peak-motifs zf420

Sequence composition (test sequences)

Nb of peaks: 203
Total seq. size: 371 kb
Min length: 413 bp
Mean length: 1825.53 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: 203
Total seq. size: 371 kb
Min length: 413 bp
Mean length: 1825.53 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=24.02; evalue=9.5e-25

rmraGCaaGCaarmaaGmaaGmr

YKCTTKCTTKYTTGCTTGCTYKY

[ 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: 126 (62.07%)
Max nb of predicted sites per peak: 22
(chr_101_61_972_5523)
Mean nb of predicted sites per peak: 3.36

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

Motif 2 oligos_6nt_test_vs_ctrl_m2

k-mer sig=24.02; evalue=9.5e-25

rCraGCaaGCaarCaaamaarmaa

TTKYTTKTTTGYTTGCTTGCTYGY

[ 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: 131 (64.53%)
Max nb of predicted sites per peak: 23
(chr_137_9_8572_12086)
Mean nb of predicted sites per peak: 4.39

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

Motif 3 oligos_6nt_test_vs_ctrl_m3

k-mer sig=13.81; evalue=1.5e-14

cmttCattCaCty

RAGTGAATGAAKG

[ 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: 110 (54.19%)
Max nb of predicted sites per peak: 8
(chr_137_9_8572_12086)
Mean nb of predicted sites per peak: 2.00

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

Motif 4 oligos_6nt_test_vs_ctrl_m4

k-mer sig=24.02; evalue=9.5e-25

rmaaatCaaaaaaGaaaGma

TKCTTTCTTTTTTGATTTKY

[ 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: 116 (57.14%)
Max nb of predicted sites per peak: 6
(chr_065_4_1104608_1108211)
Mean nb of predicted sites per peak: 1.66

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

Motif 5 oligos_6nt_test_vs_ctrl_m5

k-mer sig=8.71; evalue=1.9e-09

ywrCttaGCtaaGywr

YWRCTTAGCTAAGYWR

[ 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: 45 (22.17%)
Max nb of predicted sites per peak: 8
(chr_138_77_1572444_1575071)
Mean nb of predicted sites per peak: 2.38

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

Motif 6 oligos_7nt_test_vs_ctrl_m1

k-mer sig=22.67; evalue=2.1e-23

arMaaGCaaRCaarCaaamaaaca

TGTTTKTTTGYTTGYTTGCTTKYT

[ 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: 124 (61.08%)
Max nb of predicted sites per peak: 22
(chr_137_9_8572_12086)
Mean nb of predicted sites per peak: 4.72

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

Motif 7 oligos_7nt_test_vs_ctrl_m2

k-mer sig=15.17; evalue=6.8e-16

rwttGaatGaakg

CMTTCATTCAAWY

[ 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: 87 (42.86%)
Max nb of predicted sites per peak: 5
(chr_137_9_8572_12086)
Mean nb of predicted sites per peak: 1.84

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

Motif 8 oligos_7nt_test_vs_ctrl_m3

k-mer sig=16.82; evalue=1.5e-17

ammaaGCaaGCaaamaaasaa

TTSTTTKTTTGCTTGCTTKKT

[ 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: 130 (64.04%)
Max nb of predicted sites per peak: 17
(chr_137_9_8572_12086)
Mean nb of predicted sites per peak: 3.19

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

Motif 9 oligos_7nt_test_vs_ctrl_m4

k-mer sig=16.82; evalue=1.5e-17

mmttCaatCaaaaaaaSaa

TTSTTTTTTTGATTGAAKK

[ 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: 109 (53.69%)
Max nb of predicted sites per peak: 7
(chr_088_116_358540_365643)
Mean nb of predicted sites per peak: 2.09

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

Motif 10 oligos_7nt_test_vs_ctrl_m5

k-mer sig=15.69; evalue=2e-16

aaGCaaGCaaGCtarscar

YTGSYTAGCTTGCTTGCTT

[ 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: 106 (52.22%)
Max nb of predicted sites per peak: 17
(chr_137_9_8572_12086)
Mean nb of predicted sites per peak: 3.14

[ 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_top20 (18/05/2026 12:24)

Command

Sequence composition

Discovered motifs (by algorithm)

Discovered motifs (with motif comparison)

Motif locations (sites)

Motif comparisons

Logs and parameter files

Publications

Results