peak-motifs MEK15vsNT

peak-motifs  -v 1 -title MEK15vsNT -i $RSAT/public_html/tmp/www-data/2025/09/18/peak-motifs.2025-09-18.101343_2025-09-18.101343_yH5yEv/peak-motifspeak_seq -ctrl $RSAT/public_html/tmp/www-data/2025/09/18/peak-motifs.2025-09-18.101343_2025-09-18.101343_yH5yEv/peak-motifscontrol_seq -markov auto -disco oligos,dyads,positions -nmotifs 5 -minol 6 -maxol 7 -no_merge_lengths -2str -origin center -scan_markov 1 -task purge,seqlen,composition,disco,merge_motifs,split_motifs,motifs_vs_motifs,timelog,archive,synthesis,small_summary,scan -prefix peak-motifs -noov -img_format png -outdir $RSAT/public_html/tmp/www-data/2025/09/18/peak-motifs.2025-09-18.101343_2025-09-18.101343_yH5yEv

Sequence composition (test sequences)

Nb of peaks: 2440
Total seq. size: 490 kb
Min length: 201 bp
Mean length: 201 bp
Max length: 201 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: 3101
Total seq. size: 623 kb
Min length: 201 bp
Mean length: 201 bp
Max length: 201 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

oligos_6nt_test_vs_ctrl

oligos_6nt_test_vs_ctrl_m1	assembly: atccac (sig=0.48; e-value=0.33)	RC: gtggat
oligos_6nt_test_vs_ctrl_m2	assembly: ggatga (sig=0.38; e-value=0.42)	RC: tcatcc
oligos_6nt_test_vs_ctrl_m3	: (sig=; e-value=1)	RC:
oligos_6nt_test_vs_ctrl_m4	: (sig=; e-value=1)	RC:
oligos_6nt_test_vs_ctrl_m5	: (sig=; e-value=1)	RC:

[ discovered words: text ]
[ assembly: text sig matrices ]
[ matrices: tab format transfac format ]

oligos_7nt_test_vs_ctrl

Not a single significant pattern

[oligos_7nt_test_vs_ctrl]

dyads_test_vs_ctrl

dyads_test_vs_ctrl_m1	assembly: gcgnnnnnnnnncta (sig=1.32; e-value=0.048)	RC: tagnnnnnnnnncgc
dyads_test_vs_ctrl_m2	assembly: ctgnnnnnnnnnnnaag (sig=0.73; e-value=0.19)	RC: cttnnnnnnnnnnncag
dyads_test_vs_ctrl_m3	assembly: gatnnnnnnnnnnnnnnnnnaga (sig=1.32; e-value=0.048)	RC: tctnnnnnnnnnnnnnnnnnatc
dyads_test_vs_ctrl_m4	assembly: cagnnnnnnnnnnnnnnnnnncca (sig=1.32; e-value=0.048)	RC: tggnnnnnnnnnnnnnnnnnnctg
dyads_test_vs_ctrl_m5	: (sig=; e-value=1)	RC:

[ discovered words: text ]
[ assembly: text sig matrices ]
[ matrices: tab format transfac format ]

Motif discovery

Motif 1 oligos_6nt_test_vs_ctrl_m1

k-mer sig=0.48; evalue=0.33

ayATCCACrk

MYGTGGATRT

[ 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: 224 (9.18%)
Max nb of predicted sites per peak: 8
(3:9777818-9778019)
Mean nb of predicted sites per peak: 1.20

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

Motif 2 oligos_6nt_test_vs_ctrl_m2

k-mer sig=0.38; evalue=0.42

vdGGATGAcs

SGTCATCCHB

[ 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: 304 (12.46%)
Max nb of predicted sites per peak: 3
(X:151907229-151907430)
Mean nb of predicted sites per peak: 1.15

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

Motif 3 dyads_test_vs_ctrl_m1

k-mer sig=1.32; evalue=0.048

csGCGssbssssssCTasr

YSTAGSSSSSSVSSCGCSG

[ 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: 179 (7.34%)
Max nb of predicted sites per peak: 14
(4:129820362-129820563)
Mean nb of predicted sites per peak: 2.07

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

Motif 4 dyads_test_vs_ctrl_m2

k-mer sig=0.73; evalue=0.19

ykCTGmggcssksvdgAAGra

TYCTTCHBSMSSGCCKCAGMR

[ 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: 148 (6.07%)
Max nb of predicted sites per peak: 3
(5:150444461-150444662)
Mean nb of predicted sites per peak: 1.07

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

Motif 5 dyads_test_vs_ctrl_m3

k-mer sig=1.32; evalue=0.048

ssgaTgsksscsscssCsymasagmys

SRKCTSTKRSGSSGSSGSSMSCATCSS

[ 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: 232 (9.51%)
Max nb of predicted sites per peak: 53
(4:129820362-129820563)
Mean nb of predicted sites per peak: 3.33

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

Motif 6 dyads_test_vs_ctrl_m4

k-mer sig=1.32; evalue=0.048

sscvGyrkcssssscsCyrCaGscsvsg

CSBSGSCTGYRGSGSSSSSGMYRCBGSS

[ 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: 232 (9.51%)
Max nb of predicted sites per peak: 51
(4:129820362-129820563)
Mean nb of predicted sites per peak: 3.88

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

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]

RSAT - peak-motifs result

Analysis: MEK15vsNT (18/09/2025 10:14)

Command

Sequence composition

Discovered motifs (by algorithm)

Discovered motifs (with motif comparison)

Motif locations (sites)

Motif comparisons

Logs and parameter files

Publications

Results