peak-motifs MEsalmon4

motif discovery

oligos_6nt_test_vs_ctrl

oligos_6nt_test_vs_ctrl_m1	assembly: tacata (sig=0.63; e-value=0.23)	RC: tatgta
oligos_6nt_test_vs_ctrl_m2	: (sig=; e-value=1)	RC:
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:
oligos_6nt_test_vs_ctrl_m6	: (sig=; e-value=1)	RC:
oligos_6nt_test_vs_ctrl_m7	: (sig=; e-value=1)	RC:
oligos_6nt_test_vs_ctrl_m8	: (sig=; e-value=1)	RC:
oligos_6nt_test_vs_ctrl_m9	: (sig=; e-value=1)	RC:
oligos_6nt_test_vs_ctrl_m10	: (sig=; e-value=1)	RC:

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

oligos_7nt_test_vs_ctrl

oligos_7nt_test_vs_ctrl_m1	assembly: ggcgtca (sig=1.34; e-value=0.046)	RC: tgacgcc
oligos_7nt_test_vs_ctrl_m2	assembly: tatgtaa (sig=0.56; e-value=0.28)	RC: ttacata
oligos_7nt_test_vs_ctrl_m3	: (sig=; e-value=1)	RC:
oligos_7nt_test_vs_ctrl_m4	: (sig=; e-value=1)	RC:
oligos_7nt_test_vs_ctrl_m5	: (sig=; e-value=1)	RC:
oligos_7nt_test_vs_ctrl_m6	: (sig=; e-value=1)	RC:
oligos_7nt_test_vs_ctrl_m7	: (sig=; e-value=1)	RC:
oligos_7nt_test_vs_ctrl_m8	: (sig=; e-value=1)	RC:
oligos_7nt_test_vs_ctrl_m9	: (sig=; e-value=1)	RC:
oligos_7nt_test_vs_ctrl_m10	: (sig=; e-value=1)	RC:

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

oligos_8nt_test_vs_ctrl

oligos_8nt_test_vs_ctrl_m1	assembly: tgacgcca (sig=0.94; e-value=0.11)	RC: tggcgtca
oligos_8nt_test_vs_ctrl_m2	: (sig=; e-value=1)	RC:
oligos_8nt_test_vs_ctrl_m3	: (sig=; e-value=1)	RC:
oligos_8nt_test_vs_ctrl_m4	: (sig=; e-value=1)	RC:
oligos_8nt_test_vs_ctrl_m5	: (sig=; e-value=1)	RC:
oligos_8nt_test_vs_ctrl_m6	: (sig=; e-value=1)	RC:
oligos_8nt_test_vs_ctrl_m7	: (sig=; e-value=1)	RC:
oligos_8nt_test_vs_ctrl_m8	: (sig=; e-value=1)	RC:
oligos_8nt_test_vs_ctrl_m9	: (sig=; e-value=1)	RC:
oligos_8nt_test_vs_ctrl_m10	: (sig=; e-value=1)	RC:

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

dyads_test_vs_ctrl

dyads_test_vs_ctrl_m1	assembly: catnnnnnnnnnnnnnntag (sig=1.45; e-value=0.035)	RC: ctannnnnnnnnnnnnnatg
dyads_test_vs_ctrl_m2	assembly: taatnnnnnnnnnntac (sig=0.32; e-value=0.48)	RC: gtannnnnnnnnnatta
dyads_test_vs_ctrl_m3	assembly: cgtnnnnnnnnnnnnata (sig=0.26; e-value=0.55)	RC: tatnnnnnnnnnnnnacg
dyads_test_vs_ctrl_m4	assembly: agtnnnnnnnnnnnnnncta (sig=0.32; e-value=0.48)	RC: tagnnnnnnnnnnnnnnact
dyads_test_vs_ctrl_m5	: (sig=; e-value=1)	RC:
dyads_test_vs_ctrl_m6	: (sig=; e-value=1)	RC:
dyads_test_vs_ctrl_m7	: (sig=; e-value=1)	RC:
dyads_test_vs_ctrl_m8	: (sig=; e-value=1)	RC:
dyads_test_vs_ctrl_m9	: (sig=; e-value=1)	RC:
dyads_test_vs_ctrl_m10	: (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=0.63; evalue=0.23

rwTACATAdw

WHTATGTAWY

[ k-mers: statistics assemblies ]
[ matrix: tab_format transfac_format ]

footprintDB-plants

name id strand Nb overlap % Pearson Normalized aligned col. motif aligned col. match

columns aligned correlation cor rwTACATAdw

ANAC55:ANAC55_2:ArabidopsisPBM ANAC55/ANAC55_2/ArabidopsisPBM R 10 1.0000 0.707 0.707 NA NA

AT3G49930:UN0355.1:JASPAR AT3G49930/UN0355.1/JASPAR D 10 0.9091 0.733 0.667 NA NA

LOC_Os09g31400:M0683_1.02:CISBP LOC_Os09g31400/M0683_1.02/CISBP R 9 0.7500 0.737 0.552 NA NA

Total matches= 20 (17 more)

[ match table: html text ]
[ alignments (logos): html text ]

Predicted sites on test peaks

Distribution of sites

Nb of predicted sites per peak

Nb peaks with at least one predicted site: 90 (17.05%)
Max nb of predicted sites per peak: 3
(gene-Lalb_Chr13g0302751)
Mean nb of predicted sites per peak: 1.11

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

Motif 2 oligos_7nt_test_vs_ctrl_m1

k-mer sig=1.34; evalue=0.046

ktGGCGtCamg

CKTGACGCCAM

[ k-mers: statistics assemblies ]
[ matrix: tab_format transfac_format ]

footprintDB-plants

name id strand Nb overlap % Pearson Normalized aligned col. motif aligned col. match

columns aligned correlation cor ktGGCGtCamg

TGA7:MA1070.1:JASPAR TGA7/MA1070.1/JASPAR R 10 0.9091 0.794 0.722 NA NA

AT1G77920:M0259_1.02:CISBP AT1G77920/M0259_1.02/CISBP R 10 0.9091 0.793 0.721 NA NA

GRMZM2G087741:M1210_1.02:CISBP GRMZM2G087741/M1210_1.02/CISBP R 10 0.9091 0.780 0.709 NA NA

Total matches= 85 (82 more)

[ match table: html text ]
[ alignments (logos): html text ]

Predicted sites on test peaks

Distribution of sites

Nb of predicted sites per peak

Nb peaks with at least one predicted site: 65 (12.31%)
Max nb of predicted sites per peak: 3
(gene-Lalb_Chr17g0335621)
Mean nb of predicted sites per peak: 1.25

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

Motif 3 oligos_7nt_test_vs_ctrl_m2

k-mer sig=0.56; evalue=0.28

mmTAtGTAAsk

MSTTACATAKK

[ k-mers: statistics assemblies ]
[ matrix: tab_format transfac_format ]

footprintDB-plants

name id strand Nb overlap % Pearson Normalized aligned col. motif aligned col. match

columns aligned correlation cor mmTAtGTAAsk

ANAC55:ANAC55_2:ArabidopsisPBM ANAC55/ANAC55_2/ArabidopsisPBM R 10 0.9091 0.755 0.687 NA NA

e_gw1.327.11.1:M1415_1.02:CISBP e_gw1.327.11.1/M1415_1.02/CISBP D 10 0.9091 0.753 0.684 NA NA

NAC083:MA1043.1:JASPAR NAC083/MA1043.1/JASPAR D 10 0.9091 0.708 0.643 NA NA

Total matches= 30 (27 more)

[ match table: html text ]
[ alignments (logos): html text ]

Predicted sites on test peaks

Distribution of sites

Nb of predicted sites per peak

Nb peaks with at least one predicted site: 145 (27.46%)
Max nb of predicted sites per peak: 4
(gene-Lalb_Chr12g0207721)
Mean nb of predicted sites per peak: 1.28

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

Motif 4 oligos_8nt_test_vs_ctrl_m1

k-mer sig=0.94; evalue=0.11

cgtGaCGCCacv

BGTGGCGTCACG

[ k-mers: statistics assemblies ]
[ matrix: tab_format transfac_format ]

footprintDB-plants

name id strand Nb overlap % Pearson Normalized aligned col. motif aligned col. match

columns aligned correlation cor cgtGaCGCCacv

Zm00001d042907:UN0432.1:JASPAR Zm00001d042907/UN0432.1/JASPAR D 11 0.8462 0.873 0.738 NA NA

TGA3.ampDAP:M0226:AthalianaCistrome TGA3.ampDAP/M0226/AthalianaCistrome R 12 0.9231 0.779 0.719 NA NA

TGA3:MA1336.2:JASPAR TGA3/MA1336.2/JASPAR D 11 0.9167 0.782 0.717 NA NA

Total matches= 61 (58 more)

[ match table: html text ]
[ alignments (logos): html text ]

Predicted sites on test peaks

Distribution of sites

Nb of predicted sites per peak

Nb peaks with at least one predicted site: 59 (11.17%)
Max nb of predicted sites per peak: 3
(gene-Lalb_Chr16g0377571)
Mean nb of predicted sites per peak: 1.24

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

Motif 5 dyads_test_vs_ctrl_m1

k-mer sig=1.45; evalue=0.035

dhCatrbhytwbwwkkkrtTaGkk

MMCTAAYMMMWWVWARDVYATGDH

[ k-mers: statistics assemblies ]
[ matrix: tab_format transfac_format ]

footprintDB-plants

name id strand Nb overlap % Pearson Normalized aligned col. motif aligned col. match

columns aligned correlation cor dhCatrbhytwbwwkkkrtTaGkk

Total matches= 0

No match

Predicted sites on test peaks

Distribution of sites

Nb of predicted sites per peak

Nb peaks with at least one predicted site: 65 (12.31%)
Max nb of predicted sites per peak: 2
(gene-Lalb_Chr07g0188431)
Mean nb of predicted sites per peak: 1.09

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

Motif 6 dyads_test_vs_ctrl_m2

k-mer sig=0.32; evalue=0.48

dytaatRswttabwtvtaCty

RAGTABAWVTAAWSYATTARH

[ k-mers: statistics assemblies ]
[ matrix: tab_format transfac_format ]

footprintDB-plants

name id strand Nb overlap % Pearson Normalized aligned col. motif aligned col. match

columns aligned correlation cor dytaatRswttabwtvtaCty

Total matches= 0

No match

Predicted sites on test peaks

Distribution of sites

Nb of predicted sites per peak

Nb peaks with at least one predicted site: 37 (7.01%)
Max nb of predicted sites per peak: 2
(gene-Lalb_Chr06g0170071)
Mean nb of predicted sites per peak: 1.05

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

Motif 7 dyads_test_vs_ctrl_m3

k-mer sig=0.26; evalue=0.55

hdCGtaswstwbwMsycatagw

WCTATGRSKWVWASWSTACGHD

[ k-mers: statistics assemblies ]
[ matrix: tab_format transfac_format ]

footprintDB-plants

name id strand Nb overlap % Pearson Normalized aligned col. motif aligned col. match

columns aligned correlation cor hdCGtaswstwbwMsycatagw

Total matches= 0

No match

Predicted sites on test peaks

Distribution of sites

Nb of predicted sites per peak

Nb peaks with at least one predicted site: 38 (7.20%)
Max nb of predicted sites per peak: 2
(gene-Lalb_Chr21g0309371)
Mean nb of predicted sites per peak: 1.03

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

Motif 8 dyads_test_vs_ctrl_m4

k-mer sig=0.32; evalue=0.48

tkaGtahwGtwywCbmattCtakm

KMTAGAATKVGWRWACWDTACTMA

[ k-mers: statistics assemblies ]
[ matrix: tab_format transfac_format ]

footprintDB-plants

name id strand Nb overlap % Pearson Normalized aligned col. motif aligned col. match

columns aligned correlation cor tkaGtahwGtwywCbmattCtakm

Total matches= 0

No match

Predicted sites on test peaks

Distribution of sites

Nb of predicted sites per peak

Nb peaks with at least one predicted site: 58 (10.98%)
Max nb of predicted sites per peak: 2
(gene-Lalb_Chr10g0100061)
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) ]
Discovered motifs versus transcription factor databases
Motifs versus footprintDB-plants database		[ table: html txt ] [ alignments (logo): html text ] [ graph: gml (for CytoScape) ]

Log files
Parameters and files		[txt] [html]
Time log		[time table] [time log] [html]

RSAT - peak-motifs result

Analysis: MEsalmon4_Up2 (25/05/2025 14:06)

Command

Sequence composition

Discovered motifs (by algorithm)

Discovered motifs (with motif comparison)

footprintDB-plants

name id strand Nb overlap % Pearson Normalized aligned col. motif aligned col. match

columns aligned correlation cor dhCatrbhytwbwwkkkrtTaGkk

Total matches= 0

footprintDB-plants

name id strand Nb overlap % Pearson Normalized aligned col. motif aligned col. match

columns aligned correlation cor dytaatRswttabwtvtaCty

Total matches= 0

footprintDB-plants

name id strand Nb overlap % Pearson Normalized aligned col. motif aligned col. match

columns aligned correlation cor hdCGtaswstwbwMsycatagw

Total matches= 0

footprintDB-plants

name id strand Nb overlap % Pearson Normalized aligned col. motif aligned col. match

columns aligned correlation cor tkaGtahwGtwywCbmattCtakm

Total matches= 0

Motif locations (sites)

Motif comparisons

Logs and parameter files

Publications

Results

RSAT - peak-motifs result

Analysis: MEsalmon4_Up2 (25/05/2025 14:06)

Command

Sequence composition

Discovered motifs (by algorithm)

Discovered motifs (with motif comparison)

footprintDB-plants name id strand Nb overlap % Pearson Normalized aligned col. motif aligned col. match columns aligned correlation cor dhCatrbhytwbwwkkkrtTaGkk Total matches= 0

footprintDB-plants name id strand Nb overlap % Pearson Normalized aligned col. motif aligned col. match columns aligned correlation cor dytaatRswttabwtvtaCty Total matches= 0

footprintDB-plants name id strand Nb overlap % Pearson Normalized aligned col. motif aligned col. match columns aligned correlation cor hdCGtaswstwbwMsycatagw Total matches= 0

footprintDB-plants name id strand Nb overlap % Pearson Normalized aligned col. motif aligned col. match columns aligned correlation cor tkaGtahwGtwywCbmattCtakm Total matches= 0

Motif locations (sites)

Motif comparisons

Logs and parameter files

Publications

Results

footprintDB-plants

name id strand Nb overlap % Pearson Normalized aligned col. motif aligned col. match

columns aligned correlation cor dhCatrbhytwbwwkkkrtTaGkk

Total matches= 0

footprintDB-plants

name id strand Nb overlap % Pearson Normalized aligned col. motif aligned col. match

columns aligned correlation cor dytaatRswttabwtvtaCty

Total matches= 0

footprintDB-plants

name id strand Nb overlap % Pearson Normalized aligned col. motif aligned col. match

columns aligned correlation cor hdCGtaswstwbwMsycatagw

Total matches= 0

footprintDB-plants

name id strand Nb overlap % Pearson Normalized aligned col. motif aligned col. match

columns aligned correlation cor tkaGtahwGtwywCbmattCtakm

Total matches= 0