peak-motifs Pensub

Sequence composition (test sequences)

Nb of peaks: 40
Total seq. size: 36 kb
Min length: 254 bp
Mean length: 907.425 bp
Max length: 1000 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_6nt_mkv2_m1

k-mer sig=12.29; evalue=5.1e-13

tyaGGCTAAAwk

MWTTTAGCCTRA

[ 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: 1 (2.50%)
Max nb of predicted sites per peak: 63
(Pensub)
Mean nb of predicted sites per peak: 63.00

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

Motif 2 oligos_6nt_mkv2_m2

k-mer sig=8.74; evalue=1.8e-09

kyttCCCCGCatw

WATGCGGGGAARM

[ 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: 1 (2.50%)
Max nb of predicted sites per peak: 49
(Pensub)
Mean nb of predicted sites per peak: 49.00

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

Motif 3 oligos_6nt_mkv2_m3

k-mer sig=0.97; evalue=0.11

kkCTTGGCmr

YKGCCAAGMM

[ 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: 1 (2.50%)
Max nb of predicted sites per peak: 44
(Pensub)
Mean nb of predicted sites per peak: 44.00

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

Motif 4 oligos_6nt_mkv2_m4

k-mer sig=0.82; evalue=0.15

gbsGGGTAAAdk

MHTTTACCCSVC

[ 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: 1 (2.50%)
Max nb of predicted sites per peak: 29
(Pensub)
Mean nb of predicted sites per peak: 29.00

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

Motif 5 oligos_6nt_mkv2_m5

k-mer sig=0.39; evalue=0.41

ccCTCCACkc

GMGTGGAGGG

[ 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: 1 (2.50%)
Max nb of predicted sites per peak: 29
(Pensub)
Mean nb of predicted sites per peak: 29.00

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

Motif 6 oligos_7nt_mkv2_m1

k-mer sig=9.32; evalue=4.8e-10

mwTTAGSCTAAAtss

SSATTTAGSCTAAWK

[ 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: 1 (2.50%)
Max nb of predicted sites per peak: 62
(Pensub)
Mean nb of predicted sites per peak: 62.00

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

Motif 7 oligos_7nt_mkv2_m2

k-mer sig=7.24; evalue=5.8e-08

kbttCCCCGCAyw

WRTGCGGGGAAVM

[ 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: 1 (2.50%)
Max nb of predicted sites per peak: 46
(Pensub)
Mean nb of predicted sites per peak: 46.00

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

Motif 8 oligos_7nt_mkv2_m3

k-mer sig=3.19; evalue=0.00065

byCAGGGTCkak

MTMGACCCTGRV

[ 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: 1 (2.50%)
Max nb of predicted sites per peak: 24
(Pensub)
Mean nb of predicted sites per peak: 24.00

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

Motif 9 oligos_7nt_mkv2_m4

k-mer sig=2.87; evalue=0.0013

kbCGGGTAAAwd

HWTTTACCCGVM

[ 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: 1 (2.50%)
Max nb of predicted sites per peak: 41
(Pensub)
Mean nb of predicted sites per peak: 41.00

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

Motif 10 oligos_7nt_mkv2_m5

k-mer sig=9.32; evalue=4.8e-10

swwTTAGCCTAAwg

CWTTAGGCTAAWWS

[ 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: 1 (2.50%)
Max nb of predicted sites per peak: 54
(Pensub)
Mean nb of predicted sites per peak: 54.00

[ 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: Pensub (30/03/2026 16:47)

Command

Sequence composition

Discovered motifs (by algorithm)

Discovered motifs (with motif comparison)

Motif locations (sites)

Motif comparisons

Logs and parameter files

Publications

Results