peak-motifs zf420_gene

Sequence composition (test sequences)

Nb of peaks: 696
Total seq. size: 1134 kb
Min length: 277 bp
Mean length: 1629.51 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: 696
Total seq. size: 1134 kb
Min length: 278 bp
Mean length: 1629.97 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=40.61; evalue=2.5e-41

mamaCaaaCaaamaamma

TKKTTKTTTGTTTGTKTK

[ 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: 315 (45.26%)
Max nb of predicted sites per peak: 21
(chr_002_444361_451842)
Mean nb of predicted sites per peak: 3.03

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

Motif 2 oligos_6nt_test_vs_ctrl_m2

k-mer sig=40.61; evalue=2.5e-41

wcaatCaatCaaaaaacma

TKGTTTTTTGATTGATTGW

[ 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: 314 (45.11%)
Max nb of predicted sites per peak: 14
(chr_180_824731_828452)
Mean nb of predicted sites per peak: 2.76

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

Motif 3 oligos_6nt_test_vs_ctrl_m3

k-mer sig=40.61; evalue=2.5e-41

rytaGCaaGCaaaaaacma

TKGTTTTTTGCTTGCTARY

[ 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: 282 (40.52%)
Max nb of predicted sites per peak: 14
(chr_180_349075_350659)
Mean nb of predicted sites per peak: 2.45

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

Motif 4 oligos_6nt_test_vs_ctrl_m4

k-mer sig=17.88; evalue=1.3e-18

wgCttaGCtaaGcw

WGCTTAGCTAAGCW

[ 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: 96 (13.79%)
Max nb of predicted sites per peak: 16
(chr_138_1572445_1575071)
Mean nb of predicted sites per peak: 2.81

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

Motif 5 oligos_6nt_test_vs_ctrl_m5

k-mer sig=14.39; evalue=4.1e-15

aytCattCaht

ADTGAATGART

[ 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: 359 (51.58%)
Max nb of predicted sites per peak: 18
(chr_180_824731_828452)
Mean nb of predicted sites per peak: 2.65

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

Motif 6 oligos_7nt_test_vs_ctrl_m1

k-mer sig=30.55; evalue=2.8e-31

caaaCaaaCaaamaaaCaaa

TTTGTTTKTTTGTTTGTTTG

[ 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: 315 (45.26%)
Max nb of predicted sites per peak: 38
(chr_065_666422_668387)
Mean nb of predicted sites per peak: 4.52

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

Motif 7 oligos_7nt_test_vs_ctrl_m2

k-mer sig=30.55; evalue=2.8e-31

aacmaatCaatCaaamaaaCama

TKTGTTTKTTTGATTGATTKGTT

[ 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: 335 (48.13%)
Max nb of predicted sites per peak: 26
(chr_180_349075_350659)
Mean nb of predicted sites per peak: 3.91

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

Motif 8 oligos_7nt_test_vs_ctrl_m3

k-mer sig=21.72; evalue=1.9e-22

raatGaatGaatg

CATTCATTCATTY

[ 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: 232 (33.33%)
Max nb of predicted sites per peak: 10
(chr_090_105593_113446)
Mean nb of predicted sites per peak: 2.53

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

Motif 9 oligos_7nt_test_vs_ctrl_m4

k-mer sig=21.44; evalue=3.6e-22

taGCtaGCtaGCta

TAGCTAGCTAGCTA

[ 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: 206 (29.60%)
Max nb of predicted sites per peak: 36
(chr_177_400742_409906)
Mean nb of predicted sites per peak: 4.46

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

Motif 10 oligos_7nt_test_vs_ctrl_m5

k-mer sig=19.04; evalue=9.1e-20

rcaaGCaaGCaarCaa

TTGYTTGCTTGCTTGY

[ 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: 310 (44.54%)
Max nb of predicted sites per peak: 24
(chr_177_412800_421945)
Mean nb of predicted sites per peak: 3.66

[ 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: zf420_gene_peaks (18/05/2026 12:09)

Command

Sequence composition

Discovered motifs (by algorithm)

Discovered motifs (with motif comparison)

Motif locations (sites)

Motif comparisons

Logs and parameter files

Publications

Results