:EEADannot TZP2/EEAD0062/EEADannot R 11 0.7333 0.929 0.681 NA NA

ASR1:MA1812.2:JASPAR ASR1/MA1812.2/JASPAR D 9 0.8182 0.799 0.654 NA NA

ASR1:MA1812.1:JASPAR ASR1/MA1812.1/JASPAR D 11 0.7333 0.794 0.582 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: 23 (20.18%)
Max nb of predicted sites per peak: 3
(gene-Lalb_Chr12g0195891)
Mean nb of predicted sites per peak: 1.43

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

Motif 8 oligos_8nt_test_vs_ctrl_m1

k-mer sig=3.61; evalue=0.00025

bsaGCCCAattas

STAATTGGGCTSV

[ 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 bsaGCCCAattas

TZP2:EEAD0062:EEADannot TZP2/EEAD0062/EEADannot R 13 0.8667 0.867 0.751 NA NA

ASR1:MA1812.1:JASPAR ASR1/MA1812.1/JASPAR D 13 0.8667 0.822 0.713 NA NA

ASR1:MA1812.2:JASPAR ASR1/MA1812.2/JASPAR D 9 0.6923 0.837 0.580 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: 21 (18.42%)
Max nb of predicted sites per peak: 4
(gene-Lalb_Chr12g0195891)
Mean nb of predicted sites per peak: 1.29

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

Motif 9 oligos_8nt_test_vs_ctrl_m2

k-mer sig=0.29; evalue=0.51

wbGGGCGGrCvr

YBGYCCGCCCVW

[ 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 wbGGGCGGrCvr

AT4G00238:M1619_1.02:CISBP AT4G00238/M1619_1.02/CISBP R 10 0.8333 0.739 0.616 NA NA

ORA47:M0014_1.02:CISBP ORA47/M0014_1.02/CISBP R 9 0.7500 0.716 0.537 NA NA

ERF018:MA1048.1:JASPAR ERF018/MA1048.1/JASPAR R 8 0.6667 0.763 0.509 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: 13 (11.40%)
Max nb of predicted sites per peak: 2
(gene-Lalb_Chr25g0283681)
Mean nb of predicted sites per peak: 1.46

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

Motif 10 dyads_test_vs_ctrl_m1

k-mer sig=3.63; evalue=0.00023

ssaGCCCAatya

TRATTGGGCTSS

[ 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 ssaGCCCAatya

TZP2:EEAD0062:EEADannot TZP2/EEAD0062/EEADannot R 12 0.8000 0.862 0.690 NA NA

ASR1:MA1812.1:JASPAR ASR1/MA1812.1/JASPAR D 12 0.8000 0.816 0.653 NA NA

ASR1:MA1812.2:JASPAR ASR1/MA1812.2/JASPAR D 9 0.7500 0.821 0.616 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: 21 (18.42%)
Max nb of predicted sites per peak: 3
(gene-Lalb_Chr12g0195891)
Mean nb of predicted sites per peak: 1.24

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

Motif 11 dyads_test_vs_ctrl_m2

k-mer sig=3.63; evalue=0.00023

wmGraKbSSrmthyttCsw

WSGAARDAKYSSVMTYCKW

[ 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 wmGraKbSSrmthyttCsw

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: 13 (11.40%)
Max nb of predicted sites per peak: 2
(gene-Lalb_Chr09g0334171)
Mean nb of predicted sites per peak: 1.23

[ 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_Up4_W3 (26/05/2025 03:57)

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 wmGraKbSSrmthyttCsw

Total matches= 0

Motif locations (sites)

Motif comparisons

Logs and parameter files

Publications

Results

RSAT - peak-motifs result

Analysis: MEsalmon4_Up4_W3 (26/05/2025 03:57)

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 wmGraKbSSrmthyttCsw 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 wmGraKbSSrmthyttCsw

Total matches= 0