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 

1_re_4_0.454
GGAGAGAGA
0
2_re_46_0.458
GAGGAAGAA
0
3_e_7_0.541
CGTGCACAC
0
4_re_23_0.460
AGAGAAGAGG
0
5_e_9_0.540
CACAGCAGGC
3 Zic1_secondary_SCI09_U,  Zic3_secondary_SCI09_U,  Zic2_secondary_SCI09_U
6_e_82_0.540
GCTGACTCA
10 AP1_01_M00517_T,  FRA1_Q5_M01267_T,  VMAF_01_M00035_T,  AP1_Q6_M00174_T,  BACH2_01_M00490_T,  AP1_MA0099.2_J,  AP1_Q4_01_M00926_T,  NFE2_01_M00037_T,  AP1_C_M00199_T,  AP1_Q2_M00173_T
7_h_10_0.534
GCGCGCACAC
0
8_re_67_0.466
TACAGATGAGA
0
9_re_34_0.466
ACAGAGAAAGA
0
10_re_43_0.468
CTCCTTCCCA
0
11_h_4_0.531
CTGTGCAGTC
0
12_h_3_0.530
CTGGCAGC
1 HSPA1L_4_H
13_re_20_0.470
CATTTTCTCT
0
14_re_61_0.471
AGAAACACGGT
0
15_h_6_0.529
TTAATCATTAAC
7 HNF1_Q6_M00790_T,  HNF1_C_M00206_T,  HNF1_01_M00132_T,  HNF1A_MA0046.1_J,  HNF1_Q6_01_M01011_T,  Dfd_MA0186.1_J,  HNF1B_MA0153.1_J
16_re_66_0.471
CTCTCTGCCT
0
17_e_51_0.529
CAGCGTGCAG
0
18_e_16_0.528
ACAGCAGCAG
1 NEUROD_02_M01288_T
19_re_70_0.472
GAGAGGAAA
0
20_re_8_0.472
AGAAAATAAA
0
21_e_63_0.528
CCAGGCTGC
0
22_re_90_0.472
CTCCCCACC
3 MZF1_01_M00083_T,  MZF1_Q5_M01733_T,  YPR022C_01_M01647_T
23_e_59_0.527
AGGCAGCTG
1 MYOGENIN_Q6_M00712_T
24_e_3_0.527
CACGTGCACT
5 CBF1_02_M01699_T,  Mycn_MA0104.1_J,  Arnt_MA0004.1_J,  USF1_7_H,  MYC_Q2_M00799_T
25_re_50_0.474
AGAGAAATAT
0
26_e_72_0.526
ACAGCTCAGC
0
27_e_102_0.526
GCATGTGCA
1 INO2_01_M01671_T
28_e_27_0.526
CAGCAGGGCC
0
29_e_5_0.525
CGCGCGCAC
1 Zfp161_primary_SCI09_U
30_e_119_0.524
AGCAGGCAC
0
31_re_73_0.476
TGTTCATTC
0
32_e_1_0.524
CACACGTGCC
7 CBF1_02_M01699_T,  Mycn_MA0104.1_J,  Arnt_MA0004.1_J,  PIF1_01_M01585_T,  MYC_Q2_M00799_T,  NMYC_01_M00055_T,  USF1_7_H
33_e_379_0.524
CACTGCACA
0
34_e_232_0.523
CAGCACATG
0
35_e_131_0.523
GCCAGCGGC
0
36_re_62_0.478
ACCTCTCTGT
0
37_e_86_0.521
CTGTCACGC
0
38_e_62_0.521
CATCTGTGCT
0
39_re_60_0.479
GGAGGACAGAG
0
40_e_81_0.520
GCGACGTGC
0
41_re_32_0.480
GGAAACGTAGG
2 DIS3_8_H,  NFAT1_Q6_M01281_T
42_re_26_0.481
CCTCAGTTTC
0
43_re_75_0.481
CTTCCCCAC
1 YPR022C_01_M01647_T
44_re_30_0.482
AGGGGCAGGGAC
1 HLCS_2_H
45_e_436_0.518
ATTAACTGC
0
46_e_460_0.518
TGCTCAGTAA
0
47_e_134_0.518
AGGGCTGTCA
2 PKNOX2_7_H,  TGIF2LX_3_H
48_e_37_0.518
ACGCAGGCC
0
49_e_268_0.517
CACTGTCACG
1 achi_MA0207.1_J
50_h_5_0.517
CTGTGCGCTT
0
51_e_103_0.517
GCAGTGCCG
0
52_e_68_0.517
ACGTGCTGA
0
53_e_142_0.516
AGGCCGCAT
0
54_re_53_0.484
AATGAATGA
1 Hbp1_primary_SCI09_U
55_h_18_0.516
TGATTTGCAA
2 NFIX_2_H,  NMI_8_H
56_e_234_0.516
AAGACAGCG
0
57_h_12_0.515
AACACATTCC
0
58_e_413_0.515
AAATGACTC
0
59_h_14_0.515
GGAAGCACGT
0
60_e_410_0.515
AATCACGGT
0
61_re_80_0.485
GAAATAATATA
0
62_e_249_0.515
AAAAACCACA
3 COREBINDINGFACTOR_Q6_M00722_T,  AML1_Q6_M00751_T,  AML1_Q4_M01658_T
63_re_25_0.485
AGAAACGTGAAA
0
64_re_65_0.485
CACGTGGAG
0
65_re_40_0.486
GTACAGTGCCT
0
66_e_117_0.514
CGTGCTAC
0
67_re_58_0.487
AATATAAAAT
0
68_re_12_0.487
TAATACGTAAA
0
69_e_250_0.513
ATACACTGC
0
70_re_48_0.487
AACTGAGGC
0
71_e_132_0.513
GCAAGTCACCT
0
72_e_213_0.512
CACGTTTCA
0
73_re_39_0.488
AATATATGCCAA
0
74_e_425_0.512
AAATGTGC
0
75_e_123_0.512
CCCCTGCCG
0
76_re_16_0.488
AATACGTGT
0
77_h_29_0.512
GCGTTTTAAA
0
78_e_241_0.512
ACTGACCTG
0
79_e_289_0.512
GCATTCCACG
2 TEAD1_MA0090.1_J,  TEF_01_M01305_T
80_h_11_0.511
CAGGAAATGCCT
2 FEV_MA0156.1_J,  TAF1A_8_H
81_e_67_0.511
AGTCACATG
0
82_e_396_0.511
AAATGCAGC
0
83_e_54_0.511
AGGCTGTGG
0
84_e_295_0.511
ACGTTTTATT
0
85_h_28_0.511
CGTGTGACAGGC
0
86_re_87_0.490
ATATGTGTC
0
87_e_471_0.510
AGAATGCCT
0
88_re_93_0.490
ACGTAATAT
0
89_re_78_0.490
ACGTGGCTCC
0
90_e_303_0.510
GACGAGTCA
0
91_re_84_0.491
ACGTGGAAAT
3 MAGED4_4_H,  MYLK_6_H,  NFATC3_14_H
92_e_385_0.509
ACGTAGCAA
0
93_re_27_0.492
AGCACCTAC
0
94_h_31_0.507
TTTCAGATTAAA
0
95_h_8_0.507
GCACTGAGAAGC
0
96_re_56_0.495
CCACGTGGG
1 CBF1_02_M01699_T
97_re_41_0.495
GCCTGGCAC
0
98_re_76_0.496
CCAGCCACGT
0
99_re_13_0.496
AACACACGTTA
0
100_re_83_0.496
ATGCATATA
0

Target Databases

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Database 

Number of Motifs 

Motifs Matched 

trnsfcJsprUnprobHpdiCmbned3.meme 2921 54

Matches to Query: 1_re_4_0.454

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Matches to Query: 2_re_46_0.458

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Matches to Query: 3_e_7_0.541

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Matches to Query: 4_re_23_0.460

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Matches to Query: 5_e_9_0.540

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Summary 

Alignment 

Name Zic1_secondary_SCI09_U
Database trnsfcJsprUnprobHpdiCmbned3.meme
p-value 4.97777e-07
E-value 0.00145401
q-value 0.00290801
Overlap 10
Offset 3
Orientation Normal
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Summary 

Alignment 

Name Zic3_secondary_SCI09_U
Database trnsfcJsprUnprobHpdiCmbned3.meme
p-value 1.19611e-06
E-value 0.00349384
q-value 0.00349384
Overlap 10
Offset 3
Orientation Normal
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Summary 

Alignment 

Name Zic2_secondary_SCI09_U
Database trnsfcJsprUnprobHpdiCmbned3.meme
p-value 2.85669e-06
E-value 0.00834439
q-value 0.00556293
Overlap 10
Offset 3
Orientation Normal
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Matches to Query: 6_e_82_0.540

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Summary 

Alignment 

Name AP1_01_M00517_T
Database trnsfcJsprUnprobHpdiCmbned3.meme
p-value 6.97486e-08
E-value 0.000203736
q-value 0.000404332
Overlap 9
Offset 1
Orientation Reverse Complement
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Summary 

Alignment 

Name FRA1_Q5_M01267_T
Database trnsfcJsprUnprobHpdiCmbned3.meme
p-value 9.91702e-07
E-value 0.00289676
q-value 0.00200636
Overlap 8
Offset -1
Orientation Reverse Complement
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Summary 

Alignment 

Name VMAF_01_M00035_T
Database trnsfcJsprUnprobHpdiCmbned3.meme
p-value 1.39122e-06
E-value 0.00406376
q-value 0.00200636
Overlap 9
Offset 4
Orientation Normal
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Summary 

Alignment 

Name AP1_Q6_M00174_T
Database trnsfcJsprUnprobHpdiCmbned3.meme
p-value 1.45725e-06
E-value 0.00425662
q-value 0.00200636
Overlap 9
Offset 0
Orientation Normal
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Summary 

Alignment 

Name BACH2_01_M00490_T
Database trnsfcJsprUnprobHpdiCmbned3.meme
p-value 1.99933e-06
E-value 0.00584004
q-value 0.00200636
Overlap 9
Offset 0
Orientation Reverse Complement
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Summary 

Alignment 

Name AP1_MA0099.2_J
Database trnsfcJsprUnprobHpdiCmbned3.meme
p-value 2.07662e-06
E-value 0.00606581
q-value 0.00200636
Overlap 7
Offset -2
Orientation Normal
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Summary 

Alignment 

Name AP1_Q4_01_M00926_T
Database trnsfcJsprUnprobHpdiCmbned3.meme
p-value 3.07051e-06
E-value 0.00896896
q-value 0.00254281
Overlap 8
Offset -1
Orientation Reverse Complement
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Summary 

Alignment 

Name NFE2_01_M00037_T
Database trnsfcJsprUnprobHpdiCmbned3.meme
p-value 3.95373e-06
E-value 0.0115489
q-value 0.00286497
Overlap 9
Offset 1
Orientation Normal
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Summary 

Alignment 

Name AP1_C_M00199_T
Database trnsfcJsprUnprobHpdiCmbned3.meme
p-value 6.42285e-06
E-value 0.0187611
q-value 0.00413702
Overlap 8
Offset -1
Orientation Reverse Complement
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Summary 

Alignment 

Name AP1_Q2_M00173_T
Database trnsfcJsprUnprobHpdiCmbned3.meme
p-value 9.56393e-06
E-value 0.0279362
q-value 0.00554419
Overlap 9
Offset 0
Orientation Normal
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Matches to Query: 7_h_10_0.534

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Matches to Query: 8_re_67_0.466

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Matches to Query: 9_re_34_0.466

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Matches to Query: 10_re_43_0.468

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Matches to Query: 11_h_4_0.531

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Matches to Query: 12_h_3_0.530

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Summary 

Alignment 

Name HSPA1L_4_H
Database trnsfcJsprUnprobHpdiCmbned3.meme
p-value 8.75113e-07
E-value 0.0025562
q-value 0.00511241
Overlap 6
Offset -1
Orientation Normal
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Matches to Query: 13_re_20_0.470

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Matches to Query: 14_re_61_0.471

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Matches to Query: 15_h_6_0.529

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Summary 

Alignment 

Name HNF1_Q6_M00790_T
Database trnsfcJsprUnprobHpdiCmbned3.meme
p-value 3.04499e-07
E-value 0.000889443
q-value 0.000879131
Overlap 12
Offset 4
Orientation Reverse Complement
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Summary 

Alignment 

Name HNF1_C_M00206_T
Database trnsfcJsprUnprobHpdiCmbned3.meme
p-value 3.11726e-07
E-value 0.000910551
q-value 0.000879131
Overlap 12
Offset 4
Orientation Reverse Complement
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Summary 

Alignment 

Name HNF1_01_M00132_T
Database trnsfcJsprUnprobHpdiCmbned3.meme
p-value 5.56631e-07
E-value 0.00162592
q-value 0.00104654
Overlap 12
Offset 2
Orientation Reverse Complement
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Summary 

Alignment 

Name HNF1A_MA0046.1_J
Database trnsfcJsprUnprobHpdiCmbned3.meme
p-value 1.1619e-06
E-value 0.00339392
q-value 0.00131072
Overlap 12
Offset 1
Orientation Reverse Complement
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Summary 

Alignment 

Name HNF1_Q6_01_M01011_T
Database trnsfcJsprUnprobHpdiCmbned3.meme
p-value 1.88355e-06
E-value 0.00550184
q-value 0.00160502
Overlap 12
Offset 5
Orientation Normal
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Summary 

Alignment 

Name Dfd_MA0186.1_J
Database trnsfcJsprUnprobHpdiCmbned3.meme
p-value 8.71887e-06
E-value 0.0254678
q-value 0.00447073
Overlap 7
Offset -4
Orientation Reverse Complement
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Summary 

Alignment 

Name HNF1B_MA0153.1_J
Database trnsfcJsprUnprobHpdiCmbned3.meme
p-value 1.58677e-05
E-value 0.0463495
q-value 0.00745836
Overlap 12
Offset 0
Orientation Normal
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Matches to Query: 16_re_66_0.471

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Matches to Query: 17_e_51_0.529

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Matches to Query: 18_e_16_0.528

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Summary 

Alignment 

Name NEUROD_02_M01288_T
Database trnsfcJsprUnprobHpdiCmbned3.meme
p-value 4.03268e-06
E-value 0.0117795
q-value 0.0235589
Overlap 10
Offset 2
Orientation Reverse Complement
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Matches to Query: 19_re_70_0.472

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Matches to Query: 20_re_8_0.472

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Matches to Query: 21_e_63_0.528

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Matches to Query: 22_re_90_0.472

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Summary 

Alignment 

Name MZF1_01_M00083_T
Database trnsfcJsprUnprobHpdiCmbned3.meme
p-value 2.32834e-06
E-value 0.00680107
q-value 0.0135605
Overlap 8
Offset -1
Orientation Reverse Complement
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Summary 

Alignment 

Name MZF1_Q5_M01733_T
Database trnsfcJsprUnprobHpdiCmbned3.meme
p-value 5.13397e-06
E-value 0.0149963
q-value 0.0149504
Overlap 7
Offset 0
Orientation Reverse Complement
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Summary 

Alignment 

Name YPR022C_01_M01647_T
Database trnsfcJsprUnprobHpdiCmbned3.meme
p-value 1.67471e-05
E-value 0.0489182
q-value 0.0325123
Overlap 6
Offset -2
Orientation Normal
Create custom LOGO ↧ [Previous Match] [Query Top]

Matches to Query: 23_e_59_0.527

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Summary 

Alignment 

Name MYOGENIN_Q6_M00712_T
Database trnsfcJsprUnprobHpdiCmbned3.meme
p-value 1.66916e-05
E-value 0.0487561
q-value 0.0433993
Overlap 8
Offset -1
Orientation Normal
Create custom LOGO ↧  [Query Top]

Matches to Query: 24_e_3_0.527

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Summary 

Alignment 

Name CBF1_02_M01699_T
Database trnsfcJsprUnprobHpdiCmbned3.meme
p-value 5.0945e-09
E-value 1.4881e-05
q-value 2.90515e-05
Overlap 6
Offset 0
Orientation Normal
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Summary 

Alignment 

Name Mycn_MA0104.1_J
Database trnsfcJsprUnprobHpdiCmbned3.meme
p-value 8.20598e-08
E-value 0.000239697
q-value 0.000233974
Overlap 6
Offset 0
Orientation Reverse Complement
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Summary 

Alignment 

Name Arnt_MA0004.1_J
Database trnsfcJsprUnprobHpdiCmbned3.meme
p-value 4.91341e-06
E-value 0.0143521
q-value 0.00458289
Overlap 6
Offset 0
Orientation Reverse Complement
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Summary 

Alignment 

Name USF1_7_H
Database trnsfcJsprUnprobHpdiCmbned3.meme
p-value 6.42929e-06
E-value 0.01878
q-value 0.00458289
Overlap 6
Offset 0
Orientation Normal
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Summary 

Alignment 

Name MYC_Q2_M00799_T
Database trnsfcJsprUnprobHpdiCmbned3.meme
p-value 7.88841e-06
E-value 0.023042
q-value 0.00499819
Overlap 7
Offset 0
Orientation Normal
Create custom LOGO ↧ [Previous Match] [Query Top]

Matches to Query: 25_re_50_0.474

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Matches to Query: 26_e_72_0.526

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Matches to Query: 27_e_102_0.526

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Summary 

Alignment 

Name INO2_01_M01671_T
Database trnsfcJsprUnprobHpdiCmbned3.meme
p-value 1.58046e-05
E-value 0.0461651
q-value 0.0560458
Overlap 9
Offset 0
Orientation Normal
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Matches to Query: 28_e_27_0.526

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Matches to Query: 29_e_5_0.525

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Summary 

Alignment 

Name Zfp161_primary_SCI09_U
Database trnsfcJsprUnprobHpdiCmbned3.meme
p-value 4.1713e-07
E-value 0.00121844
q-value 0.00243109
Overlap 9
Offset 3
Orientation Normal
Create custom LOGO ↧  [Query Top]

Matches to Query: 30_e_119_0.524

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Matches to Query: 31_re_73_0.476

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Matches to Query: 32_e_1_0.524

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Summary 

Alignment 

Name CBF1_02_M01699_T
Database trnsfcJsprUnprobHpdiCmbned3.meme
p-value 8.05688e-09
E-value 2.35342e-05
q-value 4.5904e-05
Overlap 6
Offset -2
Orientation Normal
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Summary 

Alignment 

Name Mycn_MA0104.1_J
Database trnsfcJsprUnprobHpdiCmbned3.meme
p-value 1.482e-06
E-value 0.00432891
q-value 0.00281455
Overlap 6
Offset -2
Orientation Reverse Complement
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Summary 

Alignment 

Name Arnt_MA0004.1_J
Database trnsfcJsprUnprobHpdiCmbned3.meme
p-value 4.64794e-06
E-value 0.0135766
q-value 0.00441359
Overlap 6
Offset -2
Orientation Normal
Create custom LOGO ↧ [Previous Match] [Next Match] [Query Top]

Summary 

Alignment 

Name PIF1_01_M01585_T
Database trnsfcJsprUnprobHpdiCmbned3.meme
p-value 6.55003e-06
E-value 0.0191326
q-value 0.0047072
Overlap 10
Offset 0
Orientation Reverse Complement
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Summary 

Alignment 

Name MYC_Q2_M00799_T
Database trnsfcJsprUnprobHpdiCmbned3.meme
p-value 6.60951e-06
E-value 0.0193064
q-value 0.0047072
Overlap 7
Offset -2
Orientation Normal
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Summary 

Alignment 

Name NMYC_01_M00055_T
Database trnsfcJsprUnprobHpdiCmbned3.meme
p-value 8.61088e-06
E-value 0.0251524
q-value 0.00536317
Overlap 10
Offset 1
Orientation Normal
Create custom LOGO ↧ [Previous Match] [Next Match] [Query Top]

Summary 

Alignment 

Name USF1_7_H
Database trnsfcJsprUnprobHpdiCmbned3.meme
p-value 9.41323e-06
E-value 0.027496
q-value 0.00536317
Overlap 6
Offset -2
Orientation Normal
Create custom LOGO ↧ [Previous Match] [Query Top]

Matches to Query: 33_e_379_0.524

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Matches to Query: 34_e_232_0.523

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Matches to Query: 35_e_131_0.523

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Matches to Query: 36_re_62_0.478

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Matches to Query: 37_e_86_0.521

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Matches to Query: 38_e_62_0.521

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Matches to Query: 39_re_60_0.479

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Matches to Query: 40_e_81_0.520

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Matches to Query: 41_re_32_0.480

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Summary 

Alignment 

Name DIS3_8_H
Database trnsfcJsprUnprobHpdiCmbned3.meme
p-value 8.31376e-07
E-value 0.00242845
q-value 0.00483368
Overlap 7
Offset 0
Orientation Normal
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Summary 

Alignment 

Name NFAT1_Q6_M01281_T
Database trnsfcJsprUnprobHpdiCmbned3.meme
p-value 6.43706e-06
E-value 0.0188026
q-value 0.0187128
Overlap 6
Offset 0
Orientation Normal
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Matches to Query: 42_re_26_0.481

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Matches to Query: 43_re_75_0.481

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Summary 

Alignment 

Name YPR022C_01_M01647_T
Database trnsfcJsprUnprobHpdiCmbned3.meme
p-value 1.69663e-05
E-value 0.0495585
q-value 0.0989161
Overlap 6
Offset -3
Orientation Normal
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Matches to Query: 44_re_30_0.482

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Summary 

Alignment 

Name HLCS_2_H
Database trnsfcJsprUnprobHpdiCmbned3.meme
p-value 4.20819e-06
E-value 0.0122921
q-value 0.0245302
Overlap 5
Offset -3
Orientation Normal
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Matches to Query: 45_e_436_0.518

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Matches to Query: 46_e_460_0.518

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Matches to Query: 47_e_134_0.518

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Summary 

Alignment 

Name PKNOX2_7_H
Database trnsfcJsprUnprobHpdiCmbned3.meme
p-value 2.96887e-06
E-value 0.00867208
q-value 0.0173299
Overlap 6
Offset -3
Orientation Reverse Complement
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Summary 

Alignment 

Name TGIF2LX_3_H
Database trnsfcJsprUnprobHpdiCmbned3.meme
p-value 8.66002e-06
E-value 0.0252959
q-value 0.0252751
Overlap 6
Offset -3
Orientation Reverse Complement
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Matches to Query: 48_e_37_0.518

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Matches to Query: 49_e_268_0.517

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Summary 

Alignment 

Name achi_MA0207.1_J
Database trnsfcJsprUnprobHpdiCmbned3.meme
p-value 1.54752e-05
E-value 0.0452032
q-value 0.0904064
Overlap 6
Offset -2
Orientation Reverse Complement
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Matches to Query: 50_h_5_0.517

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Matches to Query: 51_e_103_0.517

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Matches to Query: 52_e_68_0.517

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Matches to Query: 53_e_142_0.516

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Matches to Query: 54_re_53_0.484

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Summary 

Alignment 

Name Hbp1_primary_SCI09_U
Database trnsfcJsprUnprobHpdiCmbned3.meme
p-value 1.63747e-05
E-value 0.0478306
q-value 0.0954888
Overlap 9
Offset 6
Orientation Normal
Create custom LOGO ↧  [Query Top]

Matches to Query: 55_h_18_0.516

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Summary 

Alignment 

Name NFIX_2_H
Database trnsfcJsprUnprobHpdiCmbned3.meme
p-value 4.0179e-06
E-value 0.0117363
q-value 0.0207136
Overlap 6
Offset -3
Orientation Reverse Complement
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Summary 

Alignment 

Name NMI_8_H
Database trnsfcJsprUnprobHpdiCmbned3.meme
p-value 7.12904e-06
E-value 0.0208239
q-value 0.0207136
Overlap 8
Offset -1
Orientation Reverse Complement
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Matches to Query: 56_e_234_0.516

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Matches to Query: 57_h_12_0.515

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Matches to Query: 58_e_413_0.515

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Matches to Query: 59_h_14_0.515

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Matches to Query: 60_e_410_0.515

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Matches to Query: 61_re_80_0.485

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Matches to Query: 62_e_249_0.515

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Summary 

Alignment 

Name COREBINDINGFACTOR_Q6_M00722_T
Database trnsfcJsprUnprobHpdiCmbned3.meme
p-value 2.81841e-06
E-value 0.00823258
q-value 0.0164652
Overlap 8
Offset -2
Orientation Reverse Complement
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Summary 

Alignment 

Name AML1_Q6_M00751_T
Database trnsfcJsprUnprobHpdiCmbned3.meme
p-value 7.96034e-06
E-value 0.0232522
q-value 0.0226472
Overlap 6
Offset -4
Orientation Reverse Complement
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Summary 

Alignment 

Name AML1_Q4_M01658_T
Database trnsfcJsprUnprobHpdiCmbned3.meme
p-value 1.16298e-05
E-value 0.0339707
q-value 0.0226472
Overlap 7
Offset -3
Orientation Reverse Complement
Create custom LOGO ↧ [Previous Match] [Query Top]

Matches to Query: 63_re_25_0.485

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Matches to Query: 64_re_65_0.485

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Matches to Query: 65_re_40_0.486

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Matches to Query: 66_e_117_0.514

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Matches to Query: 67_re_58_0.487

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Matches to Query: 68_re_12_0.487

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Matches to Query: 69_e_250_0.513

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Matches to Query: 70_re_48_0.487

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Matches to Query: 71_e_132_0.513

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Matches to Query: 72_e_213_0.512

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Matches to Query: 73_re_39_0.488

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Matches to Query: 74_e_425_0.512

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Matches to Query: 75_e_123_0.512

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Matches to Query: 76_re_16_0.488

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Matches to Query: 77_h_29_0.512

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Matches to Query: 78_e_241_0.512

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Matches to Query: 79_e_289_0.512

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Summary 

Alignment 

Name TEAD1_MA0090.1_J
Database trnsfcJsprUnprobHpdiCmbned3.meme
p-value 4.90359e-06
E-value 0.0143234
q-value 0.0143234
Overlap 10
Offset 1
Orientation Normal
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Summary 

Alignment 

Name TEF_01_M01305_T
Database trnsfcJsprUnprobHpdiCmbned3.meme
p-value 4.90359e-06
E-value 0.0143234
q-value 0.0143234
Overlap 10
Offset 1
Orientation Normal
Create custom LOGO ↧ [Previous Match] [Query Top]

Matches to Query: 80_h_11_0.511

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Summary 

Alignment 

Name FEV_MA0156.1_J
Database trnsfcJsprUnprobHpdiCmbned3.meme
p-value 1.06975e-05
E-value 0.0312474
q-value 0.0406656
Overlap 8
Offset 0
Orientation Normal
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Summary 

Alignment 

Name TAF1A_8_H
Database trnsfcJsprUnprobHpdiCmbned3.meme
p-value 1.40496e-05
E-value 0.0410387
q-value 0.0406656
Overlap 7
Offset -4
Orientation Normal
Create custom LOGO ↧ [Previous Match] [Query Top]

Matches to Query: 81_e_67_0.511

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Matches to Query: 82_e_396_0.511

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Matches to Query: 83_e_54_0.511

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Matches to Query: 84_e_295_0.511

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Matches to Query: 85_h_28_0.511

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Matches to Query: 86_re_87_0.490

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Matches to Query: 87_e_471_0.510

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Matches to Query: 88_re_93_0.490

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Matches to Query: 89_re_78_0.490

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Matches to Query: 90_e_303_0.510

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Matches to Query: 91_re_84_0.491

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Summary 

Alignment 

Name MAGED4_4_H
Database trnsfcJsprUnprobHpdiCmbned3.meme
p-value 1.04803e-05
E-value 0.030613
q-value 0.0259021
Overlap 6
Offset -3
Orientation Normal
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Summary 

Alignment 

Name MYLK_6_H
Database trnsfcJsprUnprobHpdiCmbned3.meme
p-value 1.04803e-05
E-value 0.030613
q-value 0.0259021
Overlap 6
Offset -3
Orientation Normal
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Summary 

Alignment 

Name NFATC3_14_H
Database trnsfcJsprUnprobHpdiCmbned3.meme
p-value 1.52496e-05
E-value 0.044544
q-value 0.0259021
Overlap 6
Offset -3
Orientation Normal
Create custom LOGO ↧ [Previous Match] [Query Top]

Matches to Query: 92_e_385_0.509

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Matches to Query: 93_re_27_0.492

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Matches to Query: 94_h_31_0.507

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Matches to Query: 95_h_8_0.507

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Matches to Query: 96_re_56_0.495

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Summary 

Alignment 

Name CBF1_02_M01699_T
Database trnsfcJsprUnprobHpdiCmbned3.meme
p-value 1.56221e-05
E-value 0.0456322
q-value 0.0209362
Overlap 6
Offset -1
Orientation Reverse Complement
Create custom LOGO ↧  [Query Top]

Matches to Query: 97_re_41_0.495

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Matches to Query: 98_re_76_0.496

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Matches to Query: 99_re_13_0.496

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Matches to Query: 100_re_83_0.496

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TOMTOM version
4.8.1 (Release date: Tue Feb 7 14:03:40 EST 2012)
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 first motif database):
A: 0.295   C: 0.205   G: 0.205   T: 0.295

Result calculation took 264.688 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.