peak-motifs Oct4_Chen2008_sites_from

Motif discovery

Motif 1 oligos_6nt_mkv3_m1

k-mer sig=48.15; evalue=7.1e-49

yryattTGCATATGCAaatryr

YRYATTTGCATATGCAAATRYR

[ 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: 268 (26.80%)
Max nb of predicted sites per peak: 14
(mm9_chr7_57241511_57241780_+)
Mean nb of predicted sites per peak: 2.71

[ view in genome browser :

]
[ sites: text BED (UCSC track) ]
[ distribution: text ]
[ sites per peak: text ]
[ enrichment: text graph ]

Motif 2 oligos_6nt_mkv3_m2

k-mer sig=23.87; evalue=1.3e-24

ccCCCCaCCCCcc

GGGGGGTGGGGGG

[ 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 (25.30%)
Max nb of predicted sites per peak: 25
(mm9_chr11_6289161_6289580_+)
Mean nb of predicted sites per peak: 2.42

[ view in genome browser :

]
[ sites: text BED (UCSC track) ]
[ distribution: text ]
[ sites per peak: text ]
[ enrichment: text graph ]

Motif 3 oligos_6nt_mkv3_m3

k-mer sig=48.15; evalue=7.1e-49

yhcaTTTGCATaacAAwgsmm

KKSCWTTGTTATGCAAATGDR

[ 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: 723 (72.30%)
Max nb of predicted sites per peak: 5
(mm9_chr16_97067031_97067600_+)
Mean nb of predicted sites per peak: 1.22

[ view in genome browser :

]
[ sites: text BED (UCSC track) ]
[ distribution: text ]
[ sites per peak: text ]
[ enrichment: text graph ]

Motif 4 oligos_6nt_mkv3_m4

k-mer sig=12.94; evalue=1.1e-13

atTTACATAws

SWTATGTAAAT

[ 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: 240 (24.00%)
Max nb of predicted sites per peak: 4
(mm9_chr8_15844801_15845180_+)
Mean nb of predicted sites per peak: 1.18

[ view in genome browser :

]
[ sites: text BED (UCSC track) ]
[ distribution: text ]
[ sites per peak: text ]
[ enrichment: text graph ]

Motif 5 oligos_6nt_mkv3_m5

k-mer sig=14.70; evalue=2e-15

rmaAAACAAAGcma

TKGCTTTGTTTTKY

[ 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: 202 (20.20%)
Max nb of predicted sites per peak: 10
(mm9_chr10_28355921_28356220_+)
Mean nb of predicted sites per peak: 1.45

[ view in genome browser :

]
[ sites: text BED (UCSC track) ]
[ distribution: text ]
[ sites per peak: text ]
[ enrichment: text graph ]

Motif 6 positions_6nt_m1

k-mer sig=300; evalue=1e-300

ydyaywTGCATATGCAwatryayr

YRTRYATWTGCATATGCAWRTRHR

[ 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: 293 (29.30%)
Max nb of predicted sites per peak: 15
(mm9_chr2_105210341_105210690_+)
Mean nb of predicted sites per peak: 2.60

[ view in genome browser :

]
[ sites: text BED (UCSC track) ]
[ distribution: text ]
[ sites per peak: text ]
[ enrichment: text graph ]

Motif 7 positions_6nt_m2

k-mer sig=300; evalue=1e-300

trtaTGCATwTGCATawsaatrkr

YMYATTSWTATGCAWATGCATAYA

[ 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: 376 (37.60%)
Max nb of predicted sites per peak: 13
(mm9_chr16_97067031_97067600_+)
Mean nb of predicted sites per peak: 1.82

[ view in genome browser :

]
[ sites: text BED (UCSC track) ]
[ distribution: text ]
[ sites per peak: text ]
[ enrichment: text graph ]

Motif 8 positions_6nt_m3

k-mer sig=300; evalue=1e-300

rywtaTGCATwTGCATAtgyryat

ATRYRCATATGCAWATGCATAWRY

[ 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: 257 (25.70%)
Max nb of predicted sites per peak: 17
(mm9_chr2_105210341_105210690_+)
Mean nb of predicted sites per peak: 2.70

[ view in genome browser :

]
[ sites: text BED (UCSC track) ]
[ distribution: text ]
[ sites per peak: text ]
[ enrichment: text graph ]

Motif 9 positions_6nt_m4

k-mer sig=300; evalue=1e-300

rydykyatgcAwATGCAtAtgcay

RTGCATATGCATWTGCATRMRHRY

[ 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: 316 (31.60%)
Max nb of predicted sites per peak: 16
(mm9_chr2_105210341_105210690_+)
Mean nb of predicted sites per peak: 2.46

[ view in genome browser :

]
[ sites: text BED (UCSC track) ]
[ distribution: text ]
[ sites per peak: text ]
[ enrichment: text graph ]

Motif 10 positions_6nt_m5

k-mer sig=9.00; evalue=1e-09

waACAAAGgmm

KKCCTTTGTTW

[ 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: 200 (20.00%)
Max nb of predicted sites per peak: 2
(mm9_chr9_118517791_118518180_+)
Mean nb of predicted sites per peak: 1.16

[ view in genome browser :

]
[ sites: text BED (UCSC track) ]
[ distribution: text ]
[ sites per peak: text ]
[ enrichment: text graph ]

Motif 11 oligos_7nt_mkv4_m1

k-mer sig=52.85; evalue=1.4e-53

tsatATGCAaATghry

RYDCATTTGCATATSA

[ 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: 493 (49.30%)
Max nb of predicted sites per peak: 7
(mm9_chr2_105210341_105210690_+)
Mean nb of predicted sites per peak: 1.53

[ view in genome browser :

]
[ sites: text BED (UCSC track) ]
[ distribution: text ]
[ sites per peak: text ]
[ enrichment: text graph ]

Motif 12 oligos_7nt_mkv4_m2

k-mer sig=52.85; evalue=1.4e-53

cyycaTTTGCATaAcAAwrs

SYWTTGTTATGCAAATGRRG

[ 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: 709 (70.90%)
Max nb of predicted sites per peak: 6
(mm9_chr3_121848111_121848740_+)
Mean nb of predicted sites per peak: 1.23

[ view in genome browser :

]
[ sites: text BED (UCSC track) ]
[ distribution: text ]
[ sites per peak: text ]
[ enrichment: text graph ]

Motif 13 oligos_7nt_mkv4_m3

k-mer sig=25.17; evalue=6.8e-26

wtATGCwAATgw

WCATTWGCATAW

[ 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: 384 (38.40%)
Max nb of predicted sites per peak: 5
(mm9_chr7_57241511_57241780_+)
Mean nb of predicted sites per peak: 1.27

[ view in genome browser :

]
[ sites: text BED (UCSC track) ]
[ distribution: text ]
[ sites per peak: text ]
[ enrichment: text graph ]

Motif 14 oligos_7nt_mkv4_m4

k-mer sig=24.45; evalue=3.5e-25

ttTGCATrACAAwrg

CYWTTGTYATGCAAA

[ 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: 620 (62.00%)
Max nb of predicted sites per peak: 6
(mm9_chr3_121848111_121848740_+)
Mean nb of predicted sites per peak: 1.14

[ view in genome browser :

]
[ sites: text BED (UCSC track) ]
[ distribution: text ]
[ sites per peak: text ]
[ enrichment: text graph ]

Motif 15 oligos_7nt_mkv4_m5

k-mer sig=11.61; evalue=2.5e-12

ccCCCCCaCCCCccc

GGGGGGGTGGGGGGG

[ 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: 239 (23.90%)
Max nb of predicted sites per peak: 44
(mm9_chr11_6289161_6289580_+)
Mean nb of predicted sites per peak: 3.84

[ view in genome browser :

]
[ sites: text BED (UCSC track) ]
[ distribution: text ]
[ sites per peak: text ]
[ enrichment: text graph ]

Motif 16 positions_7nt_m1

k-mer sig=54.44; evalue=3.6e-55

kbcywTTGTtATGCAaAtgvrrky

RMYYBCATTTGCATAACAAWRGVM

[ 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: 694 (69.40%)
Max nb of predicted sites per peak: 6
(mm9_chr3_121848111_121848740_+)
Mean nb of predicted sites per peak: 1.21

[ view in genome browser :

]
[ sites: text BED (UCSC track) ]
[ distribution: text ]
[ sites per peak: text ]
[ enrichment: text graph ]

Motif 17 positions_7nt_m2

k-mer sig=54.44; evalue=3.6e-55

yrtryaTtTGCATATGCAaAtryr

YRYATTTGCATATGCAAATRYAYR

[ 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: 254 (25.40%)
Max nb of predicted sites per peak: 15
(mm9_chr2_105210341_105210690_+)
Mean nb of predicted sites per peak: 2.63

[ view in genome browser :

]
[ sites: text BED (UCSC track) ]
[ distribution: text ]
[ sites per peak: text ]
[ enrichment: text graph ]

Motif 18 positions_7nt_m3

k-mer sig=42.32; evalue=4.8e-43

kbcwTTgtTaTGCAtAacAAwgvm

KBCWTTGTTATGCATAACAAWGVM

[ 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: 249 (24.90%)
Max nb of predicted sites per peak: 4
(mm9_chr8_106617241_106617680_+)
Mean nb of predicted sites per peak: 2.10

[ view in genome browser :

]
[ sites: text BED (UCSC track) ]
[ distribution: text ]
[ sites per peak: text ]
[ enrichment: text graph ]

Motif 19 positions_7nt_m4

k-mer sig=54.44; evalue=3.6e-55

cywTTgtyATGCAAATgcarry

RYYTGCATTTGCATRACAAWRG

[ 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: 653 (65.30%)
Max nb of predicted sites per peak: 7
(mm9_chr3_121848111_121848740_+)
Mean nb of predicted sites per peak: 1.30

[ view in genome browser :

]
[ sites: text BED (UCSC track) ]
[ distribution: text ]
[ sites per peak: text ]
[ enrichment: text graph ]

Motif 20 positions_7nt_m5

k-mer sig=54.44; evalue=3.6e-55

gbrtatgygCATATGCAaATryry

RYRYATTTGCATATGCRCATAYVC

[ 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: 233 (23.30%)
Max nb of predicted sites per peak: 20
(mm9_chr7_57241511_57241780_+)
Mean nb of predicted sites per peak: 2.96

[ view in genome browser :

]
[ sites: text BED (UCSC track) ]
[ distribution: text ]
[ sites per peak: text ]
[ enrichment: text graph ]

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]

RSAT - peak-motifs result

Analysis: Oct4_Chen2008_sites_from_Jaspar (22/01/2026 13:22)

Command

Sequence composition

Discovered motifs (by algorithm)

Discovered motifs (with motif comparison)

Motif locations (sites)

Motif comparisons

Logs and parameter files

Publications

Results