SNP Profiles of PA-175   View Data

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 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
AATTGTGGCGCCAAGGTTGGTTGGCCGG
1._NA
AATTGTGGCGCCAAGGTTGGTTGGCCGG
2._NA
AATTGTGGCGCCAAGGTTGGTTGGCCGG
3._NA
AATTGTGGCGCCAAGGTTGGTTGGCCGG
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____GG
11._PA_175_[PER]
AA______CG__AAGG__GG________
12._RUQ_37
________CG__AA______TT______
13._-
AAAAACGGCGCCAACCAAGGAAGGGGCC
14._RUQ_37
AAAAACGGCGCCAACCAAGGAAGGGGCC
15._MITC-000016
AAAAACGGCGCCAACCAAGGAAGGGGCC
 4344454647484950515253545556
_Input profile
TTCCAAGGAACCCCGGAGGGTTCCCCTT
1._NA
TTCCAAGGAACCCCGGAGGGTTCCCCTT
2._NA
TTCCAAGGAACCCCGGAGGGTTCCCCTT
3._NA
TTCCAAGGAACCCCGGAGGGTTCCCCTT
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
TT____GG____________CTCC__TT
11._PA_175_[PER]
__CC__________________CCCC__
12._RUQ_37
______GG____________________
13._-
__GG__GGAAGG__GGAGCCAGGGGGAA
14._RUQ_37
__GG__GGAAGG__GGAGCCAGGGGGAA
15._MITC-000016
__GG__GGAAGG__GGAGCCAGGGGGAA
 5758596061626364656667686970
_Input profile
AGCCCTCTAAGGGGCCGGGTGGAGCTCC
1._NA
AGCCCTCTAAGGGGCCGGGTGGAGCTCC
2._NA
AGCCCTCTAAGGGGCCGGGTGGAGCTCC
3._NA
AGCCCTCTAAGGGGCCGGGTGGAGCTCC
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
__CCCTCTAA__GGCCGGGTGGAG____
11._PA_175_[PER]
__CC__CTAAGG__CCGGGT________
12._RUQ_37
AG____________CCGG__GGAG____
13._-
AGGGAGAGAAGGGGCCGGACCCAG____
14._RUQ_37
AGGGAGAGAAGGGGCCGGACCCAG____
15._MITC-000016
AGGGAGAGAAGGGGCCGGACCCAG____
 7172737475767778798081828384
_Input profile
GGCTCCAGACACAGACCGCCATAATTTT
1._NA
GGCTCCAGACACAGACCGCCATAATTTT
2._NA
GGCTCCAGACACAGACCGCCATAATTTT
3._NA
GGCTCCAGACACAGACCGCCATAATTTT
4._PA_175_[PER]
GGCT__________ACCG______TTTT
5._PA_175_[PER]
GGCT__________ACCG______TTTT
6._PA_175_[PER]
GGCT__________ACCG______TTTT
7._PA_175_[PER]
GGCT__________ACCG______TTTT
8._RUQ_37
AACT__________ACCG______TTTT
9._PA_175_[PER]
AACT__________ACCG______TTTT
10._RUQ_37
______________ACCG____AATT__
11._PA_175_[PER]
AACT__________ACCG______TTTT
12._RUQ_37
AA____________AACG____AA____
13._-
__AGCCAGACAC__ACCGGGATAAAAAA
14._RUQ_37
__AGCCAGACAC__ACCGGGATAAAAAA
15._MITC-000016
__AGCCAGACAC__ACCGGGATAAAAAA
 858687888990919293     
_Input profile
CCTTAACTCCTTTTAAGGX_XX_XX_XX_XX_X
1._NA
CCTTAACTCCTTTTAAGGX_XX_XX_XX_XX_X
2._NA
CCTTAACTCCTTTTAAGGX_XX_XX_XX_XX_X
3._NA
CCTTAACTCCTTTTAAGGX_XX_XX_XX_XX_X
4._PA_175_[PER]
CC__AA__CCTTTT____X_XX_XX_XX_XX_X
5._PA_175_[PER]
CC__AA__CCTTTT____X_XX_XX_XX_XX_X
6._PA_175_[PER]
CC__AA__CCTTTT____X_XX_XX_XX_XX_X
7._PA_175_[PER]
CC__AA__CCTTTT____X_XX_XX_XX_XX_X
8._RUQ_37
CC__AA__CCTTTT____X_XX_XX_XX_XX_X
9._PA_175_[PER]
CC__AA__CCTTTT____X_XX_XX_XX_XX_X
10._RUQ_37
____AACCCCTT______X_XX_XX_XX_XX_X
11._PA_175_[PER]
CC__AA__CCTTTT____X_XX_XX_XX_XX_X
12._RUQ_37
CC____CT__TT______X_XX_XX_XX_XX_X
13._-
__AA____GGAAAATTGGX_XX_XX_XX_XX_X
14._RUQ_37
__AA____GGAAAATTGGX_XX_XX_XX_XX_X
15._MITC-000016
__AA____GGAAAATTGGX_XX_XX_XX_XX_X

Input profile: PA_175_[PER] NA

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

1._PA_175_[PER] NA

identical
93 shared markers

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

2._PA_175_[PER] NA

identical
93 shared markers

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

3._PA_175_[PER] NA

identical
93 shared markers

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

50.6 %
79 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

50.6 %
79 shared markers

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

15._PA_175_[PER] MITC-000016

50.6 %
79 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 37TcSNP751 38TcSNP1484 39TcSNP602 40TcSNP561
41TcSNP894 42TcSNP1063 43TcSNP1126 44TcSNP1270 45TcSNP606
46TcSNP329 47TcSNP689 48TcSNP944 49TcSNP1242 50TcSNP1383
51TcSNP547 52TcSNP776 53TcSNP1309 54TcSNP151 55TcSNP1520
56TcSNP799 57TcSNP899 58TcSNP226 59TcSNP1439 60TcSNP1442
61TcSNP193 62TcSNP25 63TcSNP364 64TcSNP144 65TcSNP230
66TcSNP560 67TcSNP723 68TcSNP731 69TcSNP701 70TcSNP1041
71TcSNP645 72TcSNP917 73Tcm003s01336581 74Tcm003s07402719 75Tcm001s00947643
76Tcm006s26664133 77Tcm002s20575712 78TcSNP529 79TcSNP1458 80TcSNP60
81TcSNP430 82TcSNP823 83TcSNP619 84TcSNP994 85TcSNP1144
86TcSNP1156 87TcSNP469 88TcSNP999 89TcSNP242 90TcSNP1253
91TcSNP1414 92TcSNP154 93TcSNP240