peak-motifs CD4_smokersCpG

Motif discovery

Motif 1 oligos_6nt_test_vs_ctrl_m1

k-mer sig=7.42; evalue=3.8e-08

hmMAAwwwAMArAdw

WHTYTKTWWWTTKKD

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

ENCODE

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

columns aligned correlation cor hmMAAwwwAMArAdw

ZNF35_1 ZNF35_1 D 15 1.0000 0.718 0.718 NA NA

SIX5_disc4 SIX5_disc4 D 10 0.6667 0.730 0.487 NA NA

FOXA_known3 FOXA_known3 D 11 0.6471 0.708 0.458 NA NA

Total matches= 8 (5 more)

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

JASPAR2024_CORE_vertebrates_non-redundant

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

columns aligned correlation cor hmMAAwwwAMArAdw

Dmrt1 MA1603.2 D 9 0.6000 0.711 0.427 NA NA

ZNF384 MA1125.2 D 8 0.5333 0.786 0.419 NA NA

Hmga1 MA2124.1 R 8 0.5333 0.780 0.416 NA NA

Total matches= 3

[ 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: 4 (5.06%)
Max nb of predicted sites per peak: 10
(chr16:30485664-30485704)
Mean nb of predicted sites per peak: 3.25

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

Motif 2 oligos_6nt_test_vs_ctrl_m2

k-mer sig=7.14; evalue=7.2e-08

wvCAAATTAsy

RSTAATTTGBW

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

ENCODE

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

columns aligned correlation cor wvCAAATTAsy

DLX1_2 DLX1_2 D 10 0.9091 0.831 0.755 NA NA

PAX4_2 PAX4_2 D 11 1.0000 0.734 0.734 NA NA

HOXD8_2 HOXD8_2 D 10 0.9091 0.806 0.732 NA NA

Total matches= 133 (130 more)

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

JASPAR2024_CORE_vertebrates_non-redundant

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

columns aligned correlation cor wvCAAATTAsy

Lhx1 MA1518.3 D 10 0.9091 0.744 0.676 NA NA

PHOX2B MA0681.3 D 10 0.7692 0.778 0.599 NA NA

PAX4 MA0068.2 D 8 0.7273 0.815 0.593 NA NA

Total matches= 81 (78 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: 7 (8.86%)
Max nb of predicted sites per peak: 1
(chr8:21914580-21914620)
Mean nb of predicted sites per peak: 1.00

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

Motif 3 oligos_6nt_test_vs_ctrl_m3

k-mer sig=7.42; evalue=3.8e-08

MwwACwAmAkACAAmwr

YWKTTGTMTKTWGTWWK

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

ENCODE

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

columns aligned correlation cor MwwACwAmAkACAAmwr

FOXO3_2 FOXO3_2 D 12 0.7059 0.731 0.516 NA NA

SIX5_disc4 SIX5_disc4 D 10 0.5882 0.763 0.449 NA NA

SRY_2 SRY_2 D 11 0.6111 0.715 0.437 NA NA

Total matches= 3

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

JASPAR2024_CORE_vertebrates_non-redundant

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

columns aligned correlation cor MwwACwAmAkACAAmwr

Foxq1 MA0040.2 R 10 0.5882 0.723 0.426 NA NA

Total matches= 1

[ 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: 4 (5.06%)
Max nb of predicted sites per peak: 9
(chr16:30485664-30485704)
Mean nb of predicted sites per peak: 3.00

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

Motif 4 oligos_6nt_test_vs_ctrl_m4

k-mer sig=2.93; evalue=0.0012

TGGGATTACAGSC

GSCTGTAATCCCA

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

ENCODE

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

columns aligned correlation cor TGGGATTACAGSC

PITX2_1 PITX2_1 R 10 0.7143 0.838 0.598 NA NA

GSC2_1 GSC2_1 R 10 0.7692 0.752 0.578 NA NA

PITX1_2 PITX1_2 R 9 0.6923 0.834 0.577 NA NA

Total matches= 19 (16 more)

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

JASPAR2024_CORE_vertebrates_non-redundant

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

columns aligned correlation cor TGGGATTACAGSC

ZNF85 MA1720.2 D 12 0.9231 0.713 0.659 NA NA

PITX2 MA1547.2 R 8 0.6154 0.873 0.537 NA NA

OTX2 MA0712.3 D 7 0.5385 0.988 0.532 NA NA

Total matches= 11 (8 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: 4 (5.06%)
Max nb of predicted sites per peak: 1
(chr7:110730785-110730825)
Mean nb of predicted sites per peak: 1.00

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

Motif 5 oligos_6nt_test_vs_ctrl_m5

k-mer sig=2.81; evalue=0.0015

gaTATGAAmak

MTKTTCATATC

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

ENCODE

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

columns aligned correlation cor gaTATGAAmak

NANOG_disc1 NANOG_disc1 D 10 0.9091 0.748 0.680 NA NA

POU2F2_known15 POU2F2_known15 D 11 0.9167 0.719 0.659 NA NA

POU2F2_2 POU2F2_2 D 10 0.8333 0.730 0.608 NA NA

Total matches= 21 (18 more)

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

JASPAR2024_CORE_vertebrates_non-redundant

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

columns aligned correlation cor gaTATGAAmak

POU3F1 MA0786.2 D 10 0.9091 0.725 0.659 NA NA

POU2F1 MA0785.2 D 9 0.8182 0.729 0.596 NA NA

POU5F1B MA0792.1 D 9 0.8182 0.727 0.594 NA NA

Total matches= 11 (8 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: 6 (7.59%)
Max nb of predicted sites per peak: 3
(chr7:110731181-110731221)
Mean nb of predicted sites per peak: 1.33

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

Motif 6 oligos_7nt_test_vs_ctrl_m1

k-mer sig=4.99; evalue=1e-05

MRyATACAAAkgr

YCMTTTGTATRYK

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

ENCODE

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

columns aligned correlation cor MRyATACAAAkgr

POU2F2_known15 POU2F2_known15 D 12 0.9231 0.719 0.664 NA NA

POU1F1_5 POU1F1_5 D 13 0.9286 0.708 0.658 NA NA

POU2F2_known11 POU2F2_known11 R 11 0.8462 0.756 0.639 NA NA

Total matches= 29 (26 more)

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

JASPAR2024_CORE_vertebrates_non-redundant

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

columns aligned correlation cor MRyATACAAAkgr

POU2F2 MA0507.3 D 12 0.8571 0.736 0.631 NA NA

POU2F3 MA0627.3 D 9 0.6923 0.795 0.551 NA NA

Dmrt1 MA1603.2 D 9 0.6923 0.786 0.544 NA NA

Total matches= 16 (13 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: 4 (5.06%)
Max nb of predicted sites per peak: 1
(chr7:110731181-110731221)
Mean nb of predicted sites per peak: 1.00

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

Motif 7 oligos_7nt_test_vs_ctrl_m2

k-mer sig=4.65; evalue=2.2e-05

whwACTAAAwAmh

DKTWTTTAGTWDW

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

ENCODE

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

columns aligned correlation cor whwACTAAAwAmh

LHX2_2 LHX2_2 D 10 0.7692 0.711 0.547 NA NA

HOXD12_2 HOXD12_2 D 9 0.6923 0.701 0.485 NA NA

NKX6-1_4 NKX6-1_4 D 8 0.6154 0.732 0.451 NA NA

Total matches= 7 (4 more)

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

JASPAR2024_CORE_vertebrates_non-redundant

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

columns aligned correlation cor whwACTAAAwAmh

HMBOX1 MA0895.2 R 7 0.5385 0.800 0.431 NA NA

FOXE1 MA1487.3 D 9 0.5625 0.740 0.417 NA NA

Total matches= 2

[ 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: 6 (7.59%)
Max nb of predicted sites per peak: 2
(chr7:145814286-145814326)
Mean nb of predicted sites per peak: 1.17

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

Motif 8 oligos_7nt_test_vs_ctrl_m3

k-mer sig=2.66; evalue=0.0022

ktAAGTTACwT

AWGTAACTTAM

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

ENCODE

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

columns aligned correlation cor ktAAGTTACwT

MYC_disc6 MYC_disc6 D 9 0.8182 0.711 0.582 NA NA

NKX3-1_2 NKX3-1_2 R 7 0.6364 0.728 0.463 NA NA

NKX2-5_4 NKX2-5_4 D 7 0.6364 0.709 0.451 NA NA

Total matches= 4 (1 more)

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

JASPAR2024_CORE_vertebrates_non-redundant

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

columns aligned correlation cor ktAAGTTACwT

DMRTA2 MA1478.2 D 6 0.5455 0.864 0.471 NA NA

HLF MA0043.4 R 7 0.5385 0.766 0.413 NA NA

ISL2 MA0914.2 R 6 0.5455 0.744 0.406 NA NA

Total matches= 4 (1 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: 4 (5.06%)
Max nb of predicted sites per peak: 2
(chr1:43406772-43406812)
Mean nb of predicted sites per peak: 1.25

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

Motif 9 oligos_7nt_test_vs_ctrl_m4

k-mer sig=2.49; evalue=0.0032

ysCAAATTACyb

VRGTAATTTGSR

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

ENCODE

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

columns aligned correlation cor ysCAAATTACyb

TLX2_1 TLX2_1 R 10 0.8333 0.779 0.649 NA NA

DLX1_2 DLX1_2 D 10 0.8333 0.736 0.613 NA NA

GBX1_2 GBX1_2 D 10 0.8333 0.732 0.610 NA NA

Total matches= 56 (53 more)

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

JASPAR2024_CORE_vertebrates_non-redundant

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

columns aligned correlation cor ysCAAATTACyb

POU2F2 MA0507.3 D 10 0.6667 0.766 0.511 NA NA

PAX4 MA0068.2 D 8 0.6667 0.762 0.508 NA NA

HOXD3 MA0912.2 D 8 0.6667 0.744 0.496 NA NA

Total matches= 33 (30 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: 8 (10.13%)
Max nb of predicted sites per peak: 1
(chr7:65817262-65817302)
Mean nb of predicted sites per peak: 1.00

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

Motif 10 oligos_7nt_test_vs_ctrl_m5

k-mer sig=2.43; evalue=0.0037

TRGGATTACAGGCGT

ACGCCTGTAATCCYA

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

ENCODE

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

columns aligned correlation cor TRGGATTACAGGCGT

PITX2_1 PITX2_1 R 10 0.6250 0.818 0.511 NA NA

GSC2_1 GSC2_1 R 10 0.6667 0.732 0.488 NA NA

PITX1_3 PITX1_3 R 9 0.6000 0.805 0.483 NA NA

Total matches= 17 (14 more)

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

JASPAR2024_CORE_vertebrates_non-redundant

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

columns aligned correlation cor TRGGATTACAGGCGT

PITX2 MA1547.2 R 8 0.5333 0.874 0.466 NA NA

OTX2 MA0712.3 D 7 0.4667 0.992 0.463 NA NA

Ptf1A MA1620.2 R 8 0.5333 0.786 0.419 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: 3 (3.80%)
Max nb of predicted sites per peak: 1
(chr7:110730785-110730825)
Mean nb of predicted sites per peak: 1.00

[ 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 ENCODE database		[ table: html txt ] [ alignments (logo): html text ] [ graph: gml (for CytoScape) ]
Motifs versus JASPAR2024_CORE_vertebrates_non-redundant 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: CD4_smokersCpG (08/06/2026 13:46)

Command

Sequence composition

Discovered motifs (by algorithm)

Discovered motifs (with motif comparison)

JASPAR2024_CORE_vertebrates_non-redundant

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

columns aligned correlation cor MwwACwAmAkACAAmwr

Foxq1 MA0040.2 R 10 0.5882 0.723 0.426 NA NA

Total matches= 1

JASPAR2024_CORE_vertebrates_non-redundant

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

columns aligned correlation cor whwACTAAAwAmh

HMBOX1 MA0895.2 R 7 0.5385 0.800 0.431 NA NA

FOXE1 MA1487.3 D 9 0.5625 0.740 0.417 NA NA

Total matches= 2

Motif locations (sites)

Motif comparisons

Logs and parameter files

Publications

Results

RSAT - peak-motifs result

Analysis: CD4_smokersCpG (08/06/2026 13:46)

Command

Sequence composition

Discovered motifs (by algorithm)

Discovered motifs (with motif comparison)

ENCODE name id strand Nb overlap % Pearson Normalized aligned col. motif aligned col. match columns aligned correlation cor wvCAAATTAsy DLX1_2 DLX1_2 D 10 0.9091 0.831 0.755 NA NA PAX4_2 PAX4_2 D 11 1.0000 0.734 0.734 NA NA HOXD8_2 HOXD8_2 D 10 0.9091 0.806 0.732 NA NA Total matches= 133 (130 more)

ENCODE name id strand Nb overlap % Pearson Normalized aligned col. motif aligned col. match columns aligned correlation cor MwwACwAmAkACAAmwr FOXO3_2 FOXO3_2 D 12 0.7059 0.731 0.516 NA NA SIX5_disc4 SIX5_disc4 D 10 0.5882 0.763 0.449 NA NA SRY_2 SRY_2 D 11 0.6111 0.715 0.437 NA NA Total matches= 3

JASPAR2024_CORE_vertebrates_non-redundant name id strand Nb overlap % Pearson Normalized aligned col. motif aligned col. match columns aligned correlation cor MwwACwAmAkACAAmwr Foxq1 MA0040.2 R 10 0.5882 0.723 0.426 NA NA Total matches= 1

JASPAR2024_CORE_vertebrates_non-redundant name id strand Nb overlap % Pearson Normalized aligned col. motif aligned col. match columns aligned correlation cor whwACTAAAwAmh HMBOX1 MA0895.2 R 7 0.5385 0.800 0.431 NA NA FOXE1 MA1487.3 D 9 0.5625 0.740 0.417 NA NA Total matches= 2

ENCODE name id strand Nb overlap % Pearson Normalized aligned col. motif aligned col. match columns aligned correlation cor ysCAAATTACyb TLX2_1 TLX2_1 R 10 0.8333 0.779 0.649 NA NA DLX1_2 DLX1_2 D 10 0.8333 0.736 0.613 NA NA GBX1_2 GBX1_2 D 10 0.8333 0.732 0.610 NA NA Total matches= 56 (53 more)

Motif locations (sites)

Motif comparisons

Logs and parameter files

Publications

Results

JASPAR2024_CORE_vertebrates_non-redundant

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

columns aligned correlation cor MwwACwAmAkACAAmwr

Foxq1 MA0040.2 R 10 0.5882 0.723 0.426 NA NA

Total matches= 1

JASPAR2024_CORE_vertebrates_non-redundant

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

columns aligned correlation cor whwACTAAAwAmh

HMBOX1 MA0895.2 R 7 0.5385 0.800 0.431 NA NA

FOXE1 MA1487.3 D 9 0.5625 0.740 0.417 NA NA

Total matches= 2