peak-motifs HNF4A-chipseq

Motif discovery

Motif 1 oligos_6nt_mkv4_m1

k-mer sig=69.01; evalue=9.8e-70

gsagCGGAGCss

SSGCTCCGCTSC

[ k-mers: statistics assemblies ]
[ matrix: tab_format transfac_format ]

JASPAR2024_CORE_vertebrates_non-redundant

name id strand Nb overlap % Pearson Normalized aligned col. motif aligned col. match

columns aligned correlation cor gsagCGGAGCss

ZBED4 MA2328.1 R 9 0.6923 0.882 0.610 NA NA

ZNF331 MA1726.2 D 10 0.8333 0.732 0.610 NA NA

SP4 MA0685.2 D 9 0.7500 0.737 0.553 NA NA

Total matches= 6 (3 more)

[ match table: html text ]
[ alignments (logos): html text ]

Predicted sites on test peaks

Distribution of sites

Nb of predicted sites per peak

Nb peaks with at least one predicted site: 2096 (10.86%)
Max nb of predicted sites per peak: 5
(chr19:4305856-4306434)
Mean nb of predicted sites per peak: 1.25

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

Motif 2 oligos_6nt_mkv4_m2

k-mer sig=49.43; evalue=3.7e-50

sgCGAGCGcg

CGCGCTCGCS

[ k-mers: statistics assemblies ]
[ matrix: tab_format transfac_format ]

JASPAR2024_CORE_vertebrates_non-redundant

name id strand Nb overlap % Pearson Normalized aligned col. motif aligned col. match

columns aligned correlation cor sgCGAGCGcg

TCFL5 MA0632.3 D 7 0.6364 0.750 0.477 NA NA

ZBTB14 MA1650.2 R 7 0.6364 0.706 0.449 NA NA

KLF15 MA1513.2 R 7 0.6364 0.705 0.449 NA NA

Total matches= 3

[ match table: html text ]
[ alignments (logos): html text ]

Predicted sites on test peaks

Distribution of sites

Nb of predicted sites per peak

Nb peaks with at least one predicted site: 2142 (11.10%)
Max nb of predicted sites per peak: 18
(chr10:81126501-81126852)
Mean nb of predicted sites per peak: 1.90

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

Motif 3 oligos_6nt_mkv4_m3

k-mer sig=48.26; evalue=5.5e-49

ssCGCCTCgss

SSCGAGGCGSS

[ k-mers: statistics assemblies ]
[ matrix: tab_format transfac_format ]

JASPAR2024_CORE_vertebrates_non-redundant

name id strand Nb overlap % Pearson Normalized aligned col. motif aligned col. match

columns aligned correlation cor ssCGCCTCgss

ZBED4 MA2328.1 D 10 0.9091 0.764 0.694 NA NA

SP2 MA0516.3 R 8 0.6667 0.803 0.535 NA NA

KLF12 MA0742.2 R 8 0.6667 0.792 0.528 NA NA

Total matches= 18 (15 more)

[ match table: html text ]
[ alignments (logos): html text ]

Predicted sites on test peaks

Distribution of sites

Nb of predicted sites per peak

Nb peaks with at least one predicted site: 2232 (11.56%)
Max nb of predicted sites per peak: 6
(chr3:133544086-133544998)
Mean nb of predicted sites per peak: 1.30

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

Motif 4 oligos_6nt_mkv4_m4

k-mer sig=45.07; evalue=8.5e-46

sgGCGGGGCGsg

CSCGCCCCGCCS

[ k-mers: statistics assemblies ]
[ matrix: tab_format transfac_format ]

JASPAR2024_CORE_vertebrates_non-redundant

name id strand Nb overlap % Pearson Normalized aligned col. motif aligned col. match

columns aligned correlation cor sgGCGGGGCGsg

ZBED4 MA2328.1 R 10 0.8333 0.962 0.802 NA NA

KLF15 MA1513.2 R 8 0.6667 0.909 0.606 NA NA

KLF7 MA1959.2 D 8 0.6667 0.885 0.590 NA NA

Total matches= 26 (23 more)

[ match table: html text ]
[ alignments (logos): html text ]

Predicted sites on test peaks

Distribution of sites

Nb of predicted sites per peak

Nb peaks with at least one predicted site: 2789 (14.45%)
Max nb of predicted sites per peak: 10
(chr11:20542428-20542939)
Mean nb of predicted sites per peak: 1.62

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

Motif 5 oligos_6nt_mkv4_m5

k-mer sig=41.73; evalue=1.9e-42

ssCGCTGCgss

SSCGCAGCGSS

[ k-mers: statistics assemblies ]
[ matrix: tab_format transfac_format ]

JASPAR2024_CORE_vertebrates_non-redundant

name id strand Nb overlap % Pearson Normalized aligned col. motif aligned col. match

columns aligned correlation cor ssCGCTGCgss

ZBED4 MA2328.1 D 10 0.9091 0.715 0.650 NA NA

ZNF93 MA1721.2 R 10 0.6667 0.787 0.525 NA NA

ZIC5 MA1584.2 D 10 0.6250 0.759 0.475 NA NA

Total matches= 6 (3 more)

[ match table: html text ]
[ alignments (logos): html text ]

Predicted sites on test peaks

Distribution of sites

Nb of predicted sites per peak

Nb peaks with at least one predicted site: 2092 (10.84%)
Max nb of predicted sites per peak: 10
(chr8:22593521-22594072)
Mean nb of predicted sites per peak: 1.96

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

Motif 6 positions_6nt_m1

k-mer sig=0.82; evalue=0.15

sgCGTCGCsg

CSGCGACGCS

[ k-mers: statistics assemblies ]
[ matrix: tab_format transfac_format ]

JASPAR2024_CORE_vertebrates_non-redundant

name id strand Nb overlap % Pearson Normalized aligned col. motif aligned col. match

columns aligned correlation cor sgCGTCGCsg

Gmeb1 MA0615.2 D 6 0.6000 0.705 0.423 NA NA

Total matches= 1

[ match table: html text ]
[ alignments (logos): html text ]

Predicted sites on test peaks

Distribution of sites

Nb of predicted sites per peak

Nb peaks with at least one predicted site: 1293 (6.70%)
Max nb of predicted sites per peak: 6
(chr7:19561930-19562440)
Mean nb of predicted sites per peak: 1.16

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

Motif 7 positions_6nt_m2

k-mer sig=0.25; evalue=0.56

vkATGCGGhg

CDCCGCATMB

[ k-mers: statistics assemblies ]
[ matrix: tab_format transfac_format ]

JASPAR2024_CORE_vertebrates_non-redundant

name id strand Nb overlap % Pearson Normalized aligned col. motif aligned col. match

columns aligned correlation cor vkATGCGGhg

GCM2 MA0767.2 D 8 0.8000 0.839 0.671 NA NA

ZFP57 MA1583.2 R 7 0.7000 0.810 0.567 NA NA

GCM1 MA0646.2 D 8 0.6667 0.822 0.548 NA NA

Total matches= 4 (1 more)

[ match table: html text ]
[ alignments (logos): html text ]

Predicted sites on test peaks

Distribution of sites

Nb of predicted sites per peak

Nb peaks with at least one predicted site: 509 (2.64%)
Max nb of predicted sites per peak: 2
(chr8:34689238-34690084)
Mean nb of predicted sites per peak: 1.03

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

Motif 8 oligos_7nt_mkv5_m1

k-mer sig=60.66; evalue=2.2e-61

sscCCCGCCcCCgcc

GGCGGGGGCGGGGSS

[ k-mers: statistics assemblies ]
[ matrix: tab_format transfac_format ]

JASPAR2024_CORE_vertebrates_non-redundant

name id strand Nb overlap % Pearson Normalized aligned col. motif aligned col. match

columns aligned correlation cor sscCCCGCCcCCgcc

PATZ1 MA1961.2 R 11 0.7333 0.940 0.689 NA NA

KLF16 MA0741.1 D 11 0.7333 0.856 0.628 NA NA

SP3 MA0746.3 D 11 0.7333 0.824 0.604 NA NA

Total matches= 34 (31 more)

[ match table: html text ]
[ alignments (logos): html text ]

Predicted sites on test peaks

Distribution of sites

Nb of predicted sites per peak

Nb peaks with at least one predicted site: 3572 (18.50%)
Max nb of predicted sites per peak: 18
(chr11:6475396-6476342)
Mean nb of predicted sites per peak: 2.31

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

Motif 9 oligos_7nt_mkv5_m2

k-mer sig=39.98; evalue=1e-40

sstGCGCcTGCGcs

SGCGCAGGCGCASS

[ k-mers: statistics assemblies ]
[ matrix: tab_format transfac_format ]

JASPAR2024_CORE_vertebrates_non-redundant

name id strand Nb overlap % Pearson Normalized aligned col. motif aligned col. match

columns aligned correlation cor sstGCGCcTGCGcs

Nrf1 MA0506.3 D 12 0.8571 0.964 0.826 NA NA

TCF4 MA0830.3 D 8 0.5714 0.774 0.442 NA NA

TCFL5 MA0632.3 R 8 0.5714 0.741 0.423 NA NA

Total matches= 4 (1 more)

[ match table: html text ]
[ alignments (logos): html text ]

Predicted sites on test peaks

Distribution of sites

Nb of predicted sites per peak

Nb peaks with at least one predicted site: 2100 (10.88%)
Max nb of predicted sites per peak: 16
(chr10:81126501-81126852)
Mean nb of predicted sites per peak: 1.64

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

Motif 10 oligos_7nt_mkv5_m3

k-mer sig=36.16; evalue=6.9e-37

ssCGCcCTCss

SSGAGGGCGSS

[ k-mers: statistics assemblies ]
[ matrix: tab_format transfac_format ]

JASPAR2024_CORE_vertebrates_non-redundant

name id strand Nb overlap % Pearson Normalized aligned col. motif aligned col. match

columns aligned correlation cor ssCGCcCTCss

EGR1 MA0162.5 D 10 0.9091 0.793 0.721 NA NA

EGR4 MA0733.2 D 10 0.8333 0.786 0.655 NA NA

EGR3 MA0732.2 D 10 0.8333 0.770 0.642 NA NA

Total matches= 30 (27 more)

[ match table: html text ]
[ alignments (logos): html text ]

Predicted sites on test peaks

Distribution of sites

Nb of predicted sites per peak

Nb peaks with at least one predicted site: 2265 (11.73%)
Max nb of predicted sites per peak: 14
(chr10:81126501-81126852)
Mean nb of predicted sites per peak: 1.38

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

Motif 11 oligos_7nt_mkv5_m4

k-mer sig=34.73; evalue=1.9e-35

wvTGACTCAsw

WSTGAGTCABW

[ k-mers: statistics assemblies ]
[ matrix: tab_format transfac_format ]

JASPAR2024_CORE_vertebrates_non-redundant

name id strand Nb overlap % Pearson Normalized aligned col. motif aligned col. match

columns aligned correlation cor wvTGACTCAsw

FOSL2 MA0478.2 D 10 0.9091 0.949 0.863 NA NA

BACH2 MA1101.3 D 11 1.0000 0.845 0.845 NA NA

MAFK MA0496.4 D 10 0.9091 0.904 0.822 NA NA

Total matches= 37 (34 more)

[ match table: html text ]
[ alignments (logos): html text ]

Predicted sites on test peaks

Distribution of sites

Nb of predicted sites per peak

Nb peaks with at least one predicted site: 1045 (5.41%)
Max nb of predicted sites per peak: 4
(chr7:49601477-49602072)
Mean nb of predicted sites per peak: 1.20

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

Motif 12 oligos_7nt_mkv5_m5

k-mer sig=34.28; evalue=5.2e-35

syCACTTCCGsy

RSCGGAAGTGRS

[ k-mers: statistics assemblies ]
[ matrix: tab_format transfac_format ]

JASPAR2024_CORE_vertebrates_non-redundant

name id strand Nb overlap % Pearson Normalized aligned col. motif aligned col. match

columns aligned correlation cor syCACTTCCGsy

Zbtb2 MA2340.1 R 10 0.8333 0.917 0.764 NA NA

ZBTB11 MA2329.1 D 9 0.7500 0.971 0.728 NA NA

ETV6 MA0645.2 R 9 0.7500 0.962 0.721 NA NA

Total matches= 54 (51 more)

[ match table: html text ]
[ alignments (logos): html text ]

Predicted sites on test peaks

Distribution of sites

Nb of predicted sites per peak

Nb peaks with at least one predicted site: 1442 (7.47%)
Max nb of predicted sites per peak: 3
(chr9:73113175-73113701)
Mean nb of predicted sites per peak: 1.13

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

Motif 13 positions_7nt_m1

k-mer sig=1.51; evalue=0.031

ssCTGCGTCss

SSGACGCAGSS

[ k-mers: statistics assemblies ]
[ matrix: tab_format transfac_format ]

JASPAR2024_CORE_vertebrates_non-redundant

name id strand Nb overlap % Pearson Normalized aligned col. motif aligned col. match

columns aligned correlation cor ssCTGCGTCss

JUN::JUNB MA1132.2 R 8 0.7273 0.734 0.534 NA NA

Atf1 MA0604.1 R 8 0.7273 0.701 0.510 NA NA

Foxn1 MA1684.1 R 6 0.5455 0.911 0.497 NA NA

Total matches= 6 (3 more)

[ match table: html text ]
[ alignments (logos): html text ]

Predicted sites on test peaks

Distribution of sites

Nb of predicted sites per peak

Nb peaks with at least one predicted site: 785 (4.07%)
Max nb of predicted sites per peak: 2
(chrX:159255754-159256039)
Mean nb of predicted sites per peak: 1.04

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

Motif 14 positions_7nt_m2

k-mer sig=0.38; evalue=0.42

waAATGTTAww

WWTAACATTTW

[ k-mers: statistics assemblies ]
[ matrix: tab_format transfac_format ]

JASPAR2024_CORE_vertebrates_non-redundant

name id strand Nb overlap % Pearson Normalized aligned col. motif aligned col. match

columns aligned correlation cor waAATGTTAww

Arid5a MA0602.2 R 8 0.7273 0.740 0.538 NA NA

TEAD2 MA1121.2 R 7 0.6364 0.827 0.526 NA NA

SOX18 MA1563.2 R 8 0.7273 0.723 0.526 NA NA

Total matches= 8 (5 more)

[ match table: html text ]
[ alignments (logos): html text ]

Predicted sites on test peaks

Distribution of sites

Nb of predicted sites per peak

Nb peaks with at least one predicted site: 1189 (6.16%)
Max nb of predicted sites per peak: 4
(chr16:91802684-91802864)
Mean nb of predicted sites per peak: 1.16

[ sites: text ]
[ 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) ]
Discovered motifs versus transcription factor databases
Motifs versus JASPAR2024_CORE_vertebrates_non-redundant database		[ table: html txt ] [ alignments (logo): html text ] [ graph: gml (for CytoScape) ]

Log files
Parameters and files		[txt] [html]
Time log		[time table] [time log] [html]

RSAT - peak-motifs result

Analysis: HNF4A-chipseq (19/12/2025 15:08)

Command

Sequence composition

Discovered motifs (by algorithm)

Discovered motifs (with motif comparison)

JASPAR2024_CORE_vertebrates_non-redundant

name id strand Nb overlap % Pearson Normalized aligned col. motif aligned col. match

columns aligned correlation cor sgCGTCGCsg

Gmeb1 MA0615.2 D 6 0.6000 0.705 0.423 NA NA

Total matches= 1

Motif locations (sites)

Motif comparisons

Logs and parameter files

Publications

Results

RSAT - peak-motifs result

Analysis: HNF4A-chipseq (19/12/2025 15:08)

Command

Sequence composition

Discovered motifs (by algorithm)

Discovered motifs (with motif comparison)

JASPAR2024_CORE_vertebrates_non-redundant name id strand Nb overlap % Pearson Normalized aligned col. motif aligned col. match columns aligned correlation cor sgCGTCGCsg Gmeb1 MA0615.2 D 6 0.6000 0.705 0.423 NA NA Total matches= 1

Motif locations (sites)

Motif comparisons

Logs and parameter files

Publications

Results

JASPAR2024_CORE_vertebrates_non-redundant

name id strand Nb overlap % Pearson Normalized aligned col. motif aligned col. match

columns aligned correlation cor sgCGTCGCsg

Gmeb1 MA0615.2 D 6 0.6000 0.705 0.423 NA NA

Total matches= 1