peak-motifs centers_v_flanks_mar

Sequence composition (test sequences)

Nb of peaks: 3942
Total seq. size: 3938 kb
Min length: 999 bp
Mean length: 999 bp
Max length: 999 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: 7880
Total seq. size: 7659 kb
Min length: 50 bp
Mean length: 971.963 bp
Max length: 999 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=10.75; evalue=1.8e-11

grgGaGGtGGGaGAGGAGGgGagr

YCTCCCCTCCTCTCCCACCTCCYC

[ 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: 1415 (35.90%)
Max nb of predicted sites per peak: 81
(chr21:39312550-39313550)
Mean nb of predicted sites per peak: 2.92

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

Motif 2 oligos_6-8nt_m2

k-mer sig=7.72; evalue=1.9e-08

grGGAGCAGGAGGGGagg

CCTCCCCTCCTGCTCCYC

[ 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: 1212 (30.75%)
Max nb of predicted sites per peak: 33
(chr1:54405850-54406850)
Mean nb of predicted sites per peak: 1.77

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

Motif 3 oligos_6-8nt_m3

k-mer sig=7.59; evalue=2.6e-08

yyCTCTTCCCws

SWGGGAAGAGRR

[ 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: 819 (20.78%)
Max nb of predicted sites per peak: 8
(chr16:89137000-89138000)
Mean nb of predicted sites per peak: 1.16

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

Motif 4 oligos_6-8nt_m4

k-mer sig=10.75; evalue=1.8e-11

ycycCCCtCCTCtGCCyCCtgmvy

RBKCAGGRGGCAGAGGAGGGGRGR

[ 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: 2037 (51.67%)
Max nb of predicted sites per peak: 56
(chr7:98281100-98282100)
Mean nb of predicted sites per peak: 2.32

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

Motif 5 oligos_6-8nt_m5

k-mer sig=10.75; evalue=1.8e-11

ggGaGGtGGGaGaGAGGAGGGgrg

CYCCCCTCCTCTCTCCCACCTCCC

[ 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: 1456 (36.94%)
Max nb of predicted sites per peak: 77
(chr17:82292600-82293600)
Mean nb of predicted sites per peak: 2.58

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

Motif 6 oligos_6-8nt_m6

k-mer sig=5.46; evalue=3.5e-06

cycCAGCCCAGCcy

RGGCTGGGCTGGRG

[ 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: 1391 (35.29%)
Max nb of predicted sites per peak: 19
(chr22:48497100-48498100)
Mean nb of predicted sites per peak: 1.58

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

Motif 7 oligos_6-8nt_m7

k-mer sig=5.94; evalue=1.1e-06

ycmCtGCCCCCTCCCACCTCCtcc

GGAGGAGGTGGGAGGGGGCAGKGR

[ 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: 1441 (36.56%)
Max nb of predicted sites per peak: 68
(chr1:54405850-54406850)
Mean nb of predicted sites per peak: 2.36

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

Motif 8 oligos_6-8nt_m8

k-mer sig=10.75; evalue=1.8e-11

cssmaCCcCtCCCaCCTCCTCTyc

GRAGAGGAGGTGGGAGGGGTKSSG

[ 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: 1330 (33.74%)
Max nb of predicted sites per peak: 48
(chr7:98281100-98282100)
Mean nb of predicted sites per peak: 2.10

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

Motif 9 oligos_6-8nt_m9

k-mer sig=10.75; evalue=1.8e-11

grGAGAGGAGGtGGGaGggkgagg

CCTCMCCCTCCCACCTCCTCTCYC

[ 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: 1546 (39.22%)
Max nb of predicted sites per peak: 62
(chr21:39312550-39313550)
Mean nb of predicted sites per peak: 2.24

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

Motif 10 oligos_6-8nt_m10

k-mer sig=2.97; evalue=0.0011

rcCTCAGCcy

RGGCTGAGGY

[ 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: 1972 (50.03%)
Max nb of predicted sites per peak: 6
(chr7:74295750-74296750)
Mean nb of predicted sites per peak: 1.50

[ 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: centers_v_flanks_mar_22 (22/03/2026 22:00)

Command

Sequence composition

Discovered motifs (by algorithm)

Discovered motifs (with motif comparison)

Motif locations (sites)

Motif comparisons

Logs and parameter files

Publications

Results