peak-motifs Exc_L3-4_RORB_CUX2_MDD_off_on_drugs

Sequence composition (test sequences)

Nb of peaks: 1
Total seq. size: 1 kb
Min length: 716 bp
Mean length: 716 bp
Max length: 716 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=0.14; evalue=0.72

hWAATRTAvm

KBTAYATTWD

[ 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 hWAATRTAvm

MEF2C MA0497.2 D 10 0.9091 0.712 0.647 NA NA

MEF2A MA0052.5 D 9 0.8182 0.722 0.591 NA NA

Arid5a MA0602.2 D 8 0.8000 0.709 0.567 NA NA

Total matches= 9 (6 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: 3
(chr10:69657215-69657930)
Mean nb of predicted sites per peak: 3.00

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

Motif 2 oligos_6nt_mkv1_m2

k-mer sig=0.04; evalue=0.91

kmAGACAAdk

MHTTGTCTKM

[ 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 kmAGACAAdk

Sox6 MA0515.1 R 9 0.8182 0.760 0.622 NA NA

Smad4 MA1153.2 R 7 0.7000 0.790 0.553 NA NA

SRY MA0084.2 D 7 0.7000 0.764 0.535 NA NA

Total matches= 15 (12 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
(chr10:69657215-69657930)
Mean nb of predicted sites per peak: 4.00

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

Motif 3 oligos_7nt_mkv1_m1

k-mer sig=1.18; evalue=0.066

wtAAATATAam

KTTATATTTAW

[ 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 wtAAATATAam

MEF2C MA0497.2 D 11 1.0000 0.755 0.755 NA NA

MEF2A MA0052.5 D 10 0.9091 0.765 0.696 NA NA

Hmga1 MA2124.1 R 8 0.7273 0.797 0.579 NA NA

Total matches= 7 (4 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: 5
(chr10:69657215-69657930)
Mean nb of predicted sites per peak: 5.00

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

Motif 4 oligos_7nt_mkv1_m2

k-mer sig=0.84; evalue=0.14

raAyACAATTry

RYAATTGTRTTY

[ 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 raAyACAATTry

PHOX2A MA0713.1 D 11 0.9167 0.703 0.644 NA NA

SOX18 MA1563.2 D 8 0.6667 0.806 0.537 NA NA

BARX2 MA1471.2 D 9 0.7500 0.714 0.535 NA NA

Total matches= 44 (41 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: 5
(chr10:69657215-69657930)
Mean nb of predicted sites per peak: 5.00

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

Motif 5 oligos_7nt_mkv1_m3

k-mer sig=0.11; evalue=0.78

yhAGTAAyWGhd

HDCWRTTACTDR

[ 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 yhAGTAAyWGhd

ZNF189 MA1725.2 R 9 0.7500 0.725 0.543 NA NA

OVOL2 MA1545.2 R 7 0.5833 0.761 0.444 NA NA

BARX2 MA1471.2 R 8 0.6154 0.711 0.437 NA NA

Total matches= 9 (6 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: 3
(chr10:69657215-69657930)
Mean nb of predicted sites per peak: 3.00

[ 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_MDD_off_on_drugs_down (16/05/2025 18:37)

Command

Sequence composition

Discovered motifs (by algorithm)

Discovered motifs (with motif comparison)

Motif locations (sites)

Motif comparisons

Logs and parameter files

Publications

Results