peak-motifs hupA48h-inf3

Sequence composition (test sequences)

Nb of peaks: 277
Total seq. size: 88 kb
Min length: 214 bp
Mean length: 316.704 bp
Max length: 1000 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: 16361
Total seq. size: 8197 kb
Min length: 279 bp
Mean length: 500.985 bp
Max length: 501 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_6nt_test_vs_ctrl_m1

k-mer sig=25.66; evalue=2.2e-26

hhgcccAACTcgtys

SRACGAGTTGGGCDD

[ 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: 68 (24.55%)
Max nb of predicted sites per peak: 3
(SAM_deltaHupA_HupSHA_48h_merge_vs_INPUT_peak_13)
Mean nb of predicted sites per peak: 1.16

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

Motif 2 oligos_6nt_test_vs_ctrl_m2

k-mer sig=24.01; evalue=9.8e-25

wmgcccAACTgghcg

CGDCCAGTTGGGCKW

[ 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: 81 (29.24%)
Max nb of predicted sites per peak: 3
(SAM_deltaHupA_HupSHA_48h_merge_vs_INPUT_peak_13)
Mean nb of predicted sites per peak: 1.09

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

Motif 3 oligos_6nt_test_vs_ctrl_m3

k-mer sig=13.32; evalue=4.8e-14

wckccgAACTcgtys

SRACGAGTTCGGMGW

[ 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: 73 (26.35%)
Max nb of predicted sites per peak: 4
(SAM_deltaHupA_HupSHA_48h_merge_vs_INPUT_peak_435)
Mean nb of predicted sites per peak: 1.18

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

Motif 4 oligos_6nt_test_vs_ctrl_m4

k-mer sig=25.66; evalue=2.2e-26

wygcccAACTcccmtwcs

SGWAKGGGAGTTGGGCRW

[ 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: 78 (28.16%)
Max nb of predicted sites per peak: 3
(SAM_deltaHupA_HupSHA_48h_merge_vs_INPUT_peak_475)
Mean nb of predicted sites per peak: 1.18

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

Motif 5 oligos_6nt_test_vs_ctrl_m5

k-mer sig=25.66; evalue=2.2e-26

rkrcgAgTTgAgTTcrgmwy

RWKCYGAACTCAACTCGYMY

[ 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: 28 (10.11%)
Max nb of predicted sites per peak: 2
(SAM_deltaHupA_HupSHA_48h_merge_vs_INPUT_peak_743)
Mean nb of predicted sites per peak: 1.11

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

Motif 6 oligos_7nt_test_vs_ctrl_m1

k-mer sig=15.91; evalue=1.2e-16

wyscccAACTcccyy

RRGGGAGTTGGGSRW

[ 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: 65 (23.47%)
Max nb of predicted sites per peak: 2
(SAM_deltaHupA_HupSHA_48h_merge_vs_INPUT_peak_912)
Mean nb of predicted sites per peak: 1.11

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

Motif 7 oligos_7nt_test_vs_ctrl_m2

k-mer sig=15.91; evalue=1.2e-16

hcscccAACTcggys

SRCCGAGTTGGGSGD

[ 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: 68 (24.55%)
Max nb of predicted sites per peak: 2
(SAM_deltaHupA_HupSHA_48h_merge_vs_INPUT_peak_812)
Mean nb of predicted sites per peak: 1.06

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

Motif 8 oligos_7nt_test_vs_ctrl_m3

k-mer sig=6.62; evalue=2.4e-07

cgccgAgTTcggcg

CGCCGAACTCGGCG

[ 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: 78 (28.16%)
Max nb of predicted sites per peak: 3
(SAM_deltaHupA_HupSHA_48h_merge_vs_INPUT_peak_711)
Mean nb of predicted sites per peak: 1.18

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

Motif 9 oligos_7nt_test_vs_ctrl_m4

k-mer sig=15.91; evalue=1.2e-16

srgggAgTTggcgrt

AYCGCCAACTCCCYS

[ 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: 55 (19.86%)
Max nb of predicted sites per peak: 2
(SAM_deltaHupA_HupSHA_48h_merge_vs_INPUT_peak_804)
Mean nb of predicted sites per peak: 1.16

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

Motif 10 oligos_7nt_test_vs_ctrl_m5

k-mer sig=7.14; evalue=7.2e-08

hmccccAACTggccg

CGGCCAGTTGGGGKD

[ 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: 66 (23.83%)
Max nb of predicted sites per peak: 2
(SAM_deltaHupA_HupSHA_48h_merge_vs_INPUT_peak_783)
Mean nb of predicted sites per peak: 1.12

[ 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: hupA48h-inf3 (22/01/2026 08:47)

Command

Sequence composition

Discovered motifs (by algorithm)

Discovered motifs (with motif comparison)

Motif locations (sites)

Motif comparisons

Logs and parameter files

Publications

Results