peak-motifs MElightyellow

Motif discovery

Motif 1 oligos_6nt_test_vs_ctrl_m1

k-mer sig=2.96; evalue=0.0011

rwGGGACAarr

YYTTGTCCCWY

[ 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 rwGGGACAarr

ID1:ID1:Athamap ID1/ID1/Athamap R 10 0.8333 0.844 0.703 NA NA

ENY:UN0398.2:JASPAR ENY/UN0398.2/JASPAR R 11 0.9167 0.705 0.646 NA NA

IDD1:MA2396.1:JASPAR IDD1/MA2396.1/JASPAR R 11 0.9167 0.705 0.646 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: 34 (9.04%)
Max nb of predicted sites per peak: 2
(gene-Lalb_Chr02g0145961)
Mean nb of predicted sites per peak: 1.03

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

Motif 2 oligos_6nt_test_vs_ctrl_m2

k-mer sig=0.71; evalue=0.19

acACACaCrc

GYGTGTGTGT

[ 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 acACACaCrc

fgenesh1_pg.C_Chr_14.0001000151:M0253_1.02:CISBP fgenesh1_pg.C_Chr_14.0001000151/M0253_1.02/CISBP R 9 0.8182 0.730 0.597 NA NA

ANAC092:UP00572A_1:UniPROBE ANAC092/UP00572A_1/UniPROBE D 10 0.7692 0.709 0.545 NA NA

CRL1BOX:EEAD0081:EEADannot CRL1BOX/EEAD0081/EEADannot D 6 0.6000 0.855 0.513 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: 84 (22.34%)
Max nb of predicted sites per peak: 5
(gene-Lalb_Chr10g0102021)
Mean nb of predicted sites per peak: 1.48

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

Motif 3 oligos_6nt_test_vs_ctrl_m3

k-mer sig=0.55; evalue=0.28

rvATAAAGrg

CYCTTTATBY

[ 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 rvATAAAGrg

DOF2.2:MA1272.2:JASPAR DOF2.2/MA1272.2/JASPAR D 10 1.0000 0.776 0.776 NA NA

CDF5:UN0360.1:JASPAR CDF5/UN0360.1/JASPAR D 10 1.0000 0.775 0.775 NA NA

AT1G47655:MA1275.1:JASPAR AT1G47655/MA1275.1/JASPAR D 10 0.9091 0.819 0.745 NA NA

Total matches= 92 (89 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: 86 (22.87%)
Max nb of predicted sites per peak: 3
(gene-Lalb_Chr22g0354591)
Mean nb of predicted sites per peak: 1.17

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

Motif 4 oligos_6nt_test_vs_ctrl_m4

k-mer sig=0.43; evalue=0.37

mrAAAAAGrd

HYCTTTTTYK

[ 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 mrAAAAAGrd

CDF5:UN0360.1:JASPAR CDF5/UN0360.1/JASPAR D 10 1.0000 0.992 0.992 NA NA

DOF2.2:MA1272.2:JASPAR DOF2.2/MA1272.2/JASPAR D 10 1.0000 0.991 0.991 NA NA

TAGL1:UN0426.2:JASPAR TAGL1/UN0426.2/JASPAR D 9 0.9000 0.910 0.819 NA NA

Total matches= 126 (123 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: 48 (12.77%)
Max nb of predicted sites per peak: 2
(gene-Lalb_Chr07g0177981)
Mean nb of predicted sites per peak: 1.04

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

Motif 5 oligos_6nt_test_vs_ctrl_m5

k-mer sig=0.41; evalue=0.39

cyCACTCAct

AGTGAGTGRG

[ 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 cyCACTCAct

AZF1:MA2372.1:JASPAR AZF1/MA2372.1/JASPAR D 9 0.9000 0.834 0.751 NA NA

AZF1.ampDAP:M0324:AthalianaCistrome AZF1.ampDAP/M0324/AthalianaCistrome R 9 0.7500 0.834 0.626 NA NA

ATHB-7:MA0954.1:JASPAR ATHB-7/MA0954.1/JASPAR D 9 0.8182 0.723 0.592 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: 90 (23.94%)
Max nb of predicted sites per peak: 4
(gene-Lalb_Chr12g0201271)
Mean nb of predicted sites per peak: 1.19

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

Motif 6 oligos_6nt_test_vs_ctrl_m6

k-mer sig=0.36; evalue=0.44

amCCAAACvm

KBGTTTGGKT

[ 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 amCCAAACvm

MYB93:MA2025.2:JASPAR MYB93/MA2025.2/JASPAR D 8 0.8000 0.936 0.749 NA NA

MYB108:MA2026.2:JASPAR MYB108/MA2026.2/JASPAR D 10 1.0000 0.738 0.738 NA NA

MYB24:M1343_1.02:CISBP MYB24/M1343_1.02/CISBP R 9 0.9000 0.812 0.731 NA NA

Total matches= 57 (54 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: 102 (27.13%)
Max nb of predicted sites per peak: 3
(gene-Lalb_Chr01g0001741)
Mean nb of predicted sites per peak: 1.17

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

Motif 7 oligos_6nt_test_vs_ctrl_m7

k-mer sig=0.12; evalue=0.76

swCTAATAwk

MWTATTAGWS

[ 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 swCTAATAwk

GLYMA-04G093300:UN0418.1:JASPAR GLYMA-04G093300/UN0418.1/JASPAR D 10 1.0000 0.774 0.774 NA NA

Q1T448:M1215_1.02:CISBP Q1T448/M1215_1.02/CISBP R 9 0.8182 0.757 0.619 NA NA

Os02g0706600:M1116_1.02:CISBP Os02g0706600/M1116_1.02/CISBP D 9 0.8182 0.751 0.614 NA NA

Total matches= 37 (34 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 (27.39%)
Max nb of predicted sites per peak: 3
(gene-Lalb_Chr15g0082281)
Mean nb of predicted sites per peak: 1.20

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

Motif 8 oligos_7nt_test_vs_ctrl_m1

k-mer sig=0.50; evalue=0.32

rraGGACAAarr

YYTTTGTCCTYY

[ 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 rraGGACAAarr

MGP:MA1158.2:JASPAR MGP/MA1158.2/JASPAR D 12 0.9231 0.859 0.793 NA NA

JKD:MA1156.2:JASPAR JKD/MA1156.2/JASPAR R 11 0.8462 0.869 0.735 NA NA

ENY:UN0398.2:JASPAR ENY/UN0398.2/JASPAR R 11 0.8462 0.868 0.734 NA NA

Total matches= 41 (38 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: 51 (13.56%)
Max nb of predicted sites per peak: 2
(gene-Lalb_Chr15g0086221)
Mean nb of predicted sites per peak: 1.08

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

Motif 9 oligos_7nt_test_vs_ctrl_m2

k-mer sig=0.27; evalue=0.54

raaCCaaaCmm

KKGTTTGGTTY

[ 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 raaCCaaaCmm

MYB107:UN0366.1:JASPAR MYB107/UN0366.1/JASPAR D 11 0.8462 0.919 0.777 NA NA

MYB49:MA2028.2:JASPAR MYB49/MA2028.2/JASPAR D 11 1.0000 0.759 0.759 NA NA

MYB93:MA2025.1:JASPAR MYB93/MA2025.1/JASPAR D 11 0.7857 0.964 0.758 NA NA

Total matches= 111 (108 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: 68 (18.09%)
Max nb of predicted sites per peak: 2
(gene-Lalb_Chr20g0118131)
Mean nb of predicted sites per peak: 1.12

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

Motif 10 dyads_test_vs_ctrl_m1

k-mer sig=2.15; evalue=0.0071

drGGGACAarr

YYTTGTCCCYH

[ 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 drGGGACAarr

ID1:ID1:Athamap ID1/ID1/Athamap R 10 0.8333 0.852 0.710 NA NA

At1g74840:MA1397.1:JASPAR At1g74840/MA1397.1/JASPAR D 11 1.0000 0.702 0.702 NA NA

ENY:UN0398.2:JASPAR ENY/UN0398.2/JASPAR R 11 0.9167 0.735 0.674 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: 74 (19.68%)
Max nb of predicted sites per peak: 3
(gene-Lalb_Chr11g0074341)
Mean nb of predicted sites per peak: 1.16

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

Motif 11 dyads_test_vs_ctrl_m2

k-mer sig=2.15; evalue=0.0071

rgaaaKGGbmmbgdgyGtGgg

CCCACRCHCVKKVCCMTTTCY

[ 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 rgaaaKGGbmmbgdgyGtGgg

COG1.ampDAP:M0276:AthalianaCistrome COG1.ampDAP/M0276/AthalianaCistrome R 14 0.6364 0.757 0.482 NA NA

At3g45610.ampDAP:M0254:AthalianaCistrome At3g45610.ampDAP/M0254/AthalianaCistrome R 14 0.6364 0.715 0.455 NA NA

dof24.DAP:M0252:AthalianaCistrome dof24.DAP/M0252/AthalianaCistrome R 14 0.6364 0.702 0.447 NA NA

Total matches= 5 (2 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 (19.41%)
Max nb of predicted sites per peak: 3
(gene-Lalb_Chr03g0025101)
Mean nb of predicted sites per peak: 1.12

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

Motif 12 dyads_test_vs_ctrl_m3

k-mer sig=2.15; evalue=0.0071

kkGGabmRkssksrgtGtags

SCTACACYSMSSMYKVTCCMM

[ 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 kkGGabmRkssksrgtGtags

AT5G56840.ampDAP:M0583:AthalianaCistrome AT5G56840.ampDAP/M0583/AthalianaCistrome R 15 0.6818 0.718 0.490 NA NA

At5g47390:MA1398.1:JASPAR At5g47390/MA1398.1/JASPAR R 14 0.6364 0.743 0.473 NA NA

STKL2:UN0410.1:JASPAR STKL2/UN0410.1/JASPAR R 12 0.5455 0.744 0.406 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: 66 (17.55%)
Max nb of predicted sites per peak: 3
(gene-Lalb_Chr15g0089981)
Mean nb of predicted sites per peak: 1.14

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

Motif 13 dyads_test_vs_ctrl_m4

k-mer sig=2.15; evalue=0.0071

bsCCCKkRyssGgkaask

MSTTMCCSSRYMMGGGSV

[ 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 bsCCCKkRyssGgkaask

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: 26 (6.91%)
Max nb of predicted sites per peak: 2
(gene-Lalb_Chr21g0305471)
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: MElightyellow (21/05/2025 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 bsCCCKkRyssGgkaask

Total matches= 0

Motif locations (sites)

Motif comparisons

Logs and parameter files

Publications

Results

RSAT - peak-motifs result

Analysis: MElightyellow (21/05/2025 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 bsCCCKkRyssGgkaask 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 bsCCCKkRyssGgkaask

Total matches= 0