SNP Profiles of PA 175 [PER]   View Data

 Show/Hide Profiles

 Key

 1234567891011121314
_Input profile
AAACCTACGGGGCCCCCCCCGGTTCCTT
1._NA
AAACCTACGGGGCCCCCCCCGGTTCCTT
2._NA
AAACCTACGGGGCCCCCCCCGGTTCCTT
3._NA
AAACCTACGGGGCCCCCCCCGGTTCCTT
4._PA_175_[PER]
AAACCTAC________CCCCGG__CC__
5._PA_175_[PER]
AAACCTAC________CCCCGG__CC__
6._PA_175_[PER]
AAACCTAC________CCCCGG__CC__
7._PA_175_[PER]
AAACCTAC________CCCCGG__CC__
8._RUQ_37
AAACCTAC________CCCCGG__CC__
9._PA_175_[PER]
AAACCTAC________CCCCGG__CC__
10._RUQ_37
____CTAC____CT__CC____TTCC__
11._PA_175_[PER]
AAACCTAC________CCCCGG__CC__
12._RUQ_37
______AC____CT______________
13._-
AAAC__ACGGGG__GGGG__GGAAGGAA
14._RUQ_37
AAAC__ACGGGG__GGGG__GGAAGGAA
15._MITC-000016
AAAC__ACGGGG__GGGG__GGAAGGAA
 1516171819202122232425262728
_Input profile
AACCAGCGCCCGCTAATTGGATAACCGG
1._NA
AACCAGCGCCCGCTAATTGGATAACCGG
2._NA
AACCAGCGCCCGCTAATTGGATAACCGG
3._NA
AACCAGCGCCCGCTAATTGGATAACCGG
4._PA_175_[PER]
____AG____CG________ATAA__GG
5._PA_175_[PER]
____AG____CG________ATAA__GG
6._PA_175_[PER]
____AG____CG________ATAA__GG
7._PA_175_[PER]
____AG____CG________ATAA__GG
8._RUQ_37
____AG____CG________ATAA__GG
9._PA_175_[PER]
____AG____CG________ATAA__GG
10._RUQ_37
________CC________GG__AACCGG
11._PA_175_[PER]
____AGTTCCCG________ATAA__GG
12._RUQ_37
____AGTT__________________GG
13._-
TTCCAGCG__CGAGGGAAGGATAAGGCC
14._RUQ_37
TTCCAGCG__CGAGGGAAGGATAAGGCC
15._MITC-000016
TTCCAGCG__CGAGGGAAGGATAAGGCC
 2930313233343536373839404142
_Input profile
AATTGTGGCGCCAAGGGGTTGGTTGGCC
1._NA
AATTGTGGCGCCAAGGGGTTGGTTGGCC
2._NA
AATTGTGGCGCCAAGGGGTTGGTTGGCC
3._NA
AATTGTGGCGCCAAGG__TTGGTTGGCC
4._PA_175_[PER]
AA______CG__AAGG____GG______
5._PA_175_[PER]
AA______CG__AAGG____GG______
6._PA_175_[PER]
AA______CG__AAGG____GG______
7._PA_175_[PER]
AA______CG__AAGG____GG______
8._RUQ_37
AA______CG__AAGG____GG______
9._PA_175_[PER]
AA______CG__AAGG____GG______
10._RUQ_37
______GGCGCCAAGG____GGTT____
11._PA_175_[PER]
AA______CG__AAGG____GG______
12._RUQ_37
________CG__AA________TT____
13._-
AAAAACGGCGCCAACCCCAAGGAAGGGG
14._RUQ_37
AAAAACGGCGCCAACCCCAAGGAAGGGG
15._MITC-000016
AAAAACGGCGCCAACCCCAAGGAAGGGG
 4344454647484950515253545556
_Input profile
GGTTCCAAGGAACCCCGGAGGGTTCCCC
1._NA
GGTTCCAAGGAACCCCGGAGGGTTCCCC
2._NA
GGTTCCAAGGAACCCCGGAGGGTTCCCC
3._NA
GGTTCCAAGGAACCCCGGAGGGTTCCCC
4._PA_175_[PER]
____CC__________________CCCC
5._PA_175_[PER]
____CC__________________CCCC
6._PA_175_[PER]
____CC__________________CCCC
7._PA_175_[PER]
____CC__________________CCCC
8._RUQ_37
____CC__________________CCCC
9._PA_175_[PER]
____CC__________________CCCC
10._RUQ_37
GGTT____GG____________CTCC__
11._PA_175_[PER]
____CC__________________CCCC
12._RUQ_37
________GG__________________
13._-
CC__GG__GGAAGG__GGAGCCAGGGGG
14._RUQ_37
CC__GG__GGAAGG__GGAGCCAGGGGG
15._MITC-000016
CC__GG__GGAAGG__GGAGCCAGGGGG
 5758596061626364656667686970
_Input profile
TTAGCCCTCTAAGGGGCCGGGTGGAGCT
1._NA
TTAGCCCTCTAAGGGGCCGGGTGGAGCT
2._NA
TTAGCCCTCTAAGGGGCCGGGTGGAGCT
3._NA
TTAGCCCTCTAAGGGGCCGGGTGGAGCT
4._PA_175_[PER]
____CC__CTAAGG__CCGGGTGG____
5._PA_175_[PER]
____CC__CTAAGG__CCGGGTGG____
6._PA_175_[PER]
____CC__CTAAGG__CCGGGTGG____
7._PA_175_[PER]
____CC__CTAAGG__CCGGGTGG____
8._RUQ_37
____CC__CTAAGG__CCGGGTGG____
9._PA_175_[PER]
____CC__CTAAGG__CCGGGTGG____
10._RUQ_37
TT__CCCTCTAA__GGCCGGGTGGAG__
11._PA_175_[PER]
____CC__CTAAGG__CCGGGT______
12._RUQ_37
__AG____________CCGG__GGAG__
13._-
AAAGGGAGAGAAGGGGCCGGACCCAG__
14._RUQ_37
AAAGGGAGAGAAGGGGCCGGACCCAG__
15._MITC-000016
AAAGGGAGAGAAGGGGCCGGACCCAG__
 7172737475767778798081828384
_Input profile
CCGGCTCCAGACACAGACCGCCATAATT
1._NA
CCGGCTCCAGACACAGACCGCCATAATT
2._NA
CCGGCTCCAGACACAGACCGCCATAATT
3._NA
CCGGCTCCAGACACAGACCGCCATAATT
4._PA_175_[PER]
__GGCT__________ACCG______TT
5._PA_175_[PER]
__GGCT__________ACCG______TT
6._PA_175_[PER]
__GGCT__________ACCG______TT
7._PA_175_[PER]
__GGCT__________ACCG______TT
8._RUQ_37
__AACT__________ACCG______TT
9._PA_175_[PER]
__AACT__________ACCG______TT
10._RUQ_37
________________ACCG____AATT
11._PA_175_[PER]
__AACT__________ACCG______TT
12._RUQ_37
__AA____________AACG____AA__
13._-
____AGCCAGACAC__ACCGGGATAAAA
14._RUQ_37
____AGCCAGACAC__ACCGGGATAAAA
15._MITC-000016
____AGCCAGACAC__ACCGGGATAAAA
 85868788899091929394    
_Input profile
TTCCTTAACTCCTTTTAAGGX_XX_XX_XX_X
1._NA
TTCCTTAACTCCTTTTAAGGX_XX_XX_XX_X
2._NA
TTCCTTAACTCCTTTTAAGGX_XX_XX_XX_X
3._NA
TTCCTTAACTCCTTTTAAGGX_XX_XX_XX_X
4._PA_175_[PER]
TTCC__AA__CCTTTT____X_XX_XX_XX_X
5._PA_175_[PER]
TTCC__AA__CCTTTT____X_XX_XX_XX_X
6._PA_175_[PER]
TTCC__AA__CCTTTT____X_XX_XX_XX_X
7._PA_175_[PER]
TTCC__AA__CCTTTT____X_XX_XX_XX_X
8._RUQ_37
TTCC__AA__CCTTTT____X_XX_XX_XX_X
9._PA_175_[PER]
TTCC__AA__CCTTTT____X_XX_XX_XX_X
10._RUQ_37
______AACCCCTT______X_XX_XX_XX_X
11._PA_175_[PER]
TTCC__AA__CCTTTT____X_XX_XX_XX_X
12._RUQ_37
__CC____CT__TT______X_XX_XX_XX_X
13._-
AA__AA____GGAAAATTGGX_XX_XX_XX_X
14._RUQ_37
AA__AA____GGAAAATTGGX_XX_XX_XX_X
15._MITC-000016
AA__AA____GGAAAATTGGX_XX_XX_XX_X

Input profile: PA_175_[PER] NA

 
Mars Center for Cocoa Science, Brazil
Location: Tree: 9
Notes: 9
 Mars, 2018

1._PA_175_[PER] NA

identical
94 shared markers

Mars Center for Cocoa Science, Brazil
Location: Tree: 8
Notes: 8
 Mars, 2018

2._PA_175_[PER] NA

identical
94 shared markers

Mars Center for Cocoa Science, Brazil
Location: Tree: 12
Notes: 12
 Mars, 2018

3._PA_175_[PER] NA

identical
93 shared markers

Mars Center for Cocoa Science, Brazil
Location: Tree: 5
Notes: 5
 Mars, 2018

4._PA_175_[PER]

identical
40 shared markers

Mars Center for Cocoa Science, Brazil
Location: 8127 5
 Dapeng Zhang, 2016
Population Assignment: 
 Dapeng Zhang, 2016

5._PA_175_[PER]

identical
40 shared markers

Mars Center for Cocoa Science, Brazil
Location: 8127 8
 Dapeng Zhang, 2016

6._PA_175_[PER]

identical
40 shared markers

Mars Center for Cocoa Science, Brazil
Location: 8127 9
 Dapeng Zhang, 2016

7._PA_175_[PER]

identical
40 shared markers

Mars Center for Cocoa Science, Brazil
Location: 8127 12
 Dapeng Zhang, 2016

8._PA_175_[PER] RUQ_37

97.5 %
40 shared markers

International Cocoa Quarantine Centre, Reading (ICQC,R), United Kingdom
 Dapeng Zhang, 2016

9._PA_175_[PER]

97.5 %
40 shared markers

International Cocoa Genebank, Trinidad (ICG,T), Trinidad and Tobago
Location: Marper D 738
 Dapeng Zhang, 2016

10._PA_175_[PER] RUQ_37

96.4 %
42 shared markers

International Cocoa Quarantine Centre, Reading (ICQC,R), United Kingdom
 Dapeng Zhang, 2014

11._PA_175_[PER]

95.1 %
41 shared markers

International Cocoa Genebank, Trinidad (ICG,T), Trinidad and Tobago
Location: 5B F473 T6
 Dapeng Zhang, 2014

12._PA_175_[PER] RUQ_37

85.7 %
21 shared markers

International Cocoa Quarantine Centre, Reading (ICQC,R), United Kingdom
 Lambert Motilal, 2023

13._PA_175_[PER] -

50 %
80 shared markers

Mars Center for Cocoa Science, Brazil
Location: Field: 8, Block: 1, Rep: 27, Tree: 5
Notes: MCCS_Structure_refs_above_0.9membership
 Mars, 2018

14._PA_175_[PER] RUQ_37

50 %
80 shared markers

International Cocoa Quarantine Centre, Reading (ICQC,R), United Kingdom
Notes: Reading_Collection
 Mars, 2018

15._PA_175_[PER] MITC-000016

50 %
80 shared markers

USDA-SHRS, United States of America
 Mars, 2018

 


  Key to SNP Markers

1TcSNP1075 2TcSNP1350 3TcSNP534 4TcSNP591 5TcSNP42
6TcSNP418 7TcSNP702 8TcSNP1096 9TcSNP1060 10TcSNP1165
11TcSNP429 12TcSNP75 13TcSNP891 14TcSNP122 15TcSNP316
16TcSNP521 17TcSNP1062 18TcSNP836 19TcSNP878 20TcSNP929
21TcSNP413 22TcSNP653 23TcSNP1149 24TcSNP174 25TcSNP32
26TcSNP372 27TcSNP448 28TcSNP872 29TcSNP953 30TcSNP1034
31TcSNP1175 32TcSNP1111 33TcSNP577 34TcSNP90 35TcSNP998
36TcSNP150 37TcSNP28 38TcSNP751 39TcSNP1484 40TcSNP602
41TcSNP561 42TcSNP894 43TcSNP1063 44TcSNP1126 45TcSNP1270
46TcSNP606 47TcSNP329 48TcSNP689 49TcSNP944 50TcSNP1242
51TcSNP1383 52TcSNP547 53TcSNP776 54TcSNP1309 55TcSNP151
56TcSNP1520 57TcSNP799 58TcSNP899 59TcSNP226 60TcSNP1439
61TcSNP1442 62TcSNP193 63TcSNP25 64TcSNP364 65TcSNP144
66TcSNP230 67TcSNP560 68TcSNP723 69TcSNP731 70TcSNP701
71TcSNP1041 72TcSNP645 73TcSNP917 74Tcm003s01336581 75Tcm003s07402719
76Tcm001s00947643 77Tcm006s26664133 78Tcm002s20575712 79TcSNP529 80TcSNP1458
81TcSNP60 82TcSNP430 83TcSNP823 84TcSNP619 85TcSNP994
86TcSNP1144 87TcSNP1156 88TcSNP469 89TcSNP999 90TcSNP242
91TcSNP1253 92TcSNP1414 93TcSNP154 94TcSNP240