TOol for Motif TO Motif comparison (TOMTOM)

For further information on how to interpret these results or to get a copy of the MEME software please access http://meme.nbcr.net.

If you use TOMTOM in your research, please cite the following paper:
Shobhit Gupta, JA Stamatoyannopolous, Timothy Bailey and William Stafford Noble, "Quantifying similarity between motifs", Genome Biology, 8(2):R24, 2007.

Query Motifs  |  Target Databases  |  Matches  |  Program information  |  Explanation

Query Motifs

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Name 

Preview 

Matches 

List 

HGATAA
AGATAA
5 MA0035.2 (Gata1),  UP00100_1 (Gata6_primary),  MA0140.1 (Tal1::Gata1),  UP00032_1 (Gata3_primary),  MA0029.1 (Evi1)
CMCRCCC
CCCACCC
15 MA0039.2 (Klf4),  UP00099_2 (Ascl2_secondary),  UP00096_2 (Sox13_secondary),  UP00093_1 (Klf7_primary),  UP00043_2 (Bcl6b_secondary),  UP00002_1 (Sp4_primary),  MA0079.1 (SP1),  UP00007_1 (Egr1_primary),  MA0079.2 (SP1),  UP00033_2 (Zfp410_secondary)
SWGATA
CAGATA
2 MA0035.2 (Gata1),  MA0140.1 (Tal1::Gata1)
CMCRG
CCCAG
1 UP00088_2 (Plagl1_secondary)
TGAGTCAB
TGAGTCAT
4 MA0099.2 (AP1),  MA0150.1 (NFE2L2),  MA0099.1 (Fos),  UP00103_2 (Jundm2_secondary)
DTTTCY
TTTTCT
1 MA0152.1 (NFATC2)
CHGCC
CTGCC
2 UP00092_2 (Myb_secondary),  UP00081_2 (Mybl1_secondary)
AGATTA
AGATTA
1 UP00023_2 (Sox30_secondary)
TATYTW
TATTTT
1 MA0052.1 (MEF2A)
CAKCTGB
CATCTGC
5 MA0091.1 (TAL1::TCF3),  UP00046_2 (Tcfe2a_secondary),  UP00099_1 (Ascl2_primary),  MA0048.1 (NHLH1),  MA0055.1 (Myf)
CWCCWCCC
CTCCTCCC
1 UP00068_2 (Eomes_secondary)
ACGT
ACGT
6 MA0004.1 (Arnt),  MA0104.1 (Mycn),  MA0093.1 (USF1),  MA0058.1 (MAX),  MA0131.1 (MIZF),  MA0059.1 (MYC::MAX)
CACACRCR
CACACACA
3 UP00034_2 (Sox7_secondary),  UP00026_2 (Zscan4_secondary),  UP00042_2 (Gm397_secondary)
CTTCCTS
CTTCCTC
9 MA0144.1 (Stat3),  MA0156.1 (FEV),  UP00085_1 (Sfpi1_primary),  MA0080.2 (SPI1),  MA0081.1 (SPIB),  MA0062.1 (GABPA),  MA0080.1 (SPI1),  UP00015_1 (Ehf_primary),  MA0136.1 (ELF5)
CYTCCC
CCTCCC
2 MA0080.1 (SPI1),  MA0079.2 (SP1)
AAAAMAAA
AAAAAAAA
4 UP00077_2 (Srf_secondary),  UP00028_2 (Tcfap2e_secondary),  UP00407_2 (Elf3_secondary),  UP00058_2 (Tcf3_secondary)
ATTACAGG
ATTACAGG
1 UP00223_2 (Irx3_2226.1)
GCCACYGC
GCCACTGC
2 UP00031_1 (Zbtb3_primary),  MA0062.2 (GABPA)
AAATGT
AAATGT
1 UP00025_1 (Foxk1_primary)
AAMCACA
AACCACA
2 MA0002.2 (RUNX1),  MA0002.1 (RUNX1)
GWGACAGA
GAGACAGA
0
RCTGWTTA
ACTGATTA
0
TTTARAAA
TTTAAAAA
1 UP00077_2 (Srf_secondary)
CWGCAGC
CAGCAGC
3 MA0055.1 (Myf),  UP00099_1 (Ascl2_primary),  MA0048.1 (NHLH1)
BCTTATC
CCTTATC
5 MA0035.2 (Gata1),  UP00080_1 (Gata5_primary),  UP00100_1 (Gata6_primary),  UP00032_1 (Gata3_primary),  MA0029.1 (Evi1)
CATTTTA
CATTTTA
0
ACTTCCGS
ACTTCCGG
15 MA0062.2 (GABPA),  UP00015_1 (Ehf_primary),  MA0076.1 (ELK4),  UP00408_1 (Gabpa_primary),  MA0062.1 (GABPA),  MA0156.1 (FEV),  UP00022_2 (Zfp740_secondary),  UP00407_1 (Elf3_primary),  MA0080.1 (SPI1),  UP00085_1 (Sfpi1_primary)
GATTASA
GATTAGA
0
GCCTGGYA
GCCTGGCA
3 MA0092.1 (Hand1::Tcfe2a),  UP00060_2 (Max_secondary),  UP00092_2 (Myb_secondary)
CASACAC
CAGACAC
1 UP00042_2 (Gm397_secondary)
RGAAA
AGAAA
0
RTGACTAA
ATGACTAA
3 MA0150.1 (NFE2L2),  MA0099.1 (Fos),  MA0099.2 (AP1)
GTGACTK
GTGACTT
1 MA0067.1 (Pax2)
CACATGGY
CACATGGT
6 MA0059.1 (MYC::MAX),  MA0147.1 (Myc),  MA0058.1 (MAX),  MA0104.2 (Mycn),  MA0093.1 (USF1),  UP00046_2 (Tcfe2a_secondary)

Target Databases

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Database 

Number of Motifs 

Motifs Matched 

JASPAR_CORE_2009_vertebrates.meme 146 38
uniprobe_mouse.meme 386 39

Matches to Query: HGATAA

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Summary 

Alignment 

Name MA0035.2
Alt. Name Gata1
Database JASPAR_CORE_2009_vertebrates.meme
p-value 1.27047e-05
E-value 0.0067589
q-value 0.00975652
Overlap 6
Offset 2
Orientation Normal
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Summary 

Alignment 

Name UP00100_1
Alt. Name Gata6_primary
Database uniprobe_mouse.meme
p-value 2.54092e-05
E-value 0.0135177
q-value 0.00975652
Overlap 6
Offset 5
Orientation Normal
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Summary 

Alignment 

Name MA0140.1
Alt. Name Tal1::Gata1
Database JASPAR_CORE_2009_vertebrates.meme
p-value 2.75267e-05
E-value 0.0146442
q-value 0.00975652
Overlap 6
Offset 11
Orientation Normal
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Summary 

Alignment 

Name UP00032_1
Alt. Name Gata3_primary
Database uniprobe_mouse.meme
p-value 0.000211486
E-value 0.112511
q-value 0.0562192
Overlap 6
Offset 7
Orientation Normal
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Summary 

Alignment 

Name MA0029.1
Alt. Name Evi1
Database JASPAR_CORE_2009_vertebrates.meme
p-value 0.000366385
E-value 0.194917
q-value 0.0779166
Overlap 6
Offset 6
Orientation Normal
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Matches to Query: CMCRCCC

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Summary 

Alignment 

Name MA0039.2
Alt. Name Klf4
Database JASPAR_CORE_2009_vertebrates.meme
p-value 1.46202e-08
E-value 7.77796e-06
q-value 1.52814e-05
Overlap 7
Offset 2
Orientation Reverse Complement
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Summary 

Alignment 

Name UP00099_2
Alt. Name Ascl2_secondary
Database uniprobe_mouse.meme
p-value 1.80974e-05
E-value 0.00962783
q-value 0.00693582
Overlap 7
Offset 5
Orientation Normal
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Summary 

Alignment 

Name UP00096_2
Alt. Name Sox13_secondary
Database uniprobe_mouse.meme
p-value 1.99072e-05
E-value 0.0105906
q-value 0.00693582
Overlap 7
Offset 5
Orientation Reverse Complement
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Summary 

Alignment 

Name UP00093_1
Alt. Name Klf7_primary
Database uniprobe_mouse.meme
p-value 3.6641e-05
E-value 0.019493
q-value 0.00957454
Overlap 7
Offset 5
Orientation Normal
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Summary 

Alignment 

Name UP00043_2
Alt. Name Bcl6b_secondary
Database uniprobe_mouse.meme
p-value 0.00018327
E-value 0.0974995
q-value 0.0341202
Overlap 7
Offset 3
Orientation Normal
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Summary 

Alignment 

Name UP00002_1
Alt. Name Sp4_primary
Database uniprobe_mouse.meme
p-value 0.000201595
E-value 0.107248
q-value 0.0341202
Overlap 7
Offset 3
Orientation Normal
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Summary 

Alignment 

Name MA0079.1
Alt. Name SP1
Database JASPAR_CORE_2009_vertebrates.meme
p-value 0.000228507
E-value 0.121566
q-value 0.0341202
Overlap 7
Offset 2
Orientation Reverse Complement
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Summary 

Alignment 

Name UP00007_1
Alt. Name Egr1_primary
Database uniprobe_mouse.meme
p-value 0.00079896
E-value 0.425047
q-value 0.104387
Overlap 7
Offset 0
Orientation Normal
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Summary 

Alignment 

Name MA0079.2
Alt. Name SP1
Database JASPAR_CORE_2009_vertebrates.meme
p-value 0.000926894
E-value 0.493108
q-value 0.107646
Overlap 7
Offset 1
Orientation Normal
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Summary 

Alignment 

Name UP00033_2
Alt. Name Zfp410_secondary
Database uniprobe_mouse.meme
p-value 0.00109832
E-value 0.584309
q-value 0.110816
Overlap 7
Offset 4
Orientation Normal
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Summary 

Alignment 

Name MA0073.1
Alt. Name RREB1
Database JASPAR_CORE_2009_vertebrates.meme
p-value 0.00116624
E-value 0.620437
q-value 0.110816
Overlap 7
Offset 6
Orientation Normal
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Summary 

Alignment 

Name UP00102_1
Alt. Name Zic1_primary
Database uniprobe_mouse.meme
p-value 0.00183563
E-value 0.976553
q-value 0.122349
Overlap 7
Offset 0
Orientation Reverse Complement
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Summary 

Alignment 

Name UP00021_1
Alt. Name Zfp281_primary
Database uniprobe_mouse.meme
p-value 0.00187288
E-value 0.99637
q-value 0.122349
Overlap 7
Offset 2
Orientation Normal
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Summary 

Alignment 

Name UP00057_1
Alt. Name Zic2_primary
Database uniprobe_mouse.meme
p-value 0.00187288
E-value 0.99637
q-value 0.122349
Overlap 7
Offset 1
Orientation Reverse Complement
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Summary 

Alignment 

Name UP00006_1
Alt. Name Zic3_primary
Database uniprobe_mouse.meme
p-value 0.00187288
E-value 0.99637
q-value 0.122349
Overlap 7
Offset 0
Orientation Normal
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Matches to Query: SWGATA

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Summary 

Alignment 

Name MA0035.2
Alt. Name Gata1
Database JASPAR_CORE_2009_vertebrates.meme
p-value 7.6627e-07
E-value 0.000407656
q-value 0.000815311
Overlap 6
Offset 1
Orientation Normal
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Summary 

Alignment 

Name MA0140.1
Alt. Name Tal1::Gata1
Database JASPAR_CORE_2009_vertebrates.meme
p-value 1.66025e-06
E-value 0.000883254
q-value 0.000883254
Overlap 6
Offset 10
Orientation Normal
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Matches to Query: CMCRG

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Summary 

Alignment 

Name UP00088_2
Alt. Name Plagl1_secondary
Database uniprobe_mouse.meme
p-value 0.00134039
E-value 0.713088
q-value 1
Overlap 5
Offset 11
Orientation Reverse Complement
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Matches to Query: TGAGTCAB

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Summary 

Alignment 

Name MA0099.2
Alt. Name AP1
Database JASPAR_CORE_2009_vertebrates.meme
p-value 6.76585e-06
E-value 0.00359943
q-value 0.00718064
Overlap 7
Offset 0
Orientation Reverse Complement
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Summary 

Alignment 

Name MA0150.1
Alt. Name NFE2L2
Database JASPAR_CORE_2009_vertebrates.meme
p-value 1.88937e-05
E-value 0.0100514
q-value 0.010026
Overlap 8
Offset 3
Orientation Reverse Complement
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Summary 

Alignment 

Name MA0099.1
Alt. Name Fos
Database JASPAR_CORE_2009_vertebrates.meme
p-value 6.98064e-05
E-value 0.037137
q-value 0.0246953
Overlap 7
Offset 1
Orientation Normal
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Summary 

Alignment 

Name UP00103_2
Alt. Name Jundm2_secondary
Database uniprobe_mouse.meme
p-value 0.000148682
E-value 0.0790991
q-value 0.0315893
Overlap 8
Offset 5
Orientation Normal
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Matches to Query: DTTTCY

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Summary 

Alignment 

Name MA0152.1
Alt. Name NFATC2
Database JASPAR_CORE_2009_vertebrates.meme
p-value 0.0010977
E-value 0.583976
q-value 1
Overlap 6
Offset 0
Orientation Normal
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Matches to Query: CHGCC

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Summary 

Alignment 

Name UP00092_2
Alt. Name Myb_secondary
Database uniprobe_mouse.meme
p-value 0.00162566
E-value 0.864851
q-value 0.860007
Overlap 5
Offset 7
Orientation Normal
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Summary 

Alignment 

Name UP00081_2
Alt. Name Mybl1_secondary
Database uniprobe_mouse.meme
p-value 0.00185155
E-value 0.985025
q-value 0.860007
Overlap 5
Offset 7
Orientation Normal
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Matches to Query: AGATTA

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Summary 

Alignment 

Name UP00023_2
Alt. Name Sox30_secondary
Database uniprobe_mouse.meme
p-value 0.000740597
E-value 0.393998
q-value 0.787995
Overlap 6
Offset 2
Orientation Normal
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Matches to Query: TATYTW

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Summary 

Alignment 

Name MA0052.1
Alt. Name MEF2A
Database JASPAR_CORE_2009_vertebrates.meme
p-value 0.00160803
E-value 0.855473
q-value 1
Overlap 6
Offset 1
Orientation Normal
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Matches to Query: CAKCTGB

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Summary 

Alignment 

Name MA0091.1
Alt. Name TAL1::TCF3
Database JASPAR_CORE_2009_vertebrates.meme
p-value 1.3548e-05
E-value 0.00720752
q-value 0.0143241
Overlap 7
Offset 4
Orientation Normal
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Summary 

Alignment 

Name UP00046_2
Alt. Name Tcfe2a_secondary
Database uniprobe_mouse.meme
p-value 9.95037e-05
E-value 0.052936
q-value 0.052602
Overlap 7
Offset 6
Orientation Reverse Complement
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Summary 

Alignment 

Name UP00099_1
Alt. Name Ascl2_primary
Database uniprobe_mouse.meme
p-value 0.000183163
E-value 0.0974425
q-value 0.0645517
Overlap 7
Offset 6
Orientation Reverse Complement
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Summary 

Alignment 

Name MA0048.1
Alt. Name NHLH1
Database JASPAR_CORE_2009_vertebrates.meme
p-value 0.000345488
E-value 0.183799
q-value 0.0913199
Overlap 7
Offset 3
Orientation Normal
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Summary 

Alignment 

Name MA0055.1
Alt. Name Myf
Database JASPAR_CORE_2009_vertebrates.meme
p-value 0.00110342
E-value 0.587017
q-value 0.166661
Overlap 7
Offset 3
Orientation Reverse Complement
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Matches to Query: CWCCWCCC

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Summary 

Alignment 

Name UP00068_2
Alt. Name Eomes_secondary
Database uniprobe_mouse.meme
p-value 0.00107191
E-value 0.570257
q-value 0.676562
Overlap 8
Offset 7
Orientation Reverse Complement
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Matches to Query: ACGT

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Summary 

Alignment 

Name MA0004.1
Alt. Name Arnt
Database JASPAR_CORE_2009_vertebrates.meme
p-value 0.000636482
E-value 0.338608
q-value 0.136429
Overlap 4
Offset 1
Orientation Normal
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Summary 

Alignment 

Name MA0104.1
Alt. Name Mycn
Database JASPAR_CORE_2009_vertebrates.meme
p-value 0.000636482
E-value 0.338608
q-value 0.136429
Overlap 4
Offset 1
Orientation Normal
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Summary 

Alignment 

Name MA0093.1
Alt. Name USF1
Database JASPAR_CORE_2009_vertebrates.meme
p-value 0.000848553
E-value 0.45143
q-value 0.136429
Overlap 4
Offset 1
Orientation Normal
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Summary 

Alignment 

Name MA0058.1
Alt. Name MAX
Database JASPAR_CORE_2009_vertebrates.meme
p-value 0.00148449
E-value 0.789751
q-value 0.136429
Overlap 4
Offset 4
Orientation Normal
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Summary 

Alignment 

Name MA0131.1
Alt. Name MIZF
Database JASPAR_CORE_2009_vertebrates.meme
p-value 0.00148449
E-value 0.789751
q-value 0.136429
Overlap 4
Offset 2
Orientation Normal
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Summary 

Alignment 

Name MA0059.1
Alt. Name MYC::MAX
Database JASPAR_CORE_2009_vertebrates.meme
p-value 0.00169638
E-value 0.902477
q-value 0.136429
Overlap 4
Offset 4
Orientation Normal
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Matches to Query: CACACRCR

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Summary 

Alignment 

Name UP00034_2
Alt. Name Sox7_secondary
Database uniprobe_mouse.meme
p-value 0.000323711
E-value 0.172214
q-value 0.344428
Overlap 8
Offset 6
Orientation Reverse Complement
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Summary 

Alignment 

Name UP00026_2
Alt. Name Zscan4_secondary
Database uniprobe_mouse.meme
p-value 0.000695369
E-value 0.369936
q-value 0.369936
Overlap 8
Offset 5
Orientation Normal
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Summary 

Alignment 

Name UP00042_2
Alt. Name Gm397_secondary
Database uniprobe_mouse.meme
p-value 0.00127379
E-value 0.677658
q-value 0.451772
Overlap 8
Offset 5
Orientation Normal
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Matches to Query: CTTCCTS

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Summary 

Alignment 

Name MA0144.1
Alt. Name Stat3
Database JASPAR_CORE_2009_vertebrates.meme
p-value 0.000145907
E-value 0.0776224
q-value 0.0779823
Overlap 7
Offset 0
Orientation Reverse Complement
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Summary 

Alignment 

Name MA0156.1
Alt. Name FEV
Database JASPAR_CORE_2009_vertebrates.meme
p-value 0.0002185
E-value 0.116242
q-value 0.0779823
Overlap 7
Offset 1
Orientation Reverse Complement
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Summary 

Alignment 

Name UP00085_1
Alt. Name Sfpi1_primary
Database uniprobe_mouse.meme
p-value 0.000239314
E-value 0.127315
q-value 0.0779823
Overlap 7
Offset 3
Orientation Reverse Complement
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Summary 

Alignment 

Name MA0080.2
Alt. Name SPI1
Database JASPAR_CORE_2009_vertebrates.meme
p-value 0.000295872
E-value 0.157404
q-value 0.0779823
Overlap 6
Offset 1
Orientation Reverse Complement
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Summary 

Alignment 

Name MA0081.1
Alt. Name SPIB
Database JASPAR_CORE_2009_vertebrates.meme
p-value 0.000439072
E-value 0.233586
q-value 0.0925803
Overlap 6
Offset -1
Orientation Reverse Complement
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Summary 

Alignment 

Name MA0062.1
Alt. Name GABPA
Database JASPAR_CORE_2009_vertebrates.meme
p-value 0.00147816
E-value 0.786383
q-value 0.18382
Overlap 7
Offset 2
Orientation Reverse Complement
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Summary 

Alignment 

Name MA0080.1
Alt. Name SPI1
Database JASPAR_CORE_2009_vertebrates.meme
p-value 0.00173347
E-value 0.922205
q-value 0.18382
Overlap 6
Offset 0
Orientation Reverse Complement
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Summary 

Alignment 

Name UP00015_1
Alt. Name Ehf_primary
Database uniprobe_mouse.meme
p-value 0.00183627
E-value 0.976895
q-value 0.18382
Overlap 7
Offset 3
Orientation Reverse Complement
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Summary 

Alignment 

Name MA0136.1
Alt. Name ELF5
Database JASPAR_CORE_2009_vertebrates.meme
p-value 0.00185932
E-value 0.989161
q-value 0.18382
Overlap 7
Offset 2
Orientation Normal
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Matches to Query: CYTCCC

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Summary 

Alignment 

Name MA0080.1
Alt. Name SPI1
Database JASPAR_CORE_2009_vertebrates.meme
p-value 0.000484612
E-value 0.257814
q-value 0.509961
Overlap 6
Offset 0
Orientation Reverse Complement
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Summary 

Alignment 

Name MA0079.2
Alt. Name SP1
Database JASPAR_CORE_2009_vertebrates.meme
p-value 0.00133954
E-value 0.712638
q-value 0.632663
Overlap 6
Offset 2
Orientation Normal
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Matches to Query: AAAAMAAA

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Summary 

Alignment 

Name UP00077_2
Alt. Name Srf_secondary
Database uniprobe_mouse.meme
p-value 3.36165e-05
E-value 0.017884
q-value 0.035768
Overlap 8
Offset 4
Orientation Normal
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Summary 

Alignment 

Name UP00028_2
Alt. Name Tcfap2e_secondary
Database uniprobe_mouse.meme
p-value 0.000142432
E-value 0.0757739
q-value 0.0643685
Overlap 8
Offset 6
Orientation Normal
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Summary 

Alignment 

Name UP00407_2
Alt. Name Elf3_secondary
Database uniprobe_mouse.meme
p-value 0.00018149
E-value 0.0965528
q-value 0.0643685
Overlap 8
Offset 5
Orientation Normal
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Summary 

Alignment 

Name UP00058_2
Alt. Name Tcf3_secondary
Database uniprobe_mouse.meme
p-value 0.000378891
E-value 0.20157
q-value 0.100785
Overlap 8
Offset 5
Orientation Normal
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Matches to Query: ATTACAGG

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Summary 

Alignment 

Name UP00223_2
Alt. Name Irx3_2226.1
Database uniprobe_mouse.meme
p-value 0.00174094
E-value 0.926179
q-value 1
Overlap 8
Offset 3
Orientation Reverse Complement
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Matches to Query: GCCACYGC

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Summary 

Alignment 

Name UP00031_1
Alt. Name Zbtb3_primary
Database uniprobe_mouse.meme
p-value 0.00045852
E-value 0.243933
q-value 0.254188
Overlap 8
Offset 3
Orientation Normal
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Summary 

Alignment 

Name MA0062.2
Alt. Name GABPA
Database JASPAR_CORE_2009_vertebrates.meme
p-value 0.000478105
E-value 0.254352
q-value 0.254188
Overlap 8
Offset 0
Orientation Reverse Complement
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Matches to Query: AAATGT

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Summary 

Alignment 

Name UP00025_1
Alt. Name Foxk1_primary
Database uniprobe_mouse.meme
p-value 0.00165258
E-value 0.879174
q-value 1
Overlap 6
Offset 1
Orientation Normal
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Matches to Query: AAMCACA

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Summary 

Alignment 

Name MA0002.2
Alt. Name RUNX1
Database JASPAR_CORE_2009_vertebrates.meme
p-value 3.66507e-05
E-value 0.0194982
q-value 0.0389964
Overlap 7
Offset 1
Orientation Reverse Complement
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Summary 

Alignment 

Name MA0002.1
Alt. Name RUNX1
Database JASPAR_CORE_2009_vertebrates.meme
p-value 0.000109179
E-value 0.0580832
q-value 0.0580832
Overlap 7
Offset 1
Orientation Reverse Complement
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Matches to Query: GWGACAGA

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Matches to Query: RCTGWTTA

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Matches to Query: TTTARAAA

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Summary 

Alignment 

Name UP00077_2
Alt. Name Srf_secondary
Database uniprobe_mouse.meme
p-value 0.00123665
E-value 0.657898
q-value 1
Overlap 8
Offset 1
Orientation Normal
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Matches to Query: CWGCAGC

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Summary 

Alignment 

Name MA0055.1
Alt. Name Myf
Database JASPAR_CORE_2009_vertebrates.meme
p-value 0.00012428
E-value 0.0661171
q-value 0.131774
Overlap 7
Offset 0
Orientation Reverse Complement
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Summary 

Alignment 

Name UP00099_1
Alt. Name Ascl2_primary
Database uniprobe_mouse.meme
p-value 0.000469587
E-value 0.24982
q-value 0.248952
Overlap 7
Offset 2
Orientation Normal
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Summary 

Alignment 

Name MA0048.1
Alt. Name NHLH1
Database JASPAR_CORE_2009_vertebrates.meme
p-value 0.00173919
E-value 0.925248
q-value 0.339866
Overlap 7
Offset 3
Orientation Normal
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Matches to Query: BCTTATC

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Summary 

Alignment 

Name MA0035.2
Alt. Name Gata1
Database JASPAR_CORE_2009_vertebrates.meme
p-value 2.79075e-07
E-value 0.000148468
q-value 0.000296745
Overlap 7
Offset 1
Orientation Reverse Complement
Create custom LOGO ↧  [Next Match] [Query Top]

Summary 

Alignment 

Name UP00080_1
Alt. Name Gata5_primary
Database uniprobe_mouse.meme
p-value 5.94568e-06
E-value 0.0031631
q-value 0.00316107
Overlap 7
Offset 4
Orientation Reverse Complement
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Summary 

Alignment 

Name UP00100_1
Alt. Name Gata6_primary
Database uniprobe_mouse.meme
p-value 4.16775e-05
E-value 0.0221724
q-value 0.0147721
Overlap 7
Offset 4
Orientation Reverse Complement
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Summary 

Alignment 

Name UP00032_1
Alt. Name Gata3_primary
Database uniprobe_mouse.meme
p-value 0.000165375
E-value 0.0879793
q-value 0.0439614
Overlap 7
Offset 7
Orientation Reverse Complement
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Summary 

Alignment 

Name MA0029.1
Alt. Name Evi1
Database JASPAR_CORE_2009_vertebrates.meme
p-value 0.000435631
E-value 0.231756
q-value 0.0926428
Overlap 7
Offset 5
Orientation Reverse Complement
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Matches to Query: CATTTTA

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Matches to Query: ACTTCCGS

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Summary 

Alignment 

Name MA0062.2
Alt. Name GABPA
Database JASPAR_CORE_2009_vertebrates.meme
p-value 2.72199e-07
E-value 0.00014481
q-value 0.000286151
Overlap 8
Offset 3
Orientation Reverse Complement
Create custom LOGO ↧  [Next Match] [Query Top]

Summary 

Alignment 

Name UP00015_1
Alt. Name Ehf_primary
Database uniprobe_mouse.meme
p-value 7.58393e-07
E-value 0.000403465
q-value 0.000398633
Overlap 8
Offset 2
Orientation Reverse Complement
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Summary 

Alignment 

Name MA0076.1
Alt. Name ELK4
Database JASPAR_CORE_2009_vertebrates.meme
p-value 1.27231e-06
E-value 0.000676867
q-value 0.00044584
Overlap 8
Offset 0
Orientation Reverse Complement
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Summary 

Alignment 

Name UP00408_1
Alt. Name Gabpa_primary
Database uniprobe_mouse.meme
p-value 1.80792e-06
E-value 0.000961813
q-value 0.000475146
Overlap 8
Offset 4
Orientation Reverse Complement
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Summary 

Alignment 

Name MA0062.1
Alt. Name GABPA
Database JASPAR_CORE_2009_vertebrates.meme
p-value 3.78286e-05
E-value 0.0201248
q-value 0.00795352
Overlap 8
Offset 1
Orientation Reverse Complement
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Summary 

Alignment 

Name MA0156.1
Alt. Name FEV
Database JASPAR_CORE_2009_vertebrates.meme
p-value 0.000156482
E-value 0.0832482
q-value 0.027417
Overlap 8
Offset 0
Orientation Reverse Complement
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Summary 

Alignment 

Name UP00022_2
Alt. Name Zfp740_secondary
Database uniprobe_mouse.meme
p-value 0.000183101
E-value 0.0974096
q-value 0.027498
Overlap 8
Offset 0
Orientation Reverse Complement
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Summary 

Alignment 

Name UP00407_1
Alt. Name Elf3_primary
Database uniprobe_mouse.meme
p-value 0.000264886
E-value 0.140919
q-value 0.0348079
Overlap 8
Offset 2
Orientation Reverse Complement
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Summary 

Alignment 

Name MA0080.1
Alt. Name SPI1
Database JASPAR_CORE_2009_vertebrates.meme
p-value 0.000365853
E-value 0.194634
q-value 0.0399484
Overlap 6
Offset -1
Orientation Reverse Complement
Create custom LOGO ↧ [Previous Match] [Next Match] [Query Top]

Summary 

Alignment 

Name UP00085_1
Alt. Name Sfpi1_primary
Database uniprobe_mouse.meme
p-value 0.000380007
E-value 0.202164
q-value 0.0399484
Overlap 8
Offset 2
Orientation Reverse Complement
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Summary 

Alignment 

Name MA0080.2
Alt. Name SPI1
Database JASPAR_CORE_2009_vertebrates.meme
p-value 0.000533554
E-value 0.283851
q-value 0.0509911
Overlap 7
Offset 0
Orientation Reverse Complement
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Summary 

Alignment 

Name UP00406_1
Alt. Name Spdef_primary
Database uniprobe_mouse.meme
p-value 0.000604655
E-value 0.321676
q-value 0.0529706
Overlap 8
Offset 2
Orientation Normal
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Summary 

Alignment 

Name MA0028.1
Alt. Name ELK1
Database JASPAR_CORE_2009_vertebrates.meme
p-value 0.000673187
E-value 0.358136
q-value 0.0544379
Overlap 7
Offset -1
Orientation Reverse Complement
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Summary 

Alignment 

Name MA0131.1
Alt. Name MIZF
Database JASPAR_CORE_2009_vertebrates.meme
p-value 0.00105919
E-value 0.563487
q-value 0.079534
Overlap 8
Offset 2
Orientation Normal
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Summary 

Alignment 

Name MA0098.1
Alt. Name ETS1
Database JASPAR_CORE_2009_vertebrates.meme
p-value 0.00133487
E-value 0.71015
q-value 0.0935526
Overlap 6
Offset -1
Orientation Normal
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Matches to Query: GATTASA

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Matches to Query: GCCTGGYA

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Summary 

Alignment 

Name MA0092.1
Alt. Name Hand1::Tcfe2a
Database JASPAR_CORE_2009_vertebrates.meme
p-value 0.000709957
E-value 0.377697
q-value 0.557317
Overlap 8
Offset 1
Orientation Normal
Create custom LOGO ↧  [Next Match] [Query Top]

Summary 

Alignment 

Name UP00060_2
Alt. Name Max_secondary
Database uniprobe_mouse.meme
p-value 0.00108204
E-value 0.575646
q-value 0.557317
Overlap 8
Offset 5
Orientation Reverse Complement
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Summary 

Alignment 

Name UP00092_2
Alt. Name Myb_secondary
Database uniprobe_mouse.meme
p-value 0.00157239
E-value 0.836513
q-value 0.557317
Overlap 8
Offset 0
Orientation Reverse Complement
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Matches to Query: CASACAC

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Summary 

Alignment 

Name UP00042_2
Alt. Name Gm397_secondary
Database uniprobe_mouse.meme
p-value 0.000201867
E-value 0.107393
q-value 0.214787
Overlap 7
Offset 5
Orientation Normal
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Matches to Query: RGAAA

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Matches to Query: RTGACTAA

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Summary 

Alignment 

Name MA0150.1
Alt. Name NFE2L2
Database JASPAR_CORE_2009_vertebrates.meme
p-value 0.000384789
E-value 0.204708
q-value 0.409152
Overlap 8
Offset 0
Orientation Normal
Create custom LOGO ↧  [Next Match] [Query Top]

Summary 

Alignment 

Name MA0099.1
Alt. Name Fos
Database JASPAR_CORE_2009_vertebrates.meme
p-value 0.00138808
E-value 0.738456
q-value 0.61983
Overlap 8
Offset 0
Orientation Normal
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Summary 

Alignment 

Name MA0099.2
Alt. Name AP1
Database JASPAR_CORE_2009_vertebrates.meme
p-value 0.00174877
E-value 0.930343
q-value 0.61983
Overlap 7
Offset -1
Orientation Normal
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Matches to Query: GTGACTK

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Summary 

Alignment 

Name MA0067.1
Alt. Name Pax2
Database JASPAR_CORE_2009_vertebrates.meme
p-value 0.00113125
E-value 0.601827
q-value 0.881621
Overlap 6
Offset 2
Orientation Reverse Complement
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Matches to Query: CACATGGY

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Summary 

Alignment 

Name MA0059.1
Alt. Name MYC::MAX
Database JASPAR_CORE_2009_vertebrates.meme
p-value 0.000287869
E-value 0.153146
q-value 0.133376
Overlap 8
Offset 3
Orientation Normal
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Summary 

Alignment 

Name MA0147.1
Alt. Name Myc
Database JASPAR_CORE_2009_vertebrates.meme
p-value 0.000357037
E-value 0.189943
q-value 0.133376
Overlap 8
Offset 2
Orientation Normal
Create custom LOGO ↧ [Previous Match] [Next Match] [Query Top]

Summary 

Alignment 

Name MA0058.1
Alt. Name MAX
Database JASPAR_CORE_2009_vertebrates.meme
p-value 0.000480763
E-value 0.255766
q-value 0.133376
Overlap 8
Offset 1
Orientation Reverse Complement
Create custom LOGO ↧ [Previous Match] [Next Match] [Query Top]

Summary 

Alignment 

Name MA0104.2
Alt. Name Mycn
Database JASPAR_CORE_2009_vertebrates.meme
p-value 0.000531827
E-value 0.282932
q-value 0.133376
Overlap 8
Offset 2
Orientation Normal
Create custom LOGO ↧ [Previous Match] [Next Match] [Query Top]

Summary 

Alignment 

Name MA0093.1
Alt. Name USF1
Database JASPAR_CORE_2009_vertebrates.meme
p-value 0.000633156
E-value 0.336839
q-value 0.133376
Overlap 7
Offset 0
Orientation Normal
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Summary 

Alignment 

Name UP00046_2
Alt. Name Tcfe2a_secondary
Database uniprobe_mouse.meme
p-value 0.00161218
E-value 0.85768
q-value 0.242579
Overlap 8
Offset 5
Orientation Normal
Create custom LOGO ↧ [Previous Match] [Query Top]
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TOMTOM version
4.9.1 (Release date: Fri Aug 23 16:49:42 2013 +1000)
Reference
Shobhit Gupta, JA Stamatoyannopolous, Timothy Bailey and William Stafford Noble, "Quantifying similarity between motifs", Genome Biology, 8(2):R24, 2007.
Command line summary

Background letter frequencies (from ./background):
A: 0.268   C: 0.232   G: 0.232   T: 0.268

Result calculation took 7.792 seconds
show model parameters...

Explanation of TOMTOM Results

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The TOMTOM results consist of

Inputs

The important inputs to TOMTOM.

Query Motifs

The query motifs section lists the motifs that were searched for in the target databases as well as links to matches found.

Name
The motif name.
Alt. Name
The alternative motif name. This column may be hidden if no query motifs have an alternate name.
Website
A link to a website which has more information on the motif. This column may be hidden if no query motifs have website information.
Preview
The motif preview. On supporting browsers this will display as a motif logo, otherwise the consensus sequence will be displayed.
Matches
The number of significant matches.
List
Links to the first 20 matches
Target Databases

The target motifs section lists details on the motif databases that were specifed to search.

Database
The database name.
Number of Motifs
The number of motifs read from the motif database minus the number that had to be discarded due to conflicting ids.
Motifs Matched
The number of motifs that had a match with at least one of the query motifs.

Matches

The matches section list the group of motifs that match each query motif. For each query-target match the following information is given:

Summary Table

The summary gives the important statistics about the motif match.

Name
The name of the matched motif.
Alt. Name
The alternative name of the matched motif.
p-value
The probability that the match occurred by random chance according to the null model.
E-value
The expected number of false positives in the matches up to this point.
q-value
The minimum False Discovery Rate required to include the match.
Overlap
The number of letters that overlaped in the optimal alignment.
Offset
The offset of the query motif to the matched motif in the optimal alignment.
Orientation
The orientation of the matched motif that gave the optimal alignment. A value of "normal" means that the matched motif is as it appears in the database otherwise the matched motif has been reverse complemented.
Alignment

The image shows the alignment of the two motifs. The matched motif is shown on the top and the query motif is shown on the bottom.

Create custom LOGO

By clicking the link "Create custom LOGO ↧" a form to make custom logos will be displayed. The download button can then be clicked to generate a motif matching the selected specifications.

Image Type
Two image formats, png and eps, are avaliable. The pixel based portable network graphic (png) format is commonly used on the Internet and the Encapsulated PostScript (eps) format is more suitable for publications that might require scaling.
Error bars
Toggle error bars indicating the confidence of a motif based on the number of sites used in its creation.
SSC
Toggle adding pseudocounts for Small Sample Correction.
Flip
Toggle a full reverse complement of the alignment.
Width
Specify the width of the generated motif.
Height
Specify the height of the generated motif.