peak-motifs centers_v_flanks_corrected_mar

Sequence composition (test sequences)

Nb of peaks: 3942
Total seq. size: 3938 kb
Min length: 999 bp
Mean length: 999 bp
Max length: 999 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: 7480
Total seq. size: 7473 kb
Min length: 999 bp
Mean length: 999 bp
Max length: 999 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_6-8nt_m1

k-mer sig=10.62; evalue=2.4e-11

grGGcaGaGGGAGAGGAGGgGarr

YYTCCCCTCCTCTCCCTCTGCCYC

[ 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: 1397 (35.44%)
Max nb of predicted sites per peak: 71
(chr1:54405850-54406850)
Mean nb of predicted sites per peak: 2.72

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

Motif 2 oligos_6-8nt_m2

k-mer sig=7.87; evalue=1.3e-08

grGGAGCAGGAGGGGagg

CCTCCCCTCCTGCTCCYC

[ 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: 1203 (30.52%)
Max nb of predicted sites per peak: 33
(chr1:54405850-54406850)
Mean nb of predicted sites per peak: 1.75

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

Motif 3 oligos_6-8nt_m3

k-mer sig=7.73; evalue=1.9e-08

yyCtCTTCCChs

SDGGGAAGAGRR

[ 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: 819 (20.78%)
Max nb of predicted sites per peak: 8
(chr16:89137000-89138000)
Mean nb of predicted sites per peak: 1.16

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

Motif 4 oligos_6-8nt_m4

k-mer sig=10.62; evalue=2.4e-11

grsAGAGGGAGAGAGGAGGgGagr

YCTCCCCTCCTCTCTCCCTCTSYC

[ 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: 1302 (33.03%)
Max nb of predicted sites per peak: 66
(chr19:50491100-50492100)
Mean nb of predicted sites per peak: 2.63

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

Motif 5 oligos_6-8nt_m5

k-mer sig=10.62; evalue=2.4e-11

rrGGaGAGGAGGtGGGaGgGGagg

CCTCCCCTCCCACCTCCTCTCCYY

[ 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: 1436 (36.43%)
Max nb of predicted sites per peak: 87
(chr21:39312550-39313550)
Mean nb of predicted sites per peak: 3.00

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

Motif 6 oligos_6-8nt_m6

k-mer sig=5.63; evalue=2.3e-06

cyCCAGCCCAGCcy

RGGCTGGGCTGGRG

[ 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: 1395 (35.39%)
Max nb of predicted sites per peak: 19
(chr22:48497100-48498100)
Mean nb of predicted sites per peak: 1.56

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

Motif 7 oligos_6-8nt_m7

k-mer sig=6.92; evalue=1.2e-07

tcACTGCmmCCTCCcyCTCCCagg

CCTGGGAGRGGGAGGKKGCAGTGA

[ 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: 1777 (45.08%)
Max nb of predicted sites per peak: 38
(chr1:54405850-54406850)
Mean nb of predicted sites per peak: 1.77

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

Motif 8 oligos_6-8nt_m8

k-mer sig=7.73; evalue=1.9e-08

sdGGGAAGGGtGAgg

CCTCACCCTTCCCHS

[ 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: 835 (21.18%)
Max nb of predicted sites per peak: 9
(chr13:113542650-113543650)
Mean nb of predicted sites per peak: 1.25

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

Motif 9 oligos_6-8nt_m9

k-mer sig=3.66; evalue=0.00022

rgGTCAGGGGAgg

CCTCCCCTGACCY

[ 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: 727 (18.44%)
Max nb of predicted sites per peak: 6
(chr22:48497100-48498100)
Mean nb of predicted sites per peak: 1.14

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

Motif 10 oligos_6-8nt_m10

k-mer sig=6.92; evalue=1.2e-07

ccmaCCCCTCCCTCTCCCaCCTsc

GSAGGTGGGAGAGGGAGGGGTKGG

[ 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: 1204 (30.54%)
Max nb of predicted sites per peak: 57
(chr7:98281100-98282100)
Mean nb of predicted sites per peak: 2.15

[ 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: centers_v_flanks_corrected_mar_22 (22/03/2026 22:27)

Command

Sequence composition

Discovered motifs (by algorithm)

Discovered motifs (with motif comparison)

Motif locations (sites)

Motif comparisons

Logs and parameter files

Publications

Results