peak-motifs peks

Sequence composition (test sequences)

Nb of peaks: 109
Total seq. size: 46 kb
Min length: 151 bp
Mean length: 423 bp
Max length: 1000 bp [ view peaks in genome browser : ]
[ coordinates: UCSC BED track ]
[ 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) ]

Tetranucleotide composition profiles

Transition frequencies
Position profiles

[ 4nt: freq transitions ]
[ bg model: Inclusive format ]
[ profile: table html(individual) ]

Motif discovery

Motif 1 oligos_6nt_mkv3_m1

k-mer sig=5.21; evalue=6.2e-06

ybkRaCCAATCAga

TCTGATTGGTYMVR

[ 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: 57 (52.29%)
Max nb of predicted sites per peak: 5
(ChrD_C_glabrata_CBS138_bPeak_1)
Mean nb of predicted sites per peak: 1.32

[ view in genome browser :

]
[ sites: text BED (UCSC track) ]
[ distribution: text ]
[ sites per peak: text ]
[ enrichment: text graph ]

Motif 2 oligos_6nt_mkv3_m2

k-mer sig=4.29; evalue=5.1e-05

kyCCCTCCCcc

GGGGGAGGGRM

[ 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: 26 (23.85%)
Max nb of predicted sites per peak: 3
(ChrI_C_glabrata_CBS138_bPeak_2)
Mean nb of predicted sites per peak: 1.12

[ view in genome browser :

]
[ sites: text BED (UCSC track) ]
[ distribution: text ]
[ sites per peak: text ]
[ enrichment: text graph ]

Motif 3 oligos_6nt_mkv3_m3

k-mer sig=5.21; evalue=6.2e-06

tcTGATTGGCyv

BRGCCAATCAGA

[ 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: 50 (45.87%)
Max nb of predicted sites per peak: 3
(ChrL_C_glabrata_CBS138_bPeak_3)
Mean nb of predicted sites per peak: 1.18

[ view in genome browser :

]
[ sites: text BED (UCSC track) ]
[ distribution: text ]
[ sites per peak: text ]
[ enrichment: text graph ]

Motif 4 oligos_6nt_mkv3_m4

k-mer sig=3.24; evalue=0.00058

skCAtCGCyw

WRGCGATGMS

[ 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 (25.69%)
Max nb of predicted sites per peak: 4
(ChrH_C_glabrata_CBS138_bPeak_1)
Mean nb of predicted sites per peak: 1.39

[ view in genome browser :

]
[ sites: text BED (UCSC track) ]
[ distribution: text ]
[ sites per peak: text ]
[ enrichment: text graph ]

Motif 5 oligos_6nt_mkv3_m5

k-mer sig=1.03; evalue=0.093

rtCACATGhy

RDCATGTGAY

[ 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: 23 (21.10%)
Max nb of predicted sites per peak: 4
(ChrH_C_glabrata_CBS138_bPeak_7)
Mean nb of predicted sites per peak: 1.52

[ view in genome browser :

]
[ sites: text BED (UCSC track) ]
[ distribution: text ]
[ sites per peak: text ]
[ enrichment: text graph ]

Motif 6 oligos_6nt_mkv3_m6

k-mer sig=0.69; evalue=0.2

dtCACGTGah

DTCACGTGAH

[ 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: 20 (18.35%)
Max nb of predicted sites per peak: 6
(ChrA_C_glabrata_CBS138_bPeak_3)
Mean nb of predicted sites per peak: 2.05

[ view in genome browser :

]
[ sites: text BED (UCSC track) ]
[ distribution: text ]
[ sites per peak: text ]
[ enrichment: text graph ]

Motif 7 oligos_6nt_mkv3_m7

k-mer sig=0.56; evalue=0.28

rsCTCATCsc

GSGATGAGSY

[ 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: 25 (22.94%)
Max nb of predicted sites per peak: 3
(ChrM_C_glabrata_CBS138_bPeak_4)
Mean nb of predicted sites per peak: 1.36

[ view in genome browser :

]
[ sites: text BED (UCSC track) ]
[ distribution: text ]
[ sites per peak: text ]
[ enrichment: text graph ]

Motif 8 oligos_6nt_mkv3_m8

k-mer sig=0.19; evalue=0.65

syCTTATCyk

MRGATAAGRS

[ 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: 25 (22.94%)
Max nb of predicted sites per peak: 6
(ChrI_C_glabrata_CBS138_bPeak_7)
Mean nb of predicted sites per peak: 1.44

[ view in genome browser :

]
[ sites: text BED (UCSC track) ]
[ distribution: text ]
[ sites per peak: text ]
[ enrichment: text graph ]

Motif 9 oligos_6nt_mkv3_m9

k-mer sig=0.15; evalue=0.71

rvCtTGCCgs

SCGGCAAGBY

[ 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: 25 (22.94%)
Max nb of predicted sites per peak: 3
(ChrC_C_glabrata_CBS138_bPeak_1)
Mean nb of predicted sites per peak: 1.08

[ view in genome browser :

]
[ sites: text BED (UCSC track) ]
[ distribution: text ]
[ sites per peak: text ]
[ enrichment: text graph ]

Motif 10 oligos_7nt_mkv4_m1

k-mer sig=5.42; evalue=3.8e-06

rrCCAATCAgm

KCTGATTGGYY

[ 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: 46 (42.20%)
Max nb of predicted sites per peak: 3
(ChrL_C_glabrata_CBS138_bPeak_3)
Mean nb of predicted sites per peak: 1.22

[ view in genome browser :

]
[ sites: text BED (UCSC track) ]
[ distribution: text ]
[ sites per peak: text ]
[ enrichment: text graph ]

Motif 11 oligos_7nt_mkv4_m2

k-mer sig=4.22; evalue=6e-05

ktCAtGTGAyw

WRTCACATGAM

[ 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: 30 (27.52%)
Max nb of predicted sites per peak: 7
(ChrC_C_glabrata_CBS138_bPeak_4)
Mean nb of predicted sites per peak: 2.07

[ view in genome browser :

]
[ sites: text BED (UCSC track) ]
[ distribution: text ]
[ sites per peak: text ]
[ enrichment: text graph ]

Motif 12 oligos_7nt_mkv4_m3

k-mer sig=1.70; evalue=0.02

dsCGATGAGct

AGCTCATCGSH

[ 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: 21 (19.27%)
Max nb of predicted sites per peak: 3
(ChrM_C_glabrata_CBS138_bPeak_4)
Mean nb of predicted sites per peak: 1.38

[ view in genome browser :

]
[ sites: text BED (UCSC track) ]
[ distribution: text ]
[ sites per peak: text ]
[ enrichment: text graph ]

Motif 13 oligos_7nt_mkv4_m4

k-mer sig=0.44; evalue=0.36

tsATTGGTCmr

YKGACCAATSA

[ 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: 37 (33.94%)
Max nb of predicted sites per peak: 6
(ChrD_C_glabrata_CBS138_bPeak_1)
Mean nb of predicted sites per peak: 1.16

[ view in genome browser :

]
[ sites: text BED (UCSC track) ]
[ distribution: text ]
[ sites per peak: text ]
[ enrichment: text graph ]

Motif 14 oligos_7nt_mkv4_m5

k-mer sig=0.05; evalue=0.89

rmCCAATGAga

TCTCATTGGKY

[ 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: 42 (38.53%)
Max nb of predicted sites per peak: 4
(ChrD_C_glabrata_CBS138_bPeak_1)
Mean nb of predicted sites per peak: 1.26

[ view in genome browser :

]
[ sites: text BED (UCSC track) ]
[ 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: peks (29/05/2026 11:12)

Command

Sequence composition

Discovered motifs (by algorithm)

Discovered motifs (with motif comparison)

Motif locations (sites)

Motif comparisons

Logs and parameter files

Publications

Results