Stamp Results


Jump to: Multiple Alignment Motif Tree Motif Matching
Input file: 10 motifs loaded
Settings: Metric=PCC, Alignment=SWU, Gap-open=1000, Gap-extend=1000, -nooverlapalign
Multiple Alignment=IR, Tree=UPGMA, Matching against: TRANSFAC
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Multiple Alignment
(Consensus sequence representations shown, but multiple alignment was carried out on the matrices)
Motif1: ---CCTNWCTT--
Motif2: ----TTTTCTA--
Motif3: ---GTATTGT---
Motif4: ----TGTTCTCA-
Motif5: -----TTTMTAAA
Motif6: -----CNTGTTT-
Motif7: -----ATTCTC--
Motif8: ANAGNATT-----
Motif9: --TSTNTTCT---
Motif10: ---GTAWTGT---

Familial Profile:
(click for matrix)


Motif Tree

Tree (drawn by Phylip)
Click here for Newick-format tree (viewable with MEGA)
Input MotifBest match in TRANSFAC

Motif1

IRF-1_M00747
(E val: 1.4611e-07)

Motif2

HSF_M00166
(E val: 2.5029e-07)

Motif9

HSF_M00163
(E val: 6.5480e-09)

Motif4

PR,_M00960
(E val: 9.9609e-08)

Motif7

Alx-4_M00619
(E val: 8.7251e-08)

Motif3

MRF-2_M00454
(E val: 5.2223e-09)

Motif10

MRF-2_M00454
(E val: 7.2027e-08)

Motif8

LAC9_M00207
(E val: 6.3834e-07)

Motif6

Grainyhead-Elf-1-NTF-1_M00951
(E val: 2.1137e-07)

Motif5

MEF-2_M00405
(E val: 3.4007e-06)


Motif Similarity Matches

Motif1
forward

reverse compliment

 NameE value
Alignment
Motif
IRF-1_M007471.4611e-07
AAGWNAGG
AANTGA--
Sry-beta_M006661.5886e-05
AAGWNAGG-
-AGWGATGC
IRF_M009721.3370e-04
-AAGWNAGG-
AAANWGAAAN
DEC_M009971.5031e-04
---AAGWNAGG-
NNCANGTGANNN
TFII-I_M007062.1410e-04
CCTNWCTT
CCTMCNTC



Motif2
forward

reverse compliment

 NameE value
Alignment
Motif
HSF_M001662.5029e-07
----TTTTCTA---
NTTCTNTTCTAGAA
BR-C_M000927.3555e-06
------TAGAAAA--
RANAAATAGNWNNNN
TATA_M002164.0650e-05
-TTTTCTA-
NTTTTATAG
dl_M001205.4821e-05
---TTTTCTA
NGNTTTTCYC
HSF_M001708.3115e-05
---TAGAAAA----
TTCNNGAANNGAAN



Motif9
forward

reverse compliment

 NameE value
Alignment
Motif
HSF_M001636.5480e-09
----AGAANASA--
GAANAGAANAGAAN
HSF_M001666.5480e-09
----AGAANASA--
TTCTAGAANAGAAN
GATA-2_M003498.4138e-07
TSTNTTCT-
TNTTATCTS
GATA-3_M003501.8144e-06
TSTNTTCT-
TNTTATCTY
HSF_M001673.5164e-06
--TSTNTTCT----
NTTCNNTTCNNTTC



Motif4
forward

reverse compliment

 NameE value
Alignment
Motif
PR,_M009609.9609e-08
-TGTTCTCA
NTGTYCNNW
Poly_M003173.7466e-07
--TGAGAACA-----
NAWKRRNAMACASNN
Alx-4_M006196.5339e-07
---TGTTCTCA-
GATTATTCTCAG
GATA-1_M003466.6748e-07
TGTTCTCA-
NNTTATCNN
GR_M009218.4467e-07
TGAGAACA-
--AGNACAN



Motif7
forward

reverse compliment

 NameE value
Alignment
Motif
Alx-4_M006198.7251e-08
--GAGAAT----
CTGAGAATAATC
Ik-1_M000861.4534e-03
---GAGAAT---
NNTGGGAATNNN
HMG_M007501.4976e-03
ATTCTC
AWTTTC
dl_M001201.5382e-03
----ATTCTC
NGNTTTTCYC
HSF1_M010231.8404e-03
-GAGAAT---------
KRAGAANNTTCYAGAA



Motif3
forward

reverse compliment

 NameE value
Alignment
Motif
MRF-2_M004545.2223e-09
---ACAATAC---
WSNACAATACNNM
ROX1_M007281.1727e-06
-ACAATAC
AACAATRS
SOX17_M010161.9964e-06
GTATTGT
--ATTGT
Mat1-Mc_M002761.2193e-04
--ACAATAC
NRACAATNG
FOXP1_M009873.0594e-04
-------ACAATAC-----
ATAAAAAACAACACAAATA



Motif10
forward

reverse compliment

 NameE value
Alignment
Motif
MRF-2_M004547.2027e-08
---GTAWTGT---
KNNGTATTGTNSW
ROX1_M007281.2127e-05
-ACAWTAC
AACAATRS
SOX17_M010161.5823e-05
GTAWTGT
--ATTGT
ATHB-9_M004174.4225e-04
--------ACAWTAC---
GNRNGTAATCATTACNNN
Mat1-Mc_M002764.9858e-04
--ACAWTAC
NRACAATNG



Motif8
forward

reverse compliment

 NameE value
Alignment
Motif
LAC9_M002076.3834e-07
-------ANAGNATT------
NCGGANNRMAGWNWTCCGMKA
FOXJ2_M004231.0426e-05
-ANAGNATT----
NMAAATATTATKR
SPF1_M007025.3892e-05
AATNCTNT-
WWTACTATK
Nkx3-1_M004517.5923e-05
-AATNCTNT--
NWATACTTATW
ATHB-5_M005031.4379e-04
-AATNCTNT
CAATNATT-



Motif6
forward

reverse compliment

 NameE value
Alignment
Motif
Grainyhead-Elf-1-NTF-1_M009512.1137e-07
AAACANG
AAACCRG
HFH1_M001296.1728e-06
----AAACANG
AWATAAACAWT
FOXO3A_M011371.0883e-05
--CNTGTTT--
NNNTTGTTTAY
FOX_M008091.2670e-05
-----AAACANG
WAAAYAAACANT
FOXO1_M004741.3268e-05
-----AAACANG-
NNNGTAAACAANN



Motif5
forward

reverse compliment

 NameE value
Alignment
Motif
MEF-2_M004053.4007e-06
-----TTTAKAAA--
RGKNWTTTTTANNSM
aMEF-2_M004036.7357e-06
-------TTTAKAAA--
KKRGNTATTTTTARNCM
C-EBPgamma_M006227.7935e-06
-TTTAKAAA---
WTTYTGAAATNA
TBP_M007133.3512e-05
-TTTMTAAA
NTTTATAT-
TATA_M002165.2408e-05
--TTTMTAAA
NTTTTATAG-



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STAMP is written by Shaun Mahony