peak-motifs top30

Sequence composition (test sequences)

Nb of peaks: 305
Total seq. size: 551 kb
Min length: 413 bp
Mean length: 1808.18 bp
Max length: 2000 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) ]

Sequence composition (ctrl sequences)

Nb of peaks: 305
Total seq. size: 551 kb
Min length: 413 bp
Mean length: 1808.18 bp
Max length: 2000 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_test_vs_ctrl_m1

k-mer sig=25.31; evalue=4.9e-26

aaaCaaaCaaamaaam

KTTTKTTTGTTTGTTT

[ 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: 200 (65.57%)
Max nb of predicted sites per peak: 18
(chr_022_205_634752_638420)
Mean nb of predicted sites per peak: 3.21

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

Motif 2 oligos_6nt_test_vs_ctrl_m2

k-mer sig=24.91; evalue=1.2e-25

caatCaatCaaaaaaam

KTTTTTTTGATTGATTG

[ 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: 186 (60.98%)
Max nb of predicted sites per peak: 13
(chr_025_212_93362_96519)
Mean nb of predicted sites per peak: 2.61

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

Motif 3 oligos_6nt_test_vs_ctrl_m3

k-mer sig=16.59; evalue=2.6e-17

ctaGCtaGCtarSta

TASYTAGCTAGCTAG

[ 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: 160 (52.46%)
Max nb of predicted sites per peak: 22
(chr_099_227_540385_543020)
Mean nb of predicted sites per peak: 2.99

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

Motif 4 oligos_6nt_test_vs_ctrl_m4

k-mer sig=16.05; evalue=8.9e-17

rrwGaGtGaatGart

AYTCATTCACTCWYY

[ 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: 166 (54.43%)
Max nb of predicted sites per peak: 11
(chr_180_249_788730_792524)
Mean nb of predicted sites per peak: 2.66

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

Motif 5 oligos_6nt_test_vs_ctrl_m5

k-mer sig=25.31; evalue=4.9e-26

ytwGYttGYttGyttGyttGy

RCAARCAARCAARCAARCWAR

[ 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: 172 (56.39%)
Max nb of predicted sites per peak: 26
(chr_137_9_8572_12086)
Mean nb of predicted sites per peak: 4.76

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

Motif 6 oligos_7nt_test_vs_ctrl_m1

k-mer sig=24.58; evalue=2.6e-25

caaaCaaaCaaamaaam

KTTTKTTTGTTTGTTTG

[ 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: 196 (64.26%)
Max nb of predicted sites per peak: 23
(chr_022_205_634752_638420)
Mean nb of predicted sites per peak: 3.60

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

Motif 7 oligos_7nt_test_vs_ctrl_m2

k-mer sig=18.34; evalue=4.6e-19

rytaGytaGCtaGCtarCtary

RYTAGYTAGCTAGCTARCTARY

[ 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: 123 (40.33%)
Max nb of predicted sites per peak: 51
(chr_099_227_540385_543020)
Mean nb of predicted sites per peak: 5.98

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

Motif 8 oligos_7nt_test_vs_ctrl_m3

k-mer sig=16.21; evalue=6.2e-17

agCtaGCaaGCtarCaarC

GYTTGYTAGCTTGCTAGCT

[ 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: 184 (60.33%)
Max nb of predicted sites per peak: 24
(chr_137_9_8572_12086)
Mean nb of predicted sites per peak: 4.46

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

Motif 9 oligos_7nt_test_vs_ctrl_m4

k-mer sig=15.32; evalue=4.8e-16

tgaGtGaatGaatg

CATTCATTCACTCA

[ 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: 147 (48.20%)
Max nb of predicted sites per peak: 9
(chr_137_9_8572_12086)
Mean nb of predicted sites per peak: 2.19

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

Motif 10 oligos_7nt_test_vs_ctrl_m5

k-mer sig=14.12; evalue=7.6e-15

maaaaatCaatCaaaaaaam

KTTTTTTTGATTGATTTTTK

[ 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: 193 (63.28%)
Max nb of predicted sites per peak: 13
(chr_025_212_93362_96519)
Mean nb of predicted sites per peak: 2.51

[ 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: top30 (18/05/2026 12:23)

Command

Sequence composition

Discovered motifs (by algorithm)

Discovered motifs (with motif comparison)

Motif locations (sites)

Motif comparisons

Logs and parameter files

Publications

Results