peak-motifs intersect

Sequence composition (test sequences)

Nb of peaks: 1016
Total seq. size: 2066 kb
Min length: 9 bp
Mean length: 2033.47 bp
Max length: 4000 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: 1016
Total seq. size: 2066 kb
Min length: 9 bp
Mean length: 2033.47 bp
Max length: 4000 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=67.82; evalue=1.5e-68

attGattGattkat

ATMAATCAATCAAT

[ 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: 563 (55.41%)
Max nb of predicted sites per peak: 17
(chr_105_550_1978037_1981835)
Mean nb of predicted sites per peak: 2.53

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

Motif 2 oligos_6nt_test_vs_ctrl_m2

k-mer sig=65.83; evalue=1.5e-66

mamaCaaaCaaamaaam

KTTTKTTTGTTTGTKTK

[ 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: 578 (56.89%)
Max nb of predicted sites per peak: 26
(chr_022_142_634752_638420)
Mean nb of predicted sites per peak: 3.29

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

Motif 3 oligos_6nt_test_vs_ctrl_m3

k-mer sig=40.23; evalue=5.9e-41

awtCattCaatc

GATTGAATGAWT

[ 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: 599 (58.96%)
Max nb of predicted sites per peak: 13
(chr_112_577_376180_380790)
Mean nb of predicted sites per peak: 2.55

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

Motif 4 oligos_6nt_test_vs_ctrl_m4

k-mer sig=34.15; evalue=7.1e-35

agCtaGCtaGCta

TAGCTAGCTAGCT

[ 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: 507 (49.90%)
Max nb of predicted sites per peak: 37
(chr_099_498_540385_543020)
Mean nb of predicted sites per peak: 3.08

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

Motif 5 oligos_6nt_test_vs_ctrl_m5

k-mer sig=65.83; evalue=1.5e-66

caaGCaaGCaaamaarm

KYTTKTTTGCTTGCTTG

[ 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: 540 (53.15%)
Max nb of predicted sites per peak: 17
(chr_105_550_1978037_1981835)
Mean nb of predicted sites per peak: 2.89

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

Motif 6 oligos_7nt_test_vs_ctrl_m1

k-mer sig=73.76; evalue=1.7e-74

caaaCaaaCaaamaaasaa

TTSTTTKTTTGTTTGTTTG

[ 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: 588 (57.87%)
Max nb of predicted sites per peak: 35
(chr_022_142_634752_638420)
Mean nb of predicted sites per peak: 3.84

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

Motif 7 oligos_7nt_test_vs_ctrl_m2

k-mer sig=60.27; evalue=5.4e-61

aacmaatCaatCaaaca

TGTTTGATTGATTKGTT

[ 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: 578 (56.89%)
Max nb of predicted sites per peak: 19
(chr_105_550_1978037_1981835)
Mean nb of predicted sites per peak: 2.77

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

Motif 8 oligos_7nt_test_vs_ctrl_m3

k-mer sig=37.93; evalue=1.2e-38

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: 394 (38.78%)
Max nb of predicted sites per peak: 68
(chr_099_498_540385_543020)
Mean nb of predicted sites per peak: 4.23

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

Motif 9 oligos_7nt_test_vs_ctrl_m4

k-mer sig=37.39; evalue=4.1e-38

cattCattCatty

RAATGAATGAATG

[ 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: 446 (43.90%)
Max nb of predicted sites per peak: 14
(chr_003_14_37268_41175)
Mean nb of predicted sites per peak: 2.59

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

Motif 10 oligos_7nt_test_vs_ctrl_m5

k-mer sig=73.76; evalue=1.7e-74

CaaRCaaRCaaaCaaaCaaa

TTTGTTTGTTTGYTTGYTTG

[ 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: 531 (52.26%)
Max nb of predicted sites per peak: 38
(chr_105_550_1978037_1981835)
Mean nb of predicted sites per peak: 5.01

[ 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: intersect_peaks (18/05/2026 13:00)

Command

Sequence composition

Discovered motifs (by algorithm)

Discovered motifs (with motif comparison)

Motif locations (sites)

Motif comparisons

Logs and parameter files

Publications

Results