peak-motifs HA_CTRL

Sequence composition (test sequences)

Nb of peaks: 823
Total seq. size: 249 kb
Min length: 179 bp
Mean length: 303.092 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_mkv3_m1

k-mer sig=20.29; evalue=5.1e-21

GAATSGAATGGAATSGA

TCSATTCCATTCSATTC

[ 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: 77 (9.36%)
Max nb of predicted sites per peak: 102
(chromosome_GRCh38_4_1_190214555_1:49635415-49636141())
Mean nb of predicted sites per peak: 34.94

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

Motif 2 oligos_6nt_mkv3_m2

k-mer sig=6.60; evalue=2.5e-07

smSCCTCCCms

SKGGGAGGSKS

[ 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: 154 (18.71%)
Max nb of predicted sites per peak: 12
(chromosome_GRCh38_12_1_133275309_1:119918395-119918726())
Mean nb of predicted sites per peak: 1.58

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

Motif 3 oligos_6nt_mkv3_m3

k-mer sig=5.15; evalue=7.1e-06

waTACATACay

RTGTATGTATW

[ 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: 67 (8.14%)
Max nb of predicted sites per peak: 8
(chromosome_GRCh38_X_1_156040895_1:117614320-117614503())
Mean nb of predicted sites per peak: 1.79

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

Motif 4 oligos_6nt_mkv3_m4

k-mer sig=4.94; evalue=1.1e-05

csACCCCAGGCmk

MKGCCTGGGGTSG

[ 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: 95 (11.54%)
Max nb of predicted sites per peak: 17
(chromosome_GRCh38_19_1_58617616_1:27733755-27734788())
Mean nb of predicted sites per peak: 1.71

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

Motif 5 oligos_6nt_mkv3_m5

k-mer sig=4.93; evalue=1.2e-05

wwtAAAATAAww

WWTTATTTTAWW

[ 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: 78 (9.48%)
Max nb of predicted sites per peak: 7
(chromosome_GRCh38_6_1_170805979_1:26798900-26799246())
Mean nb of predicted sites per peak: 1.32

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

Motif 6 oligos_7nt_mkv4_m1

k-mer sig=17.05; evalue=8.9e-18

GAATSGAATGGAATSGAa

TTCSATTCCATTCSATTC

[ 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: 75 (9.11%)
Max nb of predicted sites per peak: 106
(chromosome_GRCh38_4_1_190214555_1:49635415-49636141())
Mean nb of predicted sites per peak: 36.36

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

Motif 7 oligos_7nt_mkv4_m2

k-mer sig=3.54; evalue=0.00029

rkmATCATCGaak

MTTCGATGATKMY

[ 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: 34 (4.13%)
Max nb of predicted sites per peak: 39
(chromosome_GRCh38_16_1_90338345_1:46390797-46392237())
Mean nb of predicted sites per peak: 9.68

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

Motif 8 oligos_7nt_mkv4_m3

k-mer sig=3.48; evalue=0.00033

tcCATTmGAtt

AATCKAATGGA

[ 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: 74 (8.99%)
Max nb of predicted sites per peak: 30
(chromosome_GRCh38_16_1_90338345_1:46390797-46392237())
Mean nb of predicted sites per peak: 4.30

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

Motif 9 oligos_7nt_mkv4_m4

k-mer sig=3.35; evalue=0.00045

caCACATGCay

RTGCATGTGTG

[ 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: 72 (8.75%)
Max nb of predicted sites per peak: 34
(chromosome_GRCh38_5_1_181538259_1:1870815-1871294())
Mean nb of predicted sites per peak: 3.14

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

Motif 10 oligos_7nt_mkv4_m5

k-mer sig=2.51; evalue=0.0031

atGGACTCGAat

ATTCGAGTCCAT

[ 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: 98 (11.91%)
Max nb of predicted sites per peak: 45
(chromosome_GRCh38_4_1_190214555_1:49635415-49636141())
Mean nb of predicted sites per peak: 10.68

[ 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: HA_CTRL_2 (18/12/2025 19:08)

Command

Sequence composition

Discovered motifs (by algorithm)

Discovered motifs (with motif comparison)

Motif locations (sites)

Motif comparisons

Logs and parameter files

Publications

Results