peak-motifs DOWN

Sequence composition (test sequences)

Nb of peaks: 950
Total seq. size: 952 kb
Min length: 1002 bp
Mean length: 1002 bp
Max length: 1002 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: 1863
Total seq. size: 1867 kb
Min length: 1002 bp
Mean length: 1002 bp
Max length: 1002 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=7.61; evalue=2.5e-08

grctCAGGAAgrr

YYCTTCCTGAGYC

[ 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: 190 (20.00%)
Max nb of predicted sites per peak: 4
(FP0002824930467D21Rik_1)
Mean nb of predicted sites per peak: 1.17

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

Motif 2 oligos_6nt_test_vs_ctrl_m2

k-mer sig=6.20; evalue=6.3e-07

aymCACATGGAtaya

TRTATCCATGTGKRT

[ 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: 269 (28.32%)
Max nb of predicted sites per peak: 45
(FP000938Gpr174_2)
Mean nb of predicted sites per peak: 2.41

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

Motif 3 oligos_6nt_test_vs_ctrl_m3

k-mer sig=6.07; evalue=8.5e-07

rrAGAAGAATGcww

WWGCATTCTTCTYY

[ 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: 181 (19.05%)
Max nb of predicted sites per peak: 4
(FP000534Arg1_1)
Mean nb of predicted sites per peak: 1.10

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

Motif 4 oligos_6nt_test_vs_ctrl_m4

k-mer sig=6.20; evalue=6.3e-07

sacAgAgACATrGAtaba

TVTATCYATGTCTCTGTS

[ 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: 299 (31.47%)
Max nb of predicted sites per peak: 82
(FP000274Tecrl_1)
Mean nb of predicted sites per peak: 4.07

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

Motif 5 oligos_6nt_test_vs_ctrl_m5

k-mer sig=5.13; evalue=7.4e-06

wwAAACATTAaww

WWTTAATGTTTWW

[ 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: 311 (32.74%)
Max nb of predicted sites per peak: 6
(FP000284Gm17660_1)
Mean nb of predicted sites per peak: 1.49

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

Motif 6 oligos_7nt_test_vs_ctrl_m1

k-mer sig=3.92; evalue=0.00012

awAcATAaAaAtaw

WTATTTTTATGTWT

[ 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: 460 (48.42%)
Max nb of predicted sites per peak: 83
(FP000938Gpr174_2)
Mean nb of predicted sites per peak: 4.29

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

Motif 7 oligos_7nt_test_vs_ctrl_m2

k-mer sig=3.91; evalue=0.00012

wwwaGAAGAAAaa

TTTTTCTTCTWWW

[ 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: 271 (28.53%)
Max nb of predicted sites per peak: 5
(FP000465Nanos3_1)
Mean nb of predicted sites per peak: 1.23

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

Motif 8 oligos_7nt_test_vs_ctrl_m3

k-mer sig=3.80; evalue=0.00016

wwGCATTGAwh

DWTCAATGCWW

[ 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: 99 (10.42%)
Max nb of predicted sites per peak: 2
(FP000667Hist1h2bn_1)
Mean nb of predicted sites per peak: 1.05

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

Motif 9 oligos_7nt_test_vs_ctrl_m4

k-mer sig=3.71; evalue=0.00019

wwTAAACATTAAww

WWTTAATGTTTAWW

[ 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: 350 (36.84%)
Max nb of predicted sites per peak: 40
(FP000938Gpr174_2)
Mean nb of predicted sites per peak: 2.07

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

Motif 10 oligos_7nt_test_vs_ctrl_m5

k-mer sig=3.49; evalue=0.00032

rvACAGGAAGrr

YYCTTCCTGTBY

[ 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: 144 (15.16%)
Max nb of predicted sites per peak: 3
(FP000450Adam3_1)
Mean nb of predicted sites per peak: 1.13

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

Motif 11 oligos_8nt_test_vs_ctrl_m1

k-mer sig=4.91; evalue=1.2e-05

adrAAGAAATGaa

TTCATTTCTTYHT

[ 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: 253 (26.63%)
Max nb of predicted sites per peak: 5
(FP000515Gadl1_1)
Mean nb of predicted sites per peak: 1.26

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

Motif 12 oligos_8nt_test_vs_ctrl_m2

k-mer sig=4.35; evalue=4.5e-05

wdaGCATTGAAmwh

DWKTTCAATGCTHW

[ 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: 128 (13.47%)
Max nb of predicted sites per peak: 2
(FP000902Cpn1_2)
Mean nb of predicted sites per peak: 1.09

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

Motif 13 oligos_8nt_test_vs_ctrl_m3

k-mer sig=3.15; evalue=0.00071

atATAcATAkat

ATMTATGTATAT

[ 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 (35.26%)
Max nb of predicted sites per peak: 89
(FP000274Tecrl_1)
Mean nb of predicted sites per peak: 3.91

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

Motif 14 oligos_8nt_test_vs_ctrl_m4

k-mer sig=2.57; evalue=0.0027

avAATGGCCCws

SWGGGCCATTBT

[ 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: 64 (6.74%)
Max nb of predicted sites per peak: 2
(FP000902Cpn1_2)
Mean nb of predicted sites per peak: 1.11

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

Motif 15 oligos_8nt_test_vs_ctrl_m5

k-mer sig=2.48; evalue=0.0033

waAATGTTTAww

WWTAAACATTTW

[ 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 (32.63%)
Max nb of predicted sites per peak: 7
(FP000795Ostn_2)
Mean nb of predicted sites per peak: 1.46

[ 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: DOWN (04/11/2025 10:59)

Command

Sequence composition

Discovered motifs (by algorithm)

Discovered motifs (with motif comparison)

Motif locations (sites)

Motif comparisons

Logs and parameter files

Publications

Results