peak-motifs MEsteelblue_Up3

Motif discovery

Motif 1 oligos_6nt_test_vs_ctrl_m1

k-mer sig=4.64; evalue=2.3e-05

rvaACGTGCmw

WKGCACGTTBY

[ 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 rvaACGTGCmw

LOC_Os02g49560:M0327_1.02:CISBP LOC_Os02g49560/M0327_1.02/CISBP R 11 1.0000 0.728 0.728 NA NA

0300010311:M0363_1.02:CISBP 0300010311/M0363_1.02/CISBP D 11 1.0000 0.718 0.718 NA NA

BEE2:M0161_1.02:CISBP BEE2/M0161_1.02/CISBP R 10 0.9091 0.790 0.718 NA NA

Total matches= 156 (153 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 (23.31%)
Max nb of predicted sites per peak: 2
(gene-Lalb_Chr13g0301171)
Mean nb of predicted sites per peak: 1.10

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

Motif 2 oligos_6nt_test_vs_ctrl_m2

k-mer sig=4.64; evalue=2.3e-05

rraaCGtGGsrr

YYSCCACGTTYY

[ 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 rraaCGtGGsrr

GBF2:MA1672.1:JASPAR GBF2/MA1672.1/JASPAR D 12 0.9231 0.855 0.789 NA NA

LOC_Os02g49560:M0327_1.02:CISBP LOC_Os02g49560/M0327_1.02/CISBP R 11 0.9167 0.859 0.787 NA NA

0300010311:M0363_1.02:CISBP 0300010311/M0363_1.02/CISBP D 11 0.9167 0.855 0.784 NA NA

Total matches= 274 (271 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 (27.07%)
Max nb of predicted sites per peak: 3
(gene-Lalb_Chr20g0113931)
Mean nb of predicted sites per peak: 1.31

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

Motif 3 oligos_6nt_test_vs_ctrl_m3

k-mer sig=1.78; evalue=0.017

wkGCaCGtCry

RYGACGTGCMW

[ 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 wkGCaCGtCry

0300010311:M0363_1.02:CISBP 0300010311/M0363_1.02/CISBP R 11 1.0000 0.827 0.827 NA NA

LOC_Os02g49560:M0327_1.02:CISBP LOC_Os02g49560/M0327_1.02/CISBP D 11 1.0000 0.767 0.767 NA NA

HYH:MA1425.1:JASPAR HYH/MA1425.1/JASPAR R 11 0.9167 0.835 0.765 NA NA

Total matches= 254 (251 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: 33 (24.81%)
Max nb of predicted sites per peak: 2
(gene-Lalb_Chr08g0243501)
Mean nb of predicted sites per peak: 1.09

[ 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

ysATTCTChm

KDGAGAATSR

[ 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 ysATTCTChm

AT2G38300.DAP:M0397:AthalianaCistrome AT2G38300.DAP/M0397/AthalianaCistrome R 10 0.9091 0.811 0.737 NA NA

AT2G38300:MA1735.1:JASPAR AT2G38300/MA1735.1/JASPAR D 10 0.9091 0.811 0.737 NA NA

ATMYR1:M1341_1.02:CISBP ATMYR1/M1341_1.02/CISBP R 10 1.0000 0.715 0.715 NA NA

Total matches= 51 (48 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: 43 (32.33%)
Max nb of predicted sites per peak: 4
(gene-Lalb_Chr05g0214681)
Mean nb of predicted sites per peak: 1.47

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

Motif 5 oligos_6nt_test_vs_ctrl_m5

k-mer sig=0.05; evalue=0.89

ssAATATTsg

CSAATATTSS

[ 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 ssAATATTsg

KAN:M1340_1.02:CISBP KAN/M1340_1.02/CISBP D 10 1.0000 0.841 0.841 NA NA

PHL11:MA1163.3:JASPAR PHL11/MA1163.3/JASPAR D 10 1.0000 0.840 0.840 NA NA

KAN4:KAN4:ArabidopsisPBM KAN4/KAN4/ArabidopsisPBM R 10 1.0000 0.820 0.820 NA NA

Total matches= 94 (91 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: 3 (2.26%)
Max nb of predicted sites per peak: 2
(gene-Lalb_Chr20g0118401)
Mean nb of predicted sites per peak: 2.00

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

Motif 6 oligos_7nt_test_vs_ctrl_m1

k-mer sig=0.96; evalue=0.11

rkGaCGTGCaw

WTGCACGTCMY

[ 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 rkGaCGTGCaw

0300010311:M0363_1.02:CISBP 0300010311/M0363_1.02/CISBP D 11 1.0000 0.824 0.824 NA NA

HYH:MA1425.1:JASPAR HYH/MA1425.1/JASPAR D 11 0.9167 0.831 0.762 NA NA

bZIP1_1:EEAD0092:EEADannot bZIP1_1/EEAD0092/EEADannot D 11 1.0000 0.761 0.761 NA NA

Total matches= 232 (229 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: 33 (24.81%)
Max nb of predicted sites per peak: 2
(gene-Lalb_Chr08g0243501)
Mean nb of predicted sites per peak: 1.12

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

Motif 7 oligos_7nt_test_vs_ctrl_m2

k-mer sig=0.77; evalue=0.17

kyaGCCACGwk

MWCGTGGCTRM

[ 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 kyaGCCACGwk

LEC1-A:UN0422.1:JASPAR LEC1-A/UN0422.1/JASPAR R 11 1.0000 0.821 0.821 NA NA

GLYMA-13G317000:MA1811.1:JASPAR GLYMA-13G317000/MA1811.1/JASPAR R 11 1.0000 0.809 0.809 NA NA

NFYC2:UN0690.1:JASPAR NFYC2/UN0690.1/JASPAR R 11 1.0000 0.807 0.807 NA NA

Total matches= 163 (160 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: 30 (22.56%)
Max nb of predicted sites per peak: 3
(gene-Lalb_Chr20g0113931)
Mean nb of predicted sites per peak: 1.10

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

Motif 8 oligos_7nt_test_vs_ctrl_m3

k-mer sig=0.46; evalue=0.35

rvaACGTGGgd

HCCCACGTTBY

[ 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 rvaACGTGGgd

LOC_Os02g49560:M0327_1.02:CISBP LOC_Os02g49560/M0327_1.02/CISBP R 11 1.0000 0.809 0.809 NA NA

0300010311:M0363_1.02:CISBP 0300010311/M0363_1.02/CISBP D 11 1.0000 0.793 0.793 NA NA

bZIP11:bZIP10_1:EEAD0108:EEADannot bZIP11:bZIP10_1/EEAD0108/EEADannot R 11 1.0000 0.771 0.771 NA NA

Total matches= 189 (186 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: 27 (20.30%)
Max nb of predicted sites per peak: 2
(gene-Lalb_Chr16g0378471)
Mean nb of predicted sites per peak: 1.15

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

Motif 9 oligos_7nt_test_vs_ctrl_m4

k-mer sig=0.31; evalue=0.49

kkaGAAtCGrk

MYCGATTCTMM

[ 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 kkaGAAtCGrk

GLK1:GLK1_2:ArabidopsisPBM GLK1/GLK1_2/ArabidopsisPBM D 10 0.9091 0.779 0.708 NA NA

AT1G68670:M1321_1.02:CISBP AT1G68670/M1321_1.02/CISBP D 10 0.9091 0.746 0.678 NA NA

AT3G24120:M1328_1.02:CISBP AT3G24120/M1328_1.02/CISBP R 10 0.9091 0.729 0.663 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: 18 (13.53%)
Max nb of predicted sites per peak: 2
(gene-Lalb_Chr20g0113931)
Mean nb of predicted sites per peak: 1.11

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

Motif 10 oligos_7nt_test_vs_ctrl_m5

k-mer sig=0.28; evalue=0.52

dwGAATATTCww

WWGAATATTCWH

[ 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 dwGAATATTCww

AT2G03500:MA1167.1:JASPAR AT2G03500/MA1167.1/JASPAR D 11 0.9167 0.938 0.860 NA NA

PHL11:MA1163.2:JASPAR PHL11/MA1163.2/JASPAR R 12 0.8571 0.955 0.819 NA NA

AT1G25550:MA1386.1:JASPAR AT1G25550/MA1386.1/JASPAR R 11 0.9167 0.873 0.800 NA NA

Total matches= 97 (94 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: 7 (5.26%)
Max nb of predicted sites per peak: 2
(gene-Lalb_Chr20g0118401)
Mean nb of predicted sites per peak: 1.57

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

Motif 11 dyads_test_vs_ctrl_m1

k-mer sig=3.82; evalue=0.00015

rvaACGTGCmw

WKGCACGTTBY

[ 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 rvaACGTGCmw

LOC_Os02g49560:M0327_1.02:CISBP LOC_Os02g49560/M0327_1.02/CISBP R 11 1.0000 0.730 0.730 NA NA

0300010311:M0363_1.02:CISBP 0300010311/M0363_1.02/CISBP D 11 1.0000 0.719 0.719 NA NA

BEE2:M0161_1.02:CISBP BEE2/M0161_1.02/CISBP R 10 0.9091 0.789 0.717 NA NA

Total matches= 157 (154 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 (23.31%)
Max nb of predicted sites per peak: 3
(gene-Lalb_Chr13g0301171)
Mean nb of predicted sites per peak: 1.13

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

Motif 12 dyads_test_vs_ctrl_m2

k-mer sig=3.82; evalue=0.00015

rbGttmaCGkKgbctaacs

SGTTAGVCMMCGTKAACVY

[ 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 rbGttmaCGkKgbctaacs

GT-3a:MA1207.2:JASPAR GT-3a/MA1207.2/JASPAR D 14 0.7368 0.777 0.572 NA NA

BZR1:MA0550.1:JASPAR BZR1/MA0550.1/JASPAR R 14 0.7368 0.728 0.537 NA NA

BHLH74:MA1360.2:JASPAR BHLH74/MA1360.2/JASPAR D 14 0.7368 0.705 0.519 NA NA

Total matches= 49 (46 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: 12 (9.02%)
Max nb of predicted sites per peak: 2
(gene-Lalb_Chr20g0118401)
Mean nb of predicted sites per peak: 1.17

[ 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: MEsteelblue_Up3_W2 (26/05/2025 08:57)

Command

Sequence composition

Discovered motifs (by algorithm)

Discovered motifs (with motif comparison)

Motif locations (sites)

Motif comparisons

Logs and parameter files

Publications

Results