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

 Next Top

Name 

Preview 

Matches 

List 

1_h_k9me3_14_0.428
CGTCAACG
0
2_e_k27ac_176_0.571
AGAAAGGAAA
0
3_e_k27ac_64_0.569
AAACAAAACCC
0
4_h_k27ac_2_0.568
CTAATTAG
62 Hoxb3_1720.2_Cell08_U,  HOXB3_01_M01330_T,  EVX1_01_M01475_T,  Evx1_3952.2_Cell08_U,  Lhx4_1719.2_Cell08_U,  EMX2_01_M01461_T,  Emx2_3420.1_Cell08_U,  LHX4_01_M01421_T,  LH2_01_M01325_T,  Lhx2_0953.2_Cell08_U
5_h_k4me3_7_0.436
CGTATCGT
0
6_h_k27ac_5_0.561
GGAAAGCTTT
0
7_e_k36me3_31_0.440
GATCATCATC
0
8_h_k27me3_11_0.560
GGAGGGAAAA
0
9_e_k27ac_340_0.559
CTCATTAAAG
1 Dfd_MA0186.1_J
10_h_k4me1_1_0.558
GAAAGGCAGC
0
11_e_k27ac_401_0.558
TCTTTGTTA
6 SOX_Q6_M01014_T,  SOX4_01_M01308_T,  Sox4_CR09_U,  Sox4_primary_SCI09_U,  MAT1MC_01_M00275_T,  Sox11_primary_SCI09_U
12_h_k27ac_15_0.558
AAGGGGATTAGA
1 OTX2_Q3_M01719_T
13_e_k27ac_75_0.556
GCCTGGGAA
0
14_h_k36me3_1_0.445
CAGGTAAGTATG
3 at_AC_acceptor_SD0001.1_J,  AREB6_01_M00412_T,  DELTAEF1_01_M00073_T
15_h_k4me1_15_0.554
AAAAAGCCTTTT
0
16_e_k27ac_315_0.552
AGAGGCCCC
0
17_e_k27ac_396_0.550
CTCTGAAAG
0
18_e_k4me3_251_0.450
AAATACGT
0
19_e_k36me3_41_0.451
ACGTGTGTC
1 OCSBF1_01_M00653_T
20_e_k9me3_21_0.451
ACGTGTCCAT
3 HAC1_01_M01610_T,  HLH-26_Cell09_U,  hlh-26_PL0009.1_J
21_e_k36me3_252_0.454
TCGGTGAGTAC
0
22_h_k9me3_8_0.455
ACGCGGGTCG
0
23_e_k27ac_407_0.544
AGGAATTCC
0
24_h_k27me3_27_0.456
ATAGTGCGCGTG
0
25_e_k27ac_459_0.544
GGAAAATCC
1 NFAT1_Q6_M01281_T
26_e_k36me3_85_0.456
ATGACATCG
0
27_e_k27ac_117_0.542
CTGTGGGAAG
2 MET28_01_M01674_T,  MET28_MA0332.1_J
28_e_k36me3_50_0.459
CATCTACGA
0
29_e_k27ac_52_0.541
AAGGAATGTG
2 TEAD1_MA0090.1_J,  TEF_01_M01305_T
30_e_k4me1_264_0.460
CATGTGTA
0
31_e_k27ac_145_0.538
CCCTATTGTC
0
32_e_k27ac_59_0.538
ACAGCAGGGCA
0
33_e_k4me3_64_0.464
CGGACGCCC
0
34_e_k36me3_103_0.467
ACGTGGTGA
1 TAF9_2_H
35_h_k4me3_11_0.467
CGTAGTAA
0
36_e_k4me3_135_0.467
CGTGGTCCC
0
37_e_k27ac_453_0.532
CTGTCTTTCT
0
38_e_k27ac_455_0.531
CTGCTAATC
0
39_e_k4me3_102_0.469
CGGAAACG
0
40_e_k27ac_335_0.530
GAAATACCGT
0
41_e_k36me3_376_0.472
CCATCAGTA
0
42_e_k27ac_229_0.528
AGCCTGCCT
0
43_e_k27ac_460_0.526
CGGCTCTAA
0
44_e_k36me3_159_0.475
ACCACATCAG
1 AML1_Q6_M00751_T
45_e_k36me3_55_0.523
CAGGGCCAGC
0
46_h_k9me3_7_0.523
AGCGGCAAGG
0
47_h_k27me3_10_0.520
GATTCCAAACCC
0
48_e_k36me3_357_0.481
CAGTGGTACT
0
49_e_k9me3_16_0.504
CCAGTGTGAGT
0
50_h_k36me3_26_0.501
CGCTTCTG
0

Target Databases

 Previous Next Top

Database 

Number of Motifs 

Motifs Matched 

trnsfcJsprUnprobHpdiCmbned3.meme 2921 84

Matches to Query: 1_h_k9me3_14_0.428

 Previous Next Top

Matches to Query: 2_e_k27ac_176_0.571

 Previous Next Top

Matches to Query: 3_e_k27ac_64_0.569

 Previous Next Top

Matches to Query: 4_h_k27ac_2_0.568

 Previous Next Top

Summary 

Alignment 

Name Hoxb3_1720.2_Cell08_U
Database trnsfcJsprUnprobHpdiCmbned3.meme
p-value 8.39341e-10
E-value 2.45171e-06
q-value 2.21654e-06
Overlap 8
Offset 4
Orientation Normal
Create custom LOGO ↧  [Next Match] [Query Top]

Summary 

Alignment 

Name HOXB3_01_M01330_T
Database trnsfcJsprUnprobHpdiCmbned3.meme
p-value 2.29877e-09
E-value 6.71469e-06
q-value 3.03531e-06
Overlap 8
Offset 4
Orientation Normal
Create custom LOGO ↧ [Previous Match] [Next Match] [Query Top]

Summary 

Alignment 

Name EVX1_01_M01475_T
Database trnsfcJsprUnprobHpdiCmbned3.meme
p-value 5.59791e-09
E-value 1.63515e-05
q-value 3.69576e-06
Overlap 8
Offset 4
Orientation Normal
Create custom LOGO ↧ [Previous Match] [Next Match] [Query Top]

Summary 

Alignment 

Name Evx1_3952.2_Cell08_U
Database trnsfcJsprUnprobHpdiCmbned3.meme
p-value 5.59791e-09
E-value 1.63515e-05
q-value 3.69576e-06
Overlap 8
Offset 4
Orientation Normal
Create custom LOGO ↧ [Previous Match] [Next Match] [Query Top]

Summary 

Alignment 

Name Lhx4_1719.2_Cell08_U
Database trnsfcJsprUnprobHpdiCmbned3.meme
p-value 2.59059e-08
E-value 7.56713e-05
q-value 1.36826e-05
Overlap 8
Offset 4
Orientation Normal
Create custom LOGO ↧ [Previous Match] [Next Match] [Query Top]

Summary 

Alignment 

Name EMX2_01_M01461_T
Database trnsfcJsprUnprobHpdiCmbned3.meme
p-value 5.10015e-08
E-value 0.000148975
q-value 1.68357e-05
Overlap 8
Offset 4
Orientation Normal
Create custom LOGO ↧ [Previous Match] [Next Match] [Query Top]

Summary 

Alignment 

Name Emx2_3420.1_Cell08_U
Database trnsfcJsprUnprobHpdiCmbned3.meme
p-value 5.10015e-08
E-value 0.000148975
q-value 1.68357e-05
Overlap 8
Offset 4
Orientation Normal
Create custom LOGO ↧ [Previous Match] [Next Match] [Query Top]

Summary 

Alignment 

Name LHX4_01_M01421_T
Database trnsfcJsprUnprobHpdiCmbned3.meme
p-value 5.10015e-08
E-value 0.000148975
q-value 1.68357e-05
Overlap 8
Offset 4
Orientation Normal
Create custom LOGO ↧ [Previous Match] [Next Match] [Query Top]

Summary 

Alignment 

Name LH2_01_M01325_T
Database trnsfcJsprUnprobHpdiCmbned3.meme
p-value 1.71188e-07
E-value 0.000500041
q-value 4.52077e-05
Overlap 8
Offset 4
Orientation Normal
Create custom LOGO ↧ [Previous Match] [Next Match] [Query Top]

Summary 

Alignment 

Name Lhx2_0953.2_Cell08_U
Database trnsfcJsprUnprobHpdiCmbned3.meme
p-value 1.71188e-07
E-value 0.000500041
q-value 4.52077e-05
Overlap 8
Offset 4
Orientation Normal
Create custom LOGO ↧ [Previous Match] [Next Match] [Query Top]

Summary 

Alignment 

Name IPF1_01_M01233_T
Database trnsfcJsprUnprobHpdiCmbned3.meme
p-value 2.27447e-07
E-value 0.000664372
q-value 5.33282e-05
Overlap 8
Offset 0
Orientation Reverse Complement
Create custom LOGO ↧ [Previous Match] [Next Match] [Query Top]

Summary 

Alignment 

Name EVX2_01_M01386_T
Database trnsfcJsprUnprobHpdiCmbned3.meme
p-value 2.9281e-07
E-value 0.000855299
q-value 5.33282e-05
Overlap 8
Offset 4
Orientation Reverse Complement
Create custom LOGO ↧ [Previous Match] [Next Match] [Query Top]

Summary 

Alignment 

Name Evx2_2645.3_Cell08_U
Database trnsfcJsprUnprobHpdiCmbned3.meme
p-value 2.9281e-07
E-value 0.000855299
q-value 5.33282e-05
Overlap 8
Offset 4
Orientation Reverse Complement
Create custom LOGO ↧ [Previous Match] [Next Match] [Query Top]

Summary 

Alignment 

Name LHX61_02_M01422_T
Database trnsfcJsprUnprobHpdiCmbned3.meme
p-value 2.9281e-07
E-value 0.000855299
q-value 5.33282e-05
Overlap 8
Offset 4
Orientation Normal
Create custom LOGO ↧ [Previous Match] [Next Match] [Query Top]

Summary 

Alignment 

Name LHX8_01_M01440_T
Database trnsfcJsprUnprobHpdiCmbned3.meme
p-value 2.9281e-07
E-value 0.000855299
q-value 5.33282e-05
Overlap 8
Offset 4
Orientation Normal
Create custom LOGO ↧ [Previous Match] [Next Match] [Query Top]

Summary 

Alignment 

Name Lhx6_3432.1_Cell08_U
Database trnsfcJsprUnprobHpdiCmbned3.meme
p-value 2.9281e-07
E-value 0.000855299
q-value 5.33282e-05
Overlap 8
Offset 4
Orientation Normal
Create custom LOGO ↧ [Previous Match] [Next Match] [Query Top]

Summary 

Alignment 

Name GBX2_01_M01382_T
Database trnsfcJsprUnprobHpdiCmbned3.meme
p-value 4.80166e-07
E-value 0.00140256
q-value 5.63568e-05
Overlap 8
Offset 4
Orientation Normal
Create custom LOGO ↧ [Previous Match] [Next Match] [Query Top]

Summary 

Alignment 

Name Gbx2_3110.1_Cell08_U
Database trnsfcJsprUnprobHpdiCmbned3.meme
p-value 4.80166e-07
E-value 0.00140256
q-value 5.63568e-05
Overlap 8
Offset 4
Orientation Normal
Create custom LOGO ↧ [Previous Match] [Next Match] [Query Top]

Summary 

Alignment 

Name HOXD1_01_M01448_T
Database trnsfcJsprUnprobHpdiCmbned3.meme
p-value 4.80166e-07
E-value 0.00140256
q-value 5.63568e-05
Overlap 8
Offset 4
Orientation Normal
Create custom LOGO ↧ [Previous Match] [Next Match] [Query Top]

Summary 

Alignment 

Name Hoxd1_3448.1_Cell08_U
Database trnsfcJsprUnprobHpdiCmbned3.meme
p-value 4.80166e-07
E-value 0.00140256
q-value 5.63568e-05
Overlap 8
Offset 4
Orientation Normal
Create custom LOGO ↧ [Previous Match] [Next Match] [Query Top]

Summary 

Alignment 

Name Lhx8_2247.2_Cell08_U
Database trnsfcJsprUnprobHpdiCmbned3.meme
p-value 4.80166e-07
E-value 0.00140256
q-value 5.63568e-05
Overlap 8
Offset 4
Orientation Normal
Create custom LOGO ↧ [Previous Match] [Next Match] [Query Top]

Summary 

Alignment 

Name Prrx2_3072.1_Cell08_U
Database trnsfcJsprUnprobHpdiCmbned3.meme
p-value 4.80166e-07
E-value 0.00140256
q-value 5.63568e-05
Overlap 8
Offset 4
Orientation Normal
Create custom LOGO ↧ [Previous Match] [Next Match] [Query Top]

Summary 

Alignment 

Name S8_02_M01376_T
Database trnsfcJsprUnprobHpdiCmbned3.meme
p-value 4.80166e-07
E-value 0.00140256
q-value 5.63568e-05
Overlap 8
Offset 4
Orientation Normal
Create custom LOGO ↧ [Previous Match] [Next Match] [Query Top]

Summary 

Alignment 

Name ro_MA0241.1_J
Database trnsfcJsprUnprobHpdiCmbned3.meme
p-value 6.90869e-07
E-value 0.00201803
q-value 7.93242e-05
Overlap 7
Offset -1
Orientation Reverse Complement
Create custom LOGO ↧ [Previous Match] [Next Match] [Query Top]

Summary 

Alignment 

Name ap_MA0209.1_J
Database trnsfcJsprUnprobHpdiCmbned3.meme
p-value 1.09117e-06
E-value 0.00318732
q-value 0.000122621
Overlap 7
Offset -1
Orientation Reverse Complement
Create custom LOGO ↧ [Previous Match] [Next Match] [Query Top]

Summary 

Alignment 

Name GBX1_01_M01371_T
Database trnsfcJsprUnprobHpdiCmbned3.meme
p-value 1.7091e-06
E-value 0.00499227
q-value 0.000173944
Overlap 8
Offset 5
Orientation Normal
Create custom LOGO ↧ [Previous Match] [Next Match] [Query Top]

Summary 

Alignment 

Name Gbx1_2883.2_Cell08_U
Database trnsfcJsprUnprobHpdiCmbned3.meme
p-value 1.7091e-06
E-value 0.00499227
q-value 0.000173944
Overlap 8
Offset 5
Orientation Normal
Create custom LOGO ↧ [Previous Match] [Next Match] [Query Top]

Summary 

Alignment 

Name CHX10_01_M00437_T
Database trnsfcJsprUnprobHpdiCmbned3.meme
p-value 1.71256e-06
E-value 0.00500238
q-value 0.000173944
Overlap 8
Offset 4
Orientation Reverse Complement
Create custom LOGO ↧ [Previous Match] [Next Match] [Query Top]

Summary 

Alignment 

Name HB9_01_M01349_T
Database trnsfcJsprUnprobHpdiCmbned3.meme
p-value 2.20186e-06
E-value 0.00643163
q-value 0.000215359
Overlap 8
Offset 3
Orientation Normal
Create custom LOGO ↧ [Previous Match] [Next Match] [Query Top]

Summary 

Alignment 

Name Hlxb9_3422.1_Cell08_U
Database trnsfcJsprUnprobHpdiCmbned3.meme
p-value 2.20186e-06
E-value 0.00643163
q-value 0.000215359
Overlap 8
Offset 3
Orientation Normal
Create custom LOGO ↧ [Previous Match] [Next Match] [Query Top]

Summary 

Alignment 

Name NKX11_01_M01334_T
Database trnsfcJsprUnprobHpdiCmbned3.meme
p-value 2.44651e-06
E-value 0.00714625
q-value 0.000222786
Overlap 8
Offset 4
Orientation Normal
Create custom LOGO ↧ [Previous Match] [Next Match] [Query Top]

Summary 

Alignment 

Name Nkx1-1_3856.3_Cell08_U
Database trnsfcJsprUnprobHpdiCmbned3.meme
p-value 2.44651e-06
E-value 0.00714625
q-value 0.000222786
Overlap 8
Offset 4
Orientation Normal
Create custom LOGO ↧ [Previous Match] [Next Match] [Query Top]

Summary 

Alignment 

Name ind_MA0228.1_J
Database trnsfcJsprUnprobHpdiCmbned3.meme
p-value 3.38553e-06
E-value 0.00988913
q-value 0.000298019
Overlap 7
Offset -1
Orientation Reverse Complement
Create custom LOGO ↧ [Previous Match] [Next Match] [Query Top]

Summary 

Alignment 

Name CG9876_MA0184.1_J
Database trnsfcJsprUnprobHpdiCmbned3.meme
p-value 4.59928e-06
E-value 0.0134345
q-value 0.000379558
Overlap 7
Offset -1
Orientation Reverse Complement
Create custom LOGO ↧ [Previous Match] [Next Match] [Query Top]

Summary 

Alignment 

Name CG18599_MA0177.1_J
Database trnsfcJsprUnprobHpdiCmbned3.meme
p-value 6.02689e-06
E-value 0.0176046
q-value 0.000455812
Overlap 7
Offset -1
Orientation Reverse Complement
Create custom LOGO ↧ [Previous Match] [Next Match] [Query Top]

Summary 

Alignment 

Name Lim3_MA0195.1_J
Database trnsfcJsprUnprobHpdiCmbned3.meme
p-value 6.02689e-06
E-value 0.0176046
q-value 0.000455812
Overlap 7
Offset -1
Orientation Reverse Complement
Create custom LOGO ↧ [Previous Match] [Next Match] [Query Top]

Summary 

Alignment 

Name PAX4_05_M01385_T
Database trnsfcJsprUnprobHpdiCmbned3.meme
p-value 6.0411e-06
E-value 0.017646
q-value 0.000455812
Overlap 8
Offset 4
Orientation Normal
Create custom LOGO ↧ [Previous Match] [Next Match] [Query Top]

Summary 

Alignment 

Name Pax4_3989.2_Cell08_U
Database trnsfcJsprUnprobHpdiCmbned3.meme
p-value 6.0411e-06
E-value 0.017646
q-value 0.000455812
Overlap 8
Offset 4
Orientation Normal
Create custom LOGO ↧ [Previous Match] [Next Match] [Query Top]

Summary 

Alignment 

Name EN2_01_M01455_T
Database trnsfcJsprUnprobHpdiCmbned3.meme
p-value 7.78802e-06
E-value 0.0227488
q-value 0.000527352
Overlap 8
Offset 4
Orientation Normal
Create custom LOGO ↧ [Previous Match] [Next Match] [Query Top]

Summary 

Alignment 

Name En2_0952.1_Cell08_U
Database trnsfcJsprUnprobHpdiCmbned3.meme
p-value 7.78802e-06
E-value 0.0227488
q-value 0.000527352
Overlap 8
Offset 4
Orientation Normal
Create custom LOGO ↧ [Previous Match] [Next Match] [Query Top]

Summary 

Alignment 

Name NKX12_01_M01427_T
Database trnsfcJsprUnprobHpdiCmbned3.meme
p-value 7.78802e-06
E-value 0.0227488
q-value 0.000527352
Overlap 8
Offset 5
Orientation Normal
Create custom LOGO ↧ [Previous Match] [Next Match] [Query Top]

Summary 

Alignment 

Name HOXA3_02_M01337_T
Database trnsfcJsprUnprobHpdiCmbned3.meme
p-value 8.54224e-06
E-value 0.0249519
q-value 0.000563962
Overlap 8
Offset 5
Orientation Normal
Create custom LOGO ↧ [Previous Match] [Next Match] [Query Top]

Summary 

Alignment 

Name Hoxa3_2783.2_Cell08_U
Database trnsfcJsprUnprobHpdiCmbned3.meme
p-value 8.54224e-06
E-value 0.0249519
q-value 0.000563962
Overlap 8
Offset 5
Orientation Normal
Create custom LOGO ↧ [Previous Match] [Next Match] [Query Top]

Summary 

Alignment 

Name Nkx1-2_3214.1_Cell08_U
Database trnsfcJsprUnprobHpdiCmbned3.meme
p-value 9.84264e-06
E-value 0.0287504
q-value 0.000633966
Overlap 8
Offset 5
Orientation Normal
Create custom LOGO ↧ [Previous Match] [Next Match] [Query Top]

Summary 

Alignment 

Name GSH2_01_M01326_T
Database trnsfcJsprUnprobHpdiCmbned3.meme
p-value 1.09829e-05
E-value 0.032081
q-value 0.000690565
Overlap 8
Offset 5
Orientation Reverse Complement
Create custom LOGO ↧ [Previous Match] [Next Match] [Query Top]

Summary 

Alignment 

Name Gsh2_3990.2_Cell08_U
Database trnsfcJsprUnprobHpdiCmbned3.meme
p-value 1.09829e-05
E-value 0.032081
q-value 0.000690565
Overlap 8
Offset 5
Orientation Reverse Complement
Create custom LOGO ↧ [Previous Match] [Next Match] [Query Top]

Summary 

Alignment 

Name E5_MA0189.1_J
Database trnsfcJsprUnprobHpdiCmbned3.meme
p-value 1.1615e-05
E-value 0.0339274
q-value 0.00069304
Overlap 7
Offset -1
Orientation Reverse Complement
Create custom LOGO ↧ [Previous Match] [Next Match] [Query Top]

Summary 

Alignment 

Name OdsH_MA0198.1_J
Database trnsfcJsprUnprobHpdiCmbned3.meme
p-value 1.1615e-05
E-value 0.0339274
q-value 0.00069304
Overlap 7
Offset 0
Orientation Normal
Create custom LOGO ↧ [Previous Match] [Next Match] [Query Top]

Summary 

Alignment 

Name OdsH_MA0455.1_J
Database trnsfcJsprUnprobHpdiCmbned3.meme
p-value 1.1615e-05
E-value 0.0339274
q-value 0.00069304
Overlap 7
Offset 0
Orientation Normal
Create custom LOGO ↧ [Previous Match] [Next Match] [Query Top]

Summary 

Alignment 

Name K2B_01_M01348_T
Database trnsfcJsprUnprobHpdiCmbned3.meme
p-value 1.22032e-05
E-value 0.0356455
q-value 0.00069304
Overlap 8
Offset 4
Orientation Normal
Create custom LOGO ↧ [Previous Match] [Next Match] [Query Top]

Summary 

Alignment 

Name OG2_02_M01441_T
Database trnsfcJsprUnprobHpdiCmbned3.meme
p-value 1.22032e-05
E-value 0.0356455
q-value 0.00069304
Overlap 8
Offset 4
Orientation Normal
Create custom LOGO ↧ [Previous Match] [Next Match] [Query Top]

Summary 

Alignment 

Name Og2x_3719.1_Cell08_U
Database trnsfcJsprUnprobHpdiCmbned3.meme
p-value 1.22032e-05
E-value 0.0356455
q-value 0.00069304
Overlap 8
Offset 4
Orientation Normal
Create custom LOGO ↧ [Previous Match] [Next Match] [Query Top]

Summary 

Alignment 

Name Prrx1_3442.1_Cell08_U
Database trnsfcJsprUnprobHpdiCmbned3.meme
p-value 1.22032e-05
E-value 0.0356455
q-value 0.00069304
Overlap 8
Offset 4
Orientation Normal
Create custom LOGO ↧ [Previous Match] [Next Match] [Query Top]

Summary 

Alignment 

Name PHOX2A_16_H
Database trnsfcJsprUnprobHpdiCmbned3.meme
p-value 1.30608e-05
E-value 0.0381505
q-value 0.000726128
Overlap 6
Offset 0
Orientation Reverse Complement
Create custom LOGO ↧ [Previous Match] [Next Match] [Query Top]

Summary 

Alignment 

Name lbl_MA0232.1_J
Database trnsfcJsprUnprobHpdiCmbned3.meme
p-value 1.30608e-05
E-value 0.0381505
q-value 0.000726128
Overlap 6
Offset -1
Orientation Reverse Complement
Create custom LOGO ↧ [Previous Match] [Next Match] [Query Top]

Summary 

Alignment 

Name EN1_02_M01365_T
Database trnsfcJsprUnprobHpdiCmbned3.meme
p-value 1.33738e-05
E-value 0.039065
q-value 0.000735789
Overlap 8
Offset 5
Orientation Normal
Create custom LOGO ↧ [Previous Match] [Next Match] [Query Top]

Summary 

Alignment 

Name Awh_MA0167.1_J
Database trnsfcJsprUnprobHpdiCmbned3.meme
p-value 1.40342e-05
E-value 0.0409939
q-value 0.000748723
Overlap 7
Offset -1
Orientation Reverse Complement
Create custom LOGO ↧ [Previous Match] [Next Match] [Query Top]

Summary 

Alignment 

Name RAX_01_M01389_T
Database trnsfcJsprUnprobHpdiCmbned3.meme
p-value 1.48598e-05
E-value 0.0434055
q-value 0.000761981
Overlap 8
Offset 4
Orientation Normal
Create custom LOGO ↧ [Previous Match] [Next Match] [Query Top]

Summary 

Alignment 

Name Rax_3443.1_Cell08_U
Database trnsfcJsprUnprobHpdiCmbned3.meme
p-value 1.48598e-05
E-value 0.0434055
q-value 0.000761981
Overlap 8
Offset 4
Orientation Normal
Create custom LOGO ↧ [Previous Match] [Next Match] [Query Top]

Summary 

Alignment 

Name En1_3123.2_Cell08_U
Database trnsfcJsprUnprobHpdiCmbned3.meme
p-value 1.60348e-05
E-value 0.0468377
q-value 0.000784167
Overlap 8
Offset 5
Orientation Normal
Create custom LOGO ↧ [Previous Match] [Next Match] [Query Top]

Summary 

Alignment 

Name ISX_01_M01331_T
Database trnsfcJsprUnprobHpdiCmbned3.meme
p-value 1.60348e-05
E-value 0.0468377
q-value 0.000784167
Overlap 8
Offset 4
Orientation Normal
Create custom LOGO ↧ [Previous Match] [Next Match] [Query Top]

Summary 

Alignment 

Name Isx_3445.1_Cell08_U
Database trnsfcJsprUnprobHpdiCmbned3.meme
p-value 1.60348e-05
E-value 0.0468377
q-value 0.000784167
Overlap 8
Offset 4
Orientation Normal
Create custom LOGO ↧ [Previous Match] [Query Top]

Matches to Query: 5_h_k4me3_7_0.436

 Previous Next Top

Matches to Query: 6_h_k27ac_5_0.561

 Previous Next Top

Matches to Query: 7_e_k36me3_31_0.440

 Previous Next Top

Matches to Query: 8_h_k27me3_11_0.560

 Previous Next Top

Matches to Query: 9_e_k27ac_340_0.559

 Previous Next Top

Summary 

Alignment 

Name Dfd_MA0186.1_J
Database trnsfcJsprUnprobHpdiCmbned3.meme
p-value 1.39675e-05
E-value 0.0407991
q-value 0.0322698
Overlap 7
Offset -1
Orientation Reverse Complement
Create custom LOGO ↧  [Query Top]

Matches to Query: 10_h_k4me1_1_0.558

 Previous Next Top

Matches to Query: 11_e_k27ac_401_0.558

 Previous Next Top

Summary 

Alignment 

Name SOX_Q6_M01014_T
Database trnsfcJsprUnprobHpdiCmbned3.meme
p-value 9.53458e-07
E-value 0.00278505
q-value 0.00555306
Overlap 9
Offset 1
Orientation Normal
Create custom LOGO ↧  [Next Match] [Query Top]

Summary 

Alignment 

Name SOX4_01_M01308_T
Database trnsfcJsprUnprobHpdiCmbned3.meme
p-value 3.0685e-06
E-value 0.00896308
q-value 0.00893565
Overlap 8
Offset 0
Orientation Reverse Complement
Create custom LOGO ↧ [Previous Match] [Next Match] [Query Top]

Summary 

Alignment 

Name Sox4_CR09_U
Database trnsfcJsprUnprobHpdiCmbned3.meme
p-value 6.13118e-06
E-value 0.0179092
q-value 0.0116926
Overlap 9
Offset 3
Orientation Reverse Complement
Create custom LOGO ↧ [Previous Match] [Next Match] [Query Top]

Summary 

Alignment 

Name Sox4_primary_SCI09_U
Database trnsfcJsprUnprobHpdiCmbned3.meme
p-value 8.03049e-06
E-value 0.0234571
q-value 0.0116926
Overlap 9
Offset 4
Orientation Reverse Complement
Create custom LOGO ↧ [Previous Match] [Next Match] [Query Top]

Summary 

Alignment 

Name MAT1MC_01_M00275_T
Database trnsfcJsprUnprobHpdiCmbned3.meme
p-value 1.48299e-05
E-value 0.0433182
q-value 0.0146607
Overlap 9
Offset 5
Orientation Normal
Create custom LOGO ↧ [Previous Match] [Next Match] [Query Top]

Summary 

Alignment 

Name Sox11_primary_SCI09_U
Database trnsfcJsprUnprobHpdiCmbned3.meme
p-value 1.51034e-05
E-value 0.0441171
q-value 0.0146607
Overlap 9
Offset 4
Orientation Reverse Complement
Create custom LOGO ↧ [Previous Match] [Query Top]

Matches to Query: 12_h_k27ac_15_0.558

 Previous Next Top

Summary 

Alignment 

Name OTX2_Q3_M01719_T
Database trnsfcJsprUnprobHpdiCmbned3.meme
p-value 5.99891e-06
E-value 0.0175228
q-value 0.0349022
Overlap 12
Offset 0
Orientation Normal
Create custom LOGO ↧  [Query Top]

Matches to Query: 13_e_k27ac_75_0.556

 Previous Next Top

Matches to Query: 14_h_k36me3_1_0.445

 Previous Next Top

Summary 

Alignment 

Name at_AC_acceptor_SD0001.1_J
Database trnsfcJsprUnprobHpdiCmbned3.meme
p-value 1.25467e-10
E-value 3.6649e-07
q-value 7.3298e-07
Overlap 11
Offset 0
Orientation Normal
Create custom LOGO ↧  [Next Match] [Query Top]

Summary 

Alignment 

Name AREB6_01_M00412_T
Database trnsfcJsprUnprobHpdiCmbned3.meme
p-value 8.569e-07
E-value 0.00250301
q-value 0.00250301
Overlap 10
Offset 3
Orientation Reverse Complement
Create custom LOGO ↧ [Previous Match] [Next Match] [Query Top]

Summary 

Alignment 

Name DELTAEF1_01_M00073_T
Database trnsfcJsprUnprobHpdiCmbned3.meme
p-value 8.25968e-06
E-value 0.0241265
q-value 0.0160844
Overlap 9
Offset 2
Orientation Reverse Complement
Create custom LOGO ↧ [Previous Match] [Query Top]

Matches to Query: 15_h_k4me1_15_0.554

 Previous Next Top

Matches to Query: 16_e_k27ac_315_0.552

 Previous Next Top

Matches to Query: 17_e_k27ac_396_0.550

 Previous Next Top

Matches to Query: 18_e_k4me3_251_0.450

 Previous Next Top

Matches to Query: 19_e_k36me3_41_0.451

 Previous Next Top

Summary 

Alignment 

Name OCSBF1_01_M00653_T
Database trnsfcJsprUnprobHpdiCmbned3.meme
p-value 4.87754e-06
E-value 0.0142473
q-value 0.0284466
Overlap 5
Offset 0
Orientation Reverse Complement
Create custom LOGO ↧  [Query Top]

Matches to Query: 20_e_k9me3_21_0.451

 Previous Next Top

Summary 

Alignment 

Name HAC1_01_M01610_T
Database trnsfcJsprUnprobHpdiCmbned3.meme
p-value 5.94555e-06
E-value 0.017367
q-value 0.0116228
Overlap 7
Offset 0
Orientation Reverse Complement
Create custom LOGO ↧  [Next Match] [Query Top]

Summary 

Alignment 

Name HLH-26_Cell09_U
Database trnsfcJsprUnprobHpdiCmbned3.meme
p-value 6.10149e-06
E-value 0.0178224
q-value 0.0116228
Overlap 10
Offset 6
Orientation Normal
Create custom LOGO ↧ [Previous Match] [Next Match] [Query Top]

Summary 

Alignment 

Name hlh-26_PL0009.1_J
Database trnsfcJsprUnprobHpdiCmbned3.meme
p-value 6.10149e-06
E-value 0.0178224
q-value 0.0116228
Overlap 10
Offset 6
Orientation Normal
Create custom LOGO ↧ [Previous Match] [Query Top]

Matches to Query: 21_e_k36me3_252_0.454

 Previous Next Top

Matches to Query: 22_h_k9me3_8_0.455

 Previous Next Top

Matches to Query: 23_e_k27ac_407_0.544

 Previous Next Top

Matches to Query: 24_h_k27me3_27_0.456

 Previous Next Top

Matches to Query: 25_e_k27ac_459_0.544

 Previous Next Top

Summary 

Alignment 

Name NFAT1_Q6_M01281_T
Database trnsfcJsprUnprobHpdiCmbned3.meme
p-value 1.62135e-05
E-value 0.0473598
q-value 0.0536057
Overlap 6
Offset 0
Orientation Normal
Create custom LOGO ↧  [Query Top]

Matches to Query: 26_e_k36me3_85_0.456

 Previous Next Top

Matches to Query: 27_e_k27ac_117_0.542

 Previous Next Top

Summary 

Alignment 

Name MET28_01_M01674_T
Database trnsfcJsprUnprobHpdiCmbned3.meme
p-value 3.7917e-06
E-value 0.0110756
q-value 0.0110756
Overlap 6
Offset 0
Orientation Normal
Create custom LOGO ↧  [Next Match] [Query Top]

Summary 

Alignment 

Name MET28_MA0332.1_J
Database trnsfcJsprUnprobHpdiCmbned3.meme
p-value 3.7917e-06
E-value 0.0110756
q-value 0.0110756
Overlap 6
Offset 0
Orientation Normal
Create custom LOGO ↧ [Previous Match] [Query Top]

Matches to Query: 28_e_k36me3_50_0.459

 Previous Next Top

Matches to Query: 29_e_k27ac_52_0.541

 Previous Next Top

Summary 

Alignment 

Name TEAD1_MA0090.1_J
Database trnsfcJsprUnprobHpdiCmbned3.meme
p-value 3.62159e-06
E-value 0.0105787
q-value 0.0105787
Overlap 10
Offset 2
Orientation Reverse Complement
Create custom LOGO ↧  [Next Match] [Query Top]

Summary 

Alignment 

Name TEF_01_M01305_T
Database trnsfcJsprUnprobHpdiCmbned3.meme
p-value 3.62159e-06
E-value 0.0105787
q-value 0.0105787
Overlap 10
Offset 2
Orientation Reverse Complement
Create custom LOGO ↧ [Previous Match] [Query Top]

Matches to Query: 30_e_k4me1_264_0.460

 Previous Next Top

Matches to Query: 31_e_k27ac_145_0.538

 Previous Next Top

Matches to Query: 32_e_k27ac_59_0.538

 Previous Next Top

Matches to Query: 33_e_k4me3_64_0.464

 Previous Next Top

Matches to Query: 34_e_k36me3_103_0.467

 Previous Next Top

Summary 

Alignment 

Name TAF9_2_H
Database trnsfcJsprUnprobHpdiCmbned3.meme
p-value 1.56924e-05
E-value 0.0458375
q-value 0.0723157
Overlap 5
Offset -1
Orientation Normal
Create custom LOGO ↧  [Query Top]

Matches to Query: 35_h_k4me3_11_0.467

 Previous Next Top

Matches to Query: 36_e_k4me3_135_0.467

 Previous Next Top

Matches to Query: 37_e_k27ac_453_0.532

 Previous Next Top

Matches to Query: 38_e_k27ac_455_0.531

 Previous Next Top

Matches to Query: 39_e_k4me3_102_0.469

 Previous Next Top

Matches to Query: 40_e_k27ac_335_0.530

 Previous Next Top

Matches to Query: 41_e_k36me3_376_0.472

 Previous Next Top

Matches to Query: 42_e_k27ac_229_0.528

 Previous Next Top

Matches to Query: 43_e_k27ac_460_0.526

 Previous Next Top

Matches to Query: 44_e_k36me3_159_0.475

 Previous Next Top

Summary 

Alignment 

Name AML1_Q6_M00751_T
Database trnsfcJsprUnprobHpdiCmbned3.meme
p-value 1.34657e-05
E-value 0.0393332
q-value 0.0786664
Overlap 6
Offset 0
Orientation Reverse Complement
Create custom LOGO ↧  [Query Top]

Matches to Query: 45_e_k36me3_55_0.523

 Previous Next Top

Matches to Query: 46_h_k9me3_7_0.523

 Previous Next Top

Matches to Query: 47_h_k27me3_10_0.520

 Previous Next Top

Matches to Query: 48_e_k36me3_357_0.481

 Previous Next Top

Matches to Query: 49_e_k9me3_16_0.504

 Previous Next Top

Matches to Query: 50_h_k36me3_26_0.501

 Previous Next Top
Previous Next Top
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 129.466 seconds
show model parameters...

Explanation of TOMTOM Results

 Previous Top

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.