peak-motifs cucurbit

motif discovery

oligos_6nt_mkv4

oligos_6nt_mkv4_m1	assembly: gctttac (sig=12.97; e-value=1.1e-13)	RC: gtaaagc
oligos_6nt_mkv4_m2	assembly: caattc (sig=9.07; e-value=8.5e-10)	RC: gaattg
oligos_6nt_mkv4_m3	assembly: gacaata (sig=7.07; e-value=8.5e-08)	RC: tattgtc
oligos_6nt_mkv4_m4	assembly: cttaac (sig=6.94; e-value=1.1e-07)	RC: gttaag
oligos_6nt_mkv4_m5	assembly: catatc (sig=6.41; e-value=3.9e-07)	RC: gatatg

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

positions_6nt

positions_6nt_m1	assembly: aaacct (sig=0.60; e-value=0.25)	RC: aggttt
positions_6nt_m2	assembly: ctaaga (sig=0.17; e-value=0.68)	RC: tcttag
positions_6nt_m3	: (sig=; e-value=1)	RC:
positions_6nt_m4	: (sig=; e-value=1)	RC:
positions_6nt_m5	: (sig=; e-value=1)	RC:

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

oligos_7nt_mkv5

oligos_7nt_mkv5_m1	assembly: acaatatc (sig=10.71; e-value=1.9e-11)	RC: gatattgt
oligos_7nt_mkv5_m2	assembly: acttttac (sig=9.15; e-value=7.1e-10)	RC: gtaaaagt
oligos_7nt_mkv5_m3	assembly: ctttttc (sig=8.62; e-value=2.4e-09)	RC: gaaaaag
oligos_7nt_mkv5_m4	assembly: acaaaaac (sig=7.23; e-value=5.9e-08)	RC: gtttttgt
oligos_7nt_mkv5_m5	assembly: tcaaaatc (sig=6.87; e-value=1.3e-07)	RC: gattttga

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

positions_7nt

positions_7nt_m1	assembly: agctgac (sig=0.33; e-value=0.47)	RC: gtcagct
positions_7nt_m2	assembly: ggagcca (sig=0.22; e-value=0.6)	RC: tggctcc
positions_7nt_m3	: (sig=; e-value=1)	RC:
positions_7nt_m4	: (sig=; e-value=1)	RC:
positions_7nt_m5	: (sig=; e-value=1)	RC:

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

Motif discovery

Motif 1 oligos_6nt_mkv4_m1

k-mer sig=12.97; evalue=1.1e-13

btGCTTTACyr

YRGTAAAGCAV

[ 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: 775 (10.61%)
Max nb of predicted sites per peak: 7
(cficifolia_CM066977_6797058..6799627#DNA_DTC)
Mean nb of predicted sites per peak: 1.13

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

Motif 2 oligos_6nt_mkv4_m2

k-mer sig=9.07; evalue=8.5e-10

hbCAATTCmc

GKGAATTGVD

[ 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: 2701 (36.99%)
Max nb of predicted sites per peak: 10
(cargyrosperma_02:144551..149177#DNA_DTT)
Mean nb of predicted sites per peak: 1.28

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

Motif 3 oligos_6nt_mkv4_m3

k-mer sig=7.07; evalue=8.5e-08

tsGACaATAks

SMTATTGTCSA

[ 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: 1038 (14.22%)
Max nb of predicted sites per peak: 7
(cficifolia_CM066970_10319552..10324190#DNA_DTH)
Mean nb of predicted sites per peak: 1.21

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

Motif 4 oligos_6nt_mkv4_m4

k-mer sig=6.94; evalue=1.1e-07

ysCTTAACcs

SGGTTAAGSR

[ 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: 1648 (22.57%)
Max nb of predicted sites per peak: 6
(cmoschata_SINE_43#SINE)
Mean nb of predicted sites per peak: 1.14

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

Motif 5 oligos_6nt_mkv4_m5

k-mer sig=6.41; evalue=3.9e-07

syCATATCby

RVGATATGRS

[ 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: 3021 (41.38%)
Max nb of predicted sites per peak: 20
(cmoschata_Chr20_5559507_5566446#Class_I_LTR_Ty3_gypsy_chromovirus_CRM)
Mean nb of predicted sites per peak: 1.29

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

Motif 6 positions_6nt_m1

k-mer sig=0.60; evalue=0.25

srAAACCTbb

VVAGGTTTYS

[ 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: 2419 (33.13%)
Max nb of predicted sites per peak: 6
(csororia_06:10392030..10393643#DNA_DTC)
Mean nb of predicted sites per peak: 1.25

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

Motif 7 positions_6nt_m2

k-mer sig=0.17; evalue=0.68

tcCTAAGAmr

YKTCTTAGGA

[ 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: 2045 (28.01%)
Max nb of predicted sites per peak: 4
(cpepo_Cp4.1LG12_4214394_4222055#Class_I_LTR_Ty3_gypsy_chromovirus_Tekay)
Mean nb of predicted sites per peak: 1.21

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

Motif 8 oligos_7nt_mkv5_m1

k-mer sig=10.71; evalue=1.9e-11

srACAATATChr

YDGATATTGTYS

[ 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: 1096 (15.01%)
Max nb of predicted sites per peak: 7
(cpepo_Cp4.1LG19:7156994..7160551#DNA_DTC)
Mean nb of predicted sites per peak: 1.14

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

Motif 9 oligos_7nt_mkv5_m2

k-mer sig=9.15; evalue=7.1e-10

amaCTTTTACmw

WKGTAAAAGTKT

[ 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: 690 (9.45%)
Max nb of predicted sites per peak: 3
(csororia_Chr14_7843393_7856119#Class_I_LTR_Ty1_copia_SIRE)
Mean nb of predicted sites per peak: 1.03

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

Motif 10 oligos_7nt_mkv5_m3

k-mer sig=8.62; evalue=2.4e-09

wyCTTtTTCrk

MYGAAAAAGRW

[ 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: 2172 (29.75%)
Max nb of predicted sites per peak: 4
(cmoschata_Chr04_11153926_11162031#Class_I_LTR_Ty1_copia_SIRE)
Mean nb of predicted sites per peak: 1.27

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

Motif 11 oligos_7nt_mkv5_m4

k-mer sig=7.23; evalue=5.9e-08

mmaCAAAAaCwm

KWGTTTTTGTKK

[ 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: 1338 (18.33%)
Max nb of predicted sites per peak: 3
(cficifolia_CM066963_8227852..8232315#DNA_DTC)
Mean nb of predicted sites per peak: 1.03

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

Motif 12 oligos_7nt_mkv5_m5

k-mer sig=6.87; evalue=1.3e-07

syTCAAAaTCaw

WTGATTTTGARS

[ 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: 802 (10.98%)
Max nb of predicted sites per peak: 4
(csororia_13:390285..393681#DNA_DTH)
Mean nb of predicted sites per peak: 1.04

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

Motif 13 positions_7nt_m1

k-mer sig=0.33; evalue=0.47

svAGCTGACgb

VCGTCAGCTBS

[ 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: 1259 (17.24%)
Max nb of predicted sites per peak: 3
(csororia_Chr15_6237266_6242138#Class_I_LTR_Ty1_copia_Ivana)
Mean nb of predicted sites per peak: 1.09

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

Motif 14 positions_7nt_m2

k-mer sig=0.22; evalue=0.6

gtGGAGCCArv

BYTGGCTCCAC

[ 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: 736 (10.08%)
Max nb of predicted sites per peak: 3
(csororia_20:7787013..7788193#DNA_DTM)
Mean nb of predicted sites per peak: 1.07

[ 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: cucurbit (20/01/2025 10:57)

Command

Sequence composition

Discovered motifs (by algorithm)

Discovered motifs (with motif comparison)

Motif locations (sites)

Motif comparisons

Logs and parameter files

Publications

Results