peak-motifs dmrl_glycine

Sequence composition (test sequences)

Nb of peaks: 17
Total seq. size: 12 kb
Min length: 455 bp
Mean length: 686.529 bp
Max length: 701 bp [ seq: converted purged ]
[ lengths: list distrib graph ]

Nucleotide composition profiles

Transition frequencies
Position profiles

[ 1nt: freq transitions ]
[ bg model: Inclusive format ]
[ profile: table html(individual) ]

Dinucleotide composition profiles

Transition frequencies
Position profiles

[ 2nt: freq transitions ]
[ bg model: Inclusive format ]
[ profile: table html(individual) ]

Motif discovery

Motif 1 oligos_6-8nt_m1

k-mer sig=1.02; evalue=0.095

gkCAtGCCkr

YMGGCATGMC

[ k-mers: statistics assemblies ]
[ matrix: tab_format transfac_format ]

Predicted sites on test peaks

Distribution of sites

Nb of predicted sites per peak

Nb peaks with at least one predicted site: 7 (41.18%)
Max nb of predicted sites per peak: 5
(107759548|Nicotiana_tabacum_GCF_000715075.1_ASM71507v2|LOC107759548)
Mean nb of predicted sites per peak: 2.29

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

Motif 2 dyads_m1

k-mer sig=5.12; evalue=7.6e-06

cGGCrtGrrkCrkGCCgt

ACGGCMYGMYYCAYGCCG

[ k-mers: statistics assemblies ]
[ matrix: tab_format transfac_format ]

Predicted sites on test peaks

Distribution of sites

Nb of predicted sites per peak

Nb peaks with at least one predicted site: 12 (70.59%)
Max nb of predicted sites per peak: 5
(107793142|Nicotiana_tabacum_GCF_000715075.1_ASM71507v2|LOC107793142)
Mean nb of predicted sites per peak: 2.58

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

Motif 3 dyads_m2

k-mer sig=3.00; evalue=0.001

aaGATkGaGAaG

CTTCTCMATCTT

[ k-mers: statistics assemblies ]
[ matrix: tab_format transfac_format ]

Predicted sites on test peaks

Distribution of sites

Nb of predicted sites per peak

Nb peaks with at least one predicted site: 15 (88.24%)
Max nb of predicted sites per peak: 4
(HanXRQr2_Chr13g0574181|Helianthus_annuus.HanXRQr2.0-SUNRISE.60|HanXRQr2_Chr13g0574181)
Mean nb of predicted sites per peak: 1.67

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

Motif 4 dyads_m3

k-mer sig=1.08; evalue=0.083

ybCACtcmmmykCACyc

GRGTGMRKKKGAGTGVR

[ k-mers: statistics assemblies ]
[ matrix: tab_format transfac_format ]

Predicted sites on test peaks

Distribution of sites

Nb of predicted sites per peak

Nb peaks with at least one predicted site: 10 (58.82%)
Max nb of predicted sites per peak: 4
(107759548|Nicotiana_tabacum_GCF_000715075.1_ASM71507v2|LOC107759548)
Mean nb of predicted sites per peak: 1.90

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

Motif 5 dyads_m4

k-mer sig=0.86; evalue=0.14

GbCGArvrwbkrwGGCgt

ACGCCWYMVWYBYTCGVC

[ k-mers: statistics assemblies ]
[ matrix: tab_format transfac_format ]

Predicted sites on test peaks

Distribution of sites

Nb of predicted sites per peak

Nb peaks with at least one predicted site: 9 (52.94%)
Max nb of predicted sites per peak: 5
(107761937|Nicotiana_tabacum_GCF_000715075.1_ASM71507v2|LOC107761937)
Mean nb of predicted sites per peak: 2.22

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

Motif 6 dyads_m5

k-mer sig=0.71; evalue=0.19

ttCCAatsyCAAsb

VSTTGRSATTGGAA

[ k-mers: statistics assemblies ]
[ matrix: tab_format transfac_format ]

Predicted sites on test peaks

Distribution of sites

Nb of predicted sites per peak

Nb peaks with at least one predicted site: 10 (58.82%)
Max nb of predicted sites per peak: 4
(MELO3C011439.2|Cucumis_melo.Melonv4.60|MELO3C011439.2)
Mean nb of predicted sites per peak: 2.10

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

Motif 7 dyads_m6

k-mer sig=0.67; evalue=0.21

rkAaGakgkaGaaGr

YCTTCTMCMTCTTMY

[ k-mers: statistics assemblies ]
[ matrix: tab_format transfac_format ]

Predicted sites on test peaks

Distribution of sites

Nb of predicted sites per peak

Nb peaks with at least one predicted site: 14 (82.35%)
Max nb of predicted sites per peak: 4
(HanXRQr2_Chr13g0574181|Helianthus_annuus.HanXRQr2.0-SUNRISE.60|HanXRQr2_Chr13g0574181)
Mean nb of predicted sites per peak: 2.00

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

Motif 8 dyads_m7

k-mer sig=0.63; evalue=0.23

kkACGaGGars

SYTCCTCGTMM

[ k-mers: statistics assemblies ]
[ matrix: tab_format transfac_format ]

Predicted sites on test peaks

Distribution of sites

Nb of predicted sites per peak

Nb peaks with at least one predicted site: 12 (70.59%)
Max nb of predicted sites per peak: 4
(gene-LSAT_8X33320|Lactuca_sativa.Lsat_Salinas_v7.60|gene-LSAT_8X33320)
Mean nb of predicted sites per peak: 2.00

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

Motif 9 dyads_m8

k-mer sig=0.34; evalue=0.46

wtTTAktkkwdgwraTAArw

WYTTATYWCHWMMAMTAAAW

[ k-mers: statistics assemblies ]
[ matrix: tab_format transfac_format ]

Predicted sites on test peaks

Distribution of sites

Nb of predicted sites per peak

Nb peaks with at least one predicted site: 10 (58.82%)
Max nb of predicted sites per peak: 5
(gene25542|Medicago_truncatula.MtrunA17r50ANR.60|gene25542)
Mean nb of predicted sites per peak: 2.10

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

Motif 10 dyads_m9

k-mer sig=0.27; evalue=0.54

wtTAAaATAta

TATATTTTAAW

[ k-mers: statistics assemblies ]
[ matrix: tab_format transfac_format ]

Predicted sites on test peaks

Distribution of sites

Nb of predicted sites per peak

Nb peaks with at least one predicted site: 12 (70.59%)
Max nb of predicted sites per peak: 3
(MELO3C011439.2|Cucumis_melo.Melonv4.60|MELO3C011439.2)
Mean nb of predicted sites per peak: 1.42

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

Motif 11 dyads_m10

k-mer sig=0.22; evalue=0.6

kkACGvsrdrgwkGmkyGsbskGTCCs

SGGACMSVSCRMKCMWCYHYSBCGTMM

[ k-mers: statistics assemblies ]
[ matrix: tab_format transfac_format ]

Predicted sites on test peaks

Distribution of sites

Nb of predicted sites per peak

Nb peaks with at least one predicted site: 7 (41.18%)
Max nb of predicted sites per peak: 4
(107761937|Nicotiana_tabacum_GCF_000715075.1_ASM71507v2|LOC107761937)
Mean nb of predicted sites per peak: 2.00

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

Predicted sites on test peaks (all motifs)

[tab]
[bed]

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) ]

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

Thomas-Chollier M, Herrmann C, Defrance M, Sand O, Thieffry D, van Helden J. (2012). RSAT peak-motifs: motif analysis in full-size ChIP-seq datasets. Nucleic Acids Res 40(4): e31.
Thomas-Chollier M, Darbo E, Herrmann C, Defrance M, Thieffry D, van Helden J. (2012). A complete workflow for the analysis of full-size ChIP-seq (and similar) data sets using peak-motifs. Nat Protoc 7(8): 1551-1568.

RSAT - peak-motifs result

Analysis: dmrl_glycine_up2 (29/05/2026 16:26)

Command

Sequence composition

Discovered motifs (by algorithm)

Discovered motifs (with motif comparison)

Motif locations (sites)

Motif comparisons

Logs and parameter files

Publications

Results