peak-motifs MEtan

motif discovery

oligos_6nt_test_vs_ctrl

oligos_6nt_test_vs_ctrl_m1	assembly: agtgggg (sig=2.09; e-value=0.0081)	RC: ccccact
oligos_6nt_test_vs_ctrl_m2	assembly: actcac (sig=0.39; e-value=0.41)	RC: gtgagt
oligos_6nt_test_vs_ctrl_m3	assembly: cacaag (sig=0.29; e-value=0.51)	RC: cttgtg
oligos_6nt_test_vs_ctrl_m4	assembly: caacta (sig=0.12; e-value=0.76)	RC: tagttg
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: ccactgac (sig=0.37; e-value=0.43)	RC: gtcagtgg
oligos_7nt_test_vs_ctrl_m2	assembly: caagggc (sig=0.01; e-value=0.98)	RC: gcccttg
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: actcacaa (sig=0.03; e-value=0.93)	RC: ttgtgagt
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: agtggg (sig=1.22; e-value=0.06)	RC: cccact
dyads_test_vs_ctrl_m2	assembly: gacncac (sig=0.57; e-value=0.27)	RC: gtgngtc
dyads_test_vs_ctrl_m3	assembly: gtannnnnnnnnnnnnnnnnnnntaa (sig=1.22; e-value=0.06)	RC: ttannnnnnnnnnnnnnnnnnnntac
dyads_test_vs_ctrl_m4	: (sig=; e-value=1)	RC:
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=2.09; evalue=0.0081

gkaGtGGGGvk

MBCCCCACTMC

[ 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 gkaGtGGGGvk

TCP20:M1647_1.02:CISBP TCP20/M1647_1.02/CISBP R 10 0.9091 0.768 0.698 NA NA

TCP20:MA1065.1:JASPAR TCP20/MA1065.1/JASPAR R 10 0.9091 0.766 0.696 NA NA

XM_002876964.1:M1652_1.02:CISBP XM_002876964.1/M1652_1.02/CISBP R 8 0.7273 0.822 0.597 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: 57 (33.33%)
Max nb of predicted sites per peak: 4
(gene-Lalb_Chr05g0215261)
Mean nb of predicted sites per peak: 1.28

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

Motif 2 oligos_6nt_test_vs_ctrl_m2

k-mer sig=0.39; evalue=0.41

yvACTCACrm

KYGTGAGTBR

[ 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 yvACTCACrm

AZF1.ampDAP:M0324:AthalianaCistrome AZF1.ampDAP/M0324/AthalianaCistrome R 10 0.9091 0.753 0.685 NA NA

AZF1:MA2372.1:JASPAR AZF1/MA2372.1/JASPAR D 9 0.9000 0.759 0.683 NA NA

AtMYB101_II:AtMYB101_II:AthaMYB AtMYB101_II/AtMYB101_II/AthaMYB R 8 0.8000 0.721 0.577 NA NA

Total matches= 23 (20 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: 40 (23.39%)
Max nb of predicted sites per peak: 2
(gene-Lalb_Chr20g0123051)
Mean nb of predicted sites per peak: 1.20

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

Motif 3 oligos_6nt_test_vs_ctrl_m3

k-mer sig=0.29; evalue=0.51

cyCACaaGck

MGCTTGTGRG

[ 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 cyCACaaGck

fgenesh1_pg.C_Chr_14.0001000151:M0253_1.02:CISBP fgenesh1_pg.C_Chr_14.0001000151/M0253_1.02/CISBP R 10 1.0000 0.729 0.729 NA NA

NAC68:MA2051.2:JASPAR NAC68/MA2051.2/JASPAR D 7 0.6364 0.909 0.578 NA NA

NAC68:MA2051.1:JASPAR NAC68/MA2051.1/JASPAR D 9 0.6923 0.819 0.567 NA NA

Total matches= 101 (98 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: 37 (21.64%)
Max nb of predicted sites per peak: 3
(gene-Lalb_Chr09g0326831)
Mean nb of predicted sites per peak: 1.24

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

Motif 4 oligos_6nt_test_vs_ctrl_m4

k-mer sig=0.12; evalue=0.76

syCAACTAvr

YBTAGTTGRS

[ 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 syCAACTAvr

MYB99:UN0368.1:JASPAR MYB99/UN0368.1/JASPAR D 10 1.0000 0.753 0.753 NA NA

MYB96:MA2030.2:JASPAR MYB96/MA2030.2/JASPAR D 10 0.9091 0.798 0.726 NA NA

AtMYB85_II:AtMYB85_II:AthaMYB AtMYB85_II/AtMYB85_II/AthaMYB R 8 0.8000 0.885 0.708 NA NA

Total matches= 112 (109 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: 50 (29.24%)
Max nb of predicted sites per peak: 2
(gene-Lalb_Chr23g0266371)
Mean nb of predicted sites per peak: 1.22

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

Motif 5 oligos_7nt_test_vs_ctrl_m1

k-mer sig=0.37; evalue=0.43

rsCCACTGaCss

SSGTCAGTGGSY

[ 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 rsCCACTGaCss

CEJ1.ampDAP:M0026:AthalianaCistrome CEJ1.ampDAP/M0026/AthalianaCistrome D 12 0.9231 0.750 0.692 NA NA

DEAR3.ampDAP:M0031:AthalianaCistrome DEAR3.ampDAP/M0031/AthalianaCistrome R 12 0.9231 0.745 0.688 NA NA

At2g44940.ampDAP:M0052:AthalianaCistrome At2g44940.ampDAP/M0052/AthalianaCistrome R 12 0.9231 0.729 0.673 NA NA

Total matches= 96 (93 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: 30 (17.54%)
Max nb of predicted sites per peak: 4
(gene-Lalb_Chr25g0281581)
Mean nb of predicted sites per peak: 1.27

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

Motif 6 oligos_7nt_test_vs_ctrl_m2

k-mer sig=0.01; evalue=0.98

gmCAAGGGCmw

WKGCCCTTGKC

[ 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 gmCAAGGGCmw

PK06103.1:M1304_1.02:CISBP PK06103.1/M1304_1.02/CISBP D 8 0.7273 0.756 0.550 NA NA

TRFL5:M1316_1.02:CISBP TRFL5/M1316_1.02/CISBP D 8 0.7273 0.707 0.514 NA NA

TRFL5:UN0839.1:JASPAR TRFL5/UN0839.1/JASPAR R 7 0.6364 0.739 0.470 NA NA

Total matches= 5 (2 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: 19 (11.11%)
Max nb of predicted sites per peak: 2
(gene-Lalb_Chr21g0314041)
Mean nb of predicted sites per peak: 1.11

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

Motif 7 oligos_8nt_test_vs_ctrl_m1

k-mer sig=0.03; evalue=0.93

rhACtCACAArs

SYTTGTGAGTDY

[ 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 rhACtCACAArs

AZF1:MA2372.1:JASPAR AZF1/MA2372.1/JASPAR D 9 0.7500 0.719 0.539 NA NA

AtMYB101_II:AtMYB101_II:AthaMYB AtMYB101_II/AtMYB101_II/AthaMYB R 8 0.6667 0.717 0.478 NA NA

CRL1BOX:EEAD0081:EEADannot CRL1BOX/EEAD0081/EEADannot D 6 0.5000 0.878 0.439 NA NA

Total matches= 6 (3 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: 17 (9.94%)
Max nb of predicted sites per peak: 2
(gene-Lalb_Chr16g0381601)
Mean nb of predicted sites per peak: 1.12

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

Motif 8 dyads_test_vs_ctrl_m1

k-mer sig=1.22; evalue=0.06

gkaGtGGGdv

BHCCCACTMC

[ 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 gkaGtGGGdv

TCP20:M1647_1.02:CISBP TCP20/M1647_1.02/CISBP R 9 0.8182 0.821 0.672 NA NA

TCP20:MA1065.1:JASPAR TCP20/MA1065.1/JASPAR R 9 0.8182 0.819 0.670 NA NA

XM_002876964.1:M1652_1.02:CISBP XM_002876964.1/M1652_1.02/CISBP R 7 0.6364 0.882 0.562 NA NA

Total matches= 59 (56 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: 46 (26.90%)
Max nb of predicted sites per peak: 4
(gene-Lalb_Chr03g0028381)
Mean nb of predicted sites per peak: 1.22

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

Motif 9 dyads_test_vs_ctrl_m2

k-mer sig=0.57; evalue=0.27

scGaCyCACgs

SCGTGRGTCGS

[ 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 scGaCyCACgs

LEC1-A:UN0424.1:JASPAR LEC1-A/UN0424.1/JASPAR R 11 1.0000 0.703 0.703 NA NA

At1g72010.ampDAP:M0748:AthalianaCistrome At1g72010.ampDAP/M0748/AthalianaCistrome R 11 0.8462 0.722 0.611 NA NA

At1g69690.ampDAP:M0756:AthalianaCistrome At1g69690.ampDAP/M0756/AthalianaCistrome R 11 0.8462 0.712 0.603 NA NA

Total matches= 43 (40 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: 27 (15.79%)
Max nb of predicted sites per peak: 2
(gene-Lalb_Chr19g0127731)
Mean nb of predicted sites per peak: 1.11

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

Motif 10 dyads_test_vs_ctrl_m3

k-mer sig=1.22; evalue=0.06

ssgyaSySRSwCssvsgbbvkssmcyradm

KHTYRGKSSMBVVCSBSSGWSYSRSTRCSS

[ 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 ssgyaSySRSwCssvsgbbvkssmcyradm

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: 24 (14.04%)
Max nb of predicted sites per peak: 5
(gene-Lalb_Chr22g0356541)
Mean nb of predicted sites per peak: 1.46

[ 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: MEtan (21/05/2025 03:09)

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 ssgyaSySRSwCssvsgbbvkssmcyradm

Total matches= 0

Motif locations (sites)

Motif comparisons

Logs and parameter files

Publications

Results

RSAT - peak-motifs result

Analysis: MEtan (21/05/2025 03:09)

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 ssgyaSySRSwCssvsgbbvkssmcyradm 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 ssgyaSySRSwCssvsgbbvkssmcyradm

Total matches= 0