peak-motifs Exc_L3-4_RORB_CUX2_control_MDD

Sequence composition (test sequences)

Nb of peaks: 1
Total seq. size: 1 kb
Min length: 913 bp
Mean length: 913 bp
Max length: 913 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) ]

Trinucleotide composition profiles

Transition frequencies
Position profiles

[ 3nt: freq transitions ]
[ bg model: Inclusive format ]
[ profile: table html(individual) ]

Motif discovery

Motif 1 oligos_6nt_mkv1_m1

k-mer sig=3.66; evalue=0.00022

TmrGTAcTGAGrW

WYCTCAGTACYKA

[ 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 TmrGTAcTGAGrW

Total matches= 0

No match

Predicted sites on test peaks

Distribution of sites

Nb of predicted sites per peak

Nb peaks with at least one predicted site: 1 (100.00%)
Max nb of predicted sites per peak: 12
(chrX:19556-20468)
Mean nb of predicted sites per peak: 12.00

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

Motif 2 oligos_6nt_mkv1_m2

k-mer sig=1.43; evalue=0.037

AGyACCGAGGwg

CWCCTCGGTRCT

[ 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 AGyACCGAGGwg

ZNF343 MA1711.2 R 10 0.5556 0.752 0.418 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: 1 (100.00%)
Max nb of predicted sites per peak: 7
(chrX:19556-20468)
Mean nb of predicted sites per peak: 7.00

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

Motif 3 oligos_6nt_mkv1_m3

k-mer sig=0.60; evalue=0.25

mrAccTCArT

AYTGAGGTYK

[ 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 mrAccTCArT

RUNX3 MA0684.3 D 8 0.8000 0.814 0.651 NA NA

CREB1 MA0018.5 R 8 0.8000 0.722 0.578 NA NA

ZNF770 MA2099.1 D 8 0.8000 0.719 0.575 NA NA

Total matches= 10 (7 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: 1 (100.00%)
Max nb of predicted sites per peak: 6
(chrX:19556-20468)
Mean nb of predicted sites per peak: 6.00

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

Motif 4 oligos_7nt_mkv1_m1

k-mer sig=4.46; evalue=3.5e-05

TMgGTAcTgAgrTc

GAYCTCAGTACCKA

[ 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 TMgGTAcTgAgrTc

POU6F2 MA0793.2 R 9 0.6429 0.726 0.467 NA NA

RUNX3 MA0684.3 R 8 0.5714 0.709 0.405 NA NA

Total matches= 2

[ 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: 1 (100.00%)
Max nb of predicted sites per peak: 8
(chrX:19556-20468)
Mean nb of predicted sites per peak: 8.00

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

Motif 5 oligos_7nt_mkv1_m2

k-mer sig=3.78; evalue=0.00017

cAGyACCGAGGwg

CWCCTCGGTRCTG

[ 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 cAGyACCGAGGwg

REST MA0138.3 D 13 0.6500 0.709 0.461 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: 1 (100.00%)
Max nb of predicted sites per peak: 7
(chrX:19556-20468)
Mean nb of predicted sites per peak: 7.00

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

Motif 6 oligos_7nt_mkv1_m3

k-mer sig=4.46; evalue=3.5e-05

gwgAycTCAgTACCdA

THGGTACTGAGRTCWC

[ 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 gwgAycTCAgTACCdA

Total matches= 0

No match

Predicted sites on test peaks

Distribution of sites

Nb of predicted sites per peak

Nb peaks with at least one predicted site: 1 (100.00%)
Max nb of predicted sites per peak: 9
(chrX:19556-20468)
Mean nb of predicted sites per peak: 9.00

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

Motif 7 oligos_7nt_mkv1_m4

k-mer sig=0.42; evalue=0.38

TMyTAGGTAwW

WWTACCTARKA

[ 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 TMyTAGGTAwW

ZKSCAN1 MA1585.2 D 8 0.6667 0.804 0.536 NA NA

ZNF708 MA1730.2 R 7 0.5385 0.783 0.422 NA NA

Rfx6 MA1724.2 R 7 0.5385 0.783 0.422 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: 1 (100.00%)
Max nb of predicted sites per peak: 4
(chrX:19556-20468)
Mean nb of predicted sites per peak: 4.00

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

Motif 8 oligos_7nt_mkv1_m5

k-mer sig=0.32; evalue=0.48

rcCGAggAGmT

AKCTCCTCGGY

[ 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 rcCGAggAGmT

Total matches= 0

No match

Predicted sites on test peaks

Distribution of sites

Nb of predicted sites per peak

Nb peaks with at least one predicted site: 1 (100.00%)
Max nb of predicted sites per peak: 6
(chrX:19556-20468)
Mean nb of predicted sites per peak: 6.00

[ 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) ]
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]

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: Exc_L3-4_RORB_CUX2_control_MDD_down (16/05/2025 17:31)

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 TmrGTAcTGAGrW

Total matches= 0

JASPAR2024_CORE_vertebrates_non-redundant

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

columns aligned correlation cor AGyACCGAGGwg

ZNF343 MA1711.2 R 10 0.5556 0.752 0.418 NA NA

Total matches= 1

JASPAR2024_CORE_vertebrates_non-redundant

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

columns aligned correlation cor TMgGTAcTgAgrTc

POU6F2 MA0793.2 R 9 0.6429 0.726 0.467 NA NA

RUNX3 MA0684.3 R 8 0.5714 0.709 0.405 NA NA

Total matches= 2

JASPAR2024_CORE_vertebrates_non-redundant

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

columns aligned correlation cor cAGyACCGAGGwg

REST MA0138.3 D 13 0.6500 0.709 0.461 NA NA

Total matches= 1

JASPAR2024_CORE_vertebrates_non-redundant

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

columns aligned correlation cor gwgAycTCAgTACCdA

Total matches= 0

JASPAR2024_CORE_vertebrates_non-redundant

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

columns aligned correlation cor rcCGAggAGmT

Total matches= 0

Motif locations (sites)

Motif comparisons

Logs and parameter files

Publications

Results

RSAT - peak-motifs result

Analysis: Exc_L3-4_RORB_CUX2_control_MDD_down (16/05/2025 17:31)

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 TmrGTAcTGAGrW Total matches= 0

JASPAR2024_CORE_vertebrates_non-redundant name id strand Nb overlap % Pearson Normalized aligned col. motif aligned col. match columns aligned correlation cor AGyACCGAGGwg ZNF343 MA1711.2 R 10 0.5556 0.752 0.418 NA NA Total matches= 1

JASPAR2024_CORE_vertebrates_non-redundant name id strand Nb overlap % Pearson Normalized aligned col. motif aligned col. match columns aligned correlation cor TMgGTAcTgAgrTc POU6F2 MA0793.2 R 9 0.6429 0.726 0.467 NA NA RUNX3 MA0684.3 R 8 0.5714 0.709 0.405 NA NA Total matches= 2

JASPAR2024_CORE_vertebrates_non-redundant name id strand Nb overlap % Pearson Normalized aligned col. motif aligned col. match columns aligned correlation cor cAGyACCGAGGwg REST MA0138.3 D 13 0.6500 0.709 0.461 NA NA Total matches= 1

JASPAR2024_CORE_vertebrates_non-redundant name id strand Nb overlap % Pearson Normalized aligned col. motif aligned col. match columns aligned correlation cor gwgAycTCAgTACCdA Total matches= 0

JASPAR2024_CORE_vertebrates_non-redundant name id strand Nb overlap % Pearson Normalized aligned col. motif aligned col. match columns aligned correlation cor rcCGAggAGmT Total matches= 0

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 TmrGTAcTGAGrW

Total matches= 0

JASPAR2024_CORE_vertebrates_non-redundant

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

columns aligned correlation cor AGyACCGAGGwg

ZNF343 MA1711.2 R 10 0.5556 0.752 0.418 NA NA

Total matches= 1

JASPAR2024_CORE_vertebrates_non-redundant

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

columns aligned correlation cor TMgGTAcTgAgrTc

POU6F2 MA0793.2 R 9 0.6429 0.726 0.467 NA NA

RUNX3 MA0684.3 R 8 0.5714 0.709 0.405 NA NA

Total matches= 2

JASPAR2024_CORE_vertebrates_non-redundant

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

columns aligned correlation cor cAGyACCGAGGwg

REST MA0138.3 D 13 0.6500 0.709 0.461 NA NA

Total matches= 1

JASPAR2024_CORE_vertebrates_non-redundant

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

columns aligned correlation cor gwgAycTCAgTACCdA

Total matches= 0

JASPAR2024_CORE_vertebrates_non-redundant

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

columns aligned correlation cor rcCGAggAGmT

Total matches= 0