SNP Profiles of PA 156 [PER]   View Data

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 Key

 1234567891011121314
_Input profile
AAAACTAAGGGGCCCCCCCCGGTTCTCT
1._GC-05-138-3-40
AAAACTAAGGGGCCCCCCCCGGTTCTCT
2._GC-05-138-3-40
AAAACTAAGGGGCCCCCCCCGGTTCTCT
3._GC-05-138-3-40
AAAACTAAGGGGCCCCCCCCGGTTCTCT
4._GC-05-138-3-40
AAAACTAAGGGGCCCCCCCCGGTTCTCT
5._PA_156_[PER]
AAAACTAA________CCCCGG__CT__
6._PA_156_[PER]
AAAACTAA________CCCCGG__CT__
7._PA_156_[PER]
AAAACTAA________CCCCGG__CT__
8._PA_156_[PER]
AAAACTAA________CCCCGG__CT__
9._PA_156_[PER]
AAAACTAA________CCCCGG__CT__
10._RUQ_1531
____CCCC____CT__CC____TTCC__
11._GC-05-137-3-39
AACCCCCCGGAGCTCCCCCCGGTTCCTT
12._GC-05-137-3-39
AACCCCCCGGAGCTCCCCCCGGTTCCTT
13._GC-05-137-3-39
AACCCCCCGGAGCTCCCCCCGGTTCCTT
14._GC-05-137-3-39
AACCCCCCGGAGCTCCCCCCGGTTCCTT
15._GC-05-137-3-39
AACCCCCCGGAGCTCCCCCCGGTTCCTT
16._PA_156_[PER]
AACCCCCC________CCCCGG__CC__
17._PA_156_[PER]
AACCCCCC________CCCCGG__CC__
18._PA_156_[PER]
AACCCCCC________CCCCGG__CC__
19._PA_156_[PER]
AACCCCCC________CCCCGG__CC__
20._PA_156_[PER]
AACCCCCC________CCCCGG__CC__
21._RUQ_1531
AACCCCCC________CCCCGG__CC__
22._PA_156_[PER]
AACCCCCC________CCCCGG__CC__
23._PA_156_[PER]
AACCCCCC________CCCCGG__CC__
24._PA156[PER]
______CC________CC______CC__
25._RUQ_1531
______CC____CT______________
26._RUQ_1531
AACC__CCGGAG__GGGG__GGAAGGAA
 1516171819202122232425262728
_Input profile
AACCAAGGCCCGCTAATTGGATAACCCG
1._GC-05-138-3-40
AACCAAGGCCCGCTAATTGGATAACCCG
2._GC-05-138-3-40
AACCAAGGCCCGCTAATTGGATAACCCG
3._GC-05-138-3-40
AACCAAGGCCCGCTAATTGGATAACCCG
4._GC-05-138-3-40
AACCAAGGCCCGCTAATTGGATAACCCG
5._PA_156_[PER]
____AA____CG________ATAA__CG
6._PA_156_[PER]
____AA____CG________ATAA__CG
7._PA_156_[PER]
____AA____CG________ATAA__CG
8._PA_156_[PER]
____AA____CG________ATAA__CG
9._PA_156_[PER]
____AA____CG________ATAA__CG
10._RUQ_1531
________CC________GG__AACCGG
11._GC-05-137-3-39
AACCGG__CCCGTTAATTGGATAACCGG
12._GC-05-137-3-39
AACCGGCCCCCGTTAATTGGATAACCGG
13._GC-05-137-3-39
AACCGGCCCCCGTTAATTGGATAACCGG
14._GC-05-137-3-39
AACCGGCCCCCGTTAATTGGATAACCGG
15._GC-05-137-3-39
AACCGGCCCCCGTTAATTGGATAACCGG
16._PA_156_[PER]
____GG____CG________ATAA__GG
17._PA_156_[PER]
____GG____CG________ATAA__GG
18._PA_156_[PER]
____GG____CG________ATAA__GG
19._PA_156_[PER]
____GG____CG________ATAA__GG
20._PA_156_[PER]
____GG____CG________ATAA__GG
21._RUQ_1531
____GG____CG________ATAA__GG
22._PA_156_[PER]
____GG____CG________ATAA__GG
23._PA_156_[PER]
____GG____CG________ATAA__GG
24._PA156[PER]
________GG__TT____GG__AACCCC
25._RUQ_1531
____GGTT__________________GG
26._RUQ_1531
TTCCGGGG__CGAAAAAAGGATAAGGCC
 2930313233343536373839404142
_Input profile
AATTGGAGCGCCAGTTGGTTAGCTAGCC
1._GC-05-138-3-40
AATTGGAGCGCCAGTTGGTTAGCTAGCC
2._GC-05-138-3-40
AATTGGAGCGCCAGTTGGTTAGCTAGCC
3._GC-05-138-3-40
AATTGGAGCGCCAGTTGGTTAGCTAGCC
4._GC-05-138-3-40
AATTGGAGCGCCAGTTGGTTAGCTAGCC
5._PA_156_[PER]
AA______CG__AGTT____AG______
6._PA_156_[PER]
AA______CG__AGTT____AG______
7._PA_156_[PER]
AA______CG__AGTT____AG______
8._PA_156_[PER]
AA______CG__AGTT____AG______
9._PA_156_[PER]
AA______CG__AGTT____AG______
10._RUQ_1531
______GGCGCCAGGG____AGTT____
11._GC-05-137-3-39
AATTGTGGCGCCAGGGGGTTAGTTGGCC
12._GC-05-137-3-39
AATTGTGGCGCCAGGGGGTTAGTTAGCC
13._GC-05-137-3-39
AATTGTGGCGCCAGGGGGTTAGTTGGCC
14._GC-05-137-3-39
AATTGTGGCGCCAGGGGGTTAGTTGGCC
15._GC-05-137-3-39
AATTGTGGCGCCAGGGGGTTAGTTGGCC
16._PA_156_[PER]
AA______CG__AGGG____AG______
17._PA_156_[PER]
AA______CG__AGGG____AG______
18._PA_156_[PER]
AA______CG__AGGG____AG______
19._PA_156_[PER]
AA______CG__AGGG____AG______
20._PA_156_[PER]
AA______CG__AGGG____AG______
21._RUQ_1531
AA______CG__AGGG____AG______
22._PA_156_[PER]
AA______CG__AGGG____AG______
23._PA_156_[PER]
AA______CG__AGGG____AG______
24._PA156[PER]
______GGCG________TT__TT____
25._RUQ_1531
________CG__AG________TT____
26._RUQ_1531
AAAAACGGCGCCAGCCCCAAAGAAGGGG
 4344454647484950515253545556
_Input profile
GGTTCTAAGGAACCCCGGGGTTTTCCCT
1._GC-05-138-3-40
GGTTCTAAGGAACCCCGGGGTTTTCCCT
2._GC-05-138-3-40
GGTTCTAAGGAACCCCGGGGTTTTCCCT
3._GC-05-138-3-40
GGTTCTAAGGAACCCCGGGGTTTTCCCT
4._GC-05-138-3-40
GGTTCTAAGGAACCCCGGGGTTTT__CT
5._PA_156_[PER]
____CT__________________CCCT
6._PA_156_[PER]
____CT__________________CCCT
7._PA_156_[PER]
____CT__________________CCCT
8._PA_156_[PER]
____CT__________________CCCT
9._PA_156_[PER]
____CT____________________CT
10._RUQ_1531
GGTT____GG____________TTCC__
11._GC-05-137-3-39
GGTTTTAAGGAACCCCGGAGGGTTCCCC
12._GC-05-137-3-39
GGTTTTAAGGAACCCCGGAGGGTTCCCC
13._GC-05-137-3-39
GGTTTTAAGGAACCCCGGAGGGTTCCCC
14._GC-05-137-3-39
GGTTTTAAGGAACCCCGGAGGGTTCCCC
15._GC-05-137-3-39
GGTTTTAAGGAACCCCGGAGGGTT__CC
16._PA_156_[PER]
____TT__________________CCCC
17._PA_156_[PER]
____TT__________________CCCC
18._PA_156_[PER]
____TT__________________CCCC
19._PA_156_[PER]
____TT__________________CCCC
20._PA_156_[PER]
____TT__________________CCCC
21._RUQ_1531
____TT__________________CCCC
22._PA_156_[PER]
____TT__________________CCCC
23._PA_156_[PER]
____TT____________________CC
24._PA156[PER]
__TT__AA________________CC__
25._RUQ_1531
________GG__________________
26._RUQ_1531
CC__AA__GGAAGG__GGAGCCAAGGGG
 5758596061626364656667686970
_Input profile
TTAACCCTCTAAGGGGAAAAGTGGGGTT
1._GC-05-138-3-40
TTAACCCTCTAAGGGGAAAAGTGGGGTT
2._GC-05-138-3-40
TTAACCCTCTAAGGGGAAAAGTGGGGTT
3._GC-05-138-3-40
TTAACCCTCTAAGGGGAAAAGTGGGGTT
4._GC-05-138-3-40
TTAACCCTCTAAGGGGAAAAGTGGGGTT
5._PA_156_[PER]
____CC__CTAAGG__AAAAGTGG____
6._PA_156_[PER]
____CC__CTAAGG__AAAAGTGG____
7._PA_156_[PER]
____CC__CTAAGG__AAAAGTGG____
8._PA_156_[PER]
____CC__CTAAGG__AAAAGTGG____
9._PA_156_[PER]
____CC__CTAAGG__AAAAGTGG____
10._RUQ_1531
TTGGCCCTCTAA__GGACAATTGGGG__
11._GC-05-137-3-39
TTAGCCCTCTAAGGGGACAATTGGGGCT
12._GC-05-137-3-39
TTAGCCCTCTAAGGGGACAATTGGGGCT
13._GC-05-137-3-39
TTAGCCCTCTAAGGGGACAATTGGGGCT
14._GC-05-137-3-39
TTAGCCCTCTAAGGGGACAATTGGGGCT
15._GC-05-137-3-39
TTAGCCCTCTAAGGGGACAATTGGGGCT
16._PA_156_[PER]
________CTAAGG__ACAATTGG____
17._PA_156_[PER]
____CC__CTAAGG__ACAATTGG____
18._PA_156_[PER]
____CC__CTAAGG__ACAATTGG____
19._PA_156_[PER]
____CC__CTAAGG__ACAATTGG____
20._PA_156_[PER]
____CC__CTAAGG__ACAATTGG____
21._RUQ_1531
____CC__CTAAGG__ACAATTGG____
22._PA_156_[PER]
____CC__CTAAGG__ACAATTGG____
23._PA_156_[PER]
____CC__CTAAGG__ACAATTGG____
24._PA156[PER]
____GGCT__AA__GGACAA________
25._RUQ_1531
__AG____________ACAA__GGGG__
26._RUQ_1531
AAAGGGAGAGAAGGGGACAAAACCGG__
 7172737475767778798081828384
_Input profile
CCAGCTAAAAACAAAACCGGCCATAACT
1._GC-05-138-3-40
CCAGCTAAAAACAAAACCGGCCATAACT
2._GC-05-138-3-40
CCAGCTAAAAACAAAACCGGCCATAACT
3._GC-05-138-3-40
CCAGCTAAAAACAAAACCGGCCATAACT
4._GC-05-138-3-40
CCAGCTAAAAACAAAACCGGCCATAACT
5._PA_156_[PER]
__AGCT__________CCGG______CT
6._PA_156_[PER]
__AGCT__________CCGG______CT
7._PA_156_[PER]
__AGCT__________CCGG______CT
8._PA_156_[PER]
__AGCT__________CCGG______CT
9._PA_156_[PER]
__AGCT__________CCGG______CT
10._RUQ_1531
________________ACGG____ACTT
11._GC-05-137-3-39
CCAATTCCAGAAAAAGACGGCCATACTT
12._GC-05-137-3-39
CCAATTCCAGAAAAAGACGGCCATACTT
13._GC-05-137-3-39
CCAATTCCAGAAAAAGACGGCCATACTT
14._GC-05-137-3-39
CCAATTCCAGAAAAAGACGGCCATACTT
15._GC-05-137-3-39
CCAATTCCAGAAAAAGACGGCCATACTT
16._PA_156_[PER]
__AATT__________ACGG______TT
17._PA_156_[PER]
__AATT__________ACGG______TT
18._PA_156_[PER]
__AATT__________ACGG______TT
19._PA_156_[PER]
__AATT__________ACGG______TT
20._PA_156_[PER]
__AATT__________ACGG______TT
21._RUQ_1531
__AATT__________ACGG______TT
22._PA_156_[PER]
__AATT__________ACGG______TT
23._PA_156_[PER]
__AATT__________ACGG______TT
24._PA156[PER]
CC________________CC________
25._RUQ_1531
__AA____________ACGG____AC__
26._RUQ_1531
____AACCAGAAAA__ACCCGGATACAA
 85868788899091929394    
_Input profile
TTTTCCAATTCTTTTTATGGX_XX_XX_XX_X
1._GC-05-138-3-40
TTTTCCAATTCTTTTTATGGX_XX_XX_XX_X
2._GC-05-138-3-40
TTTTCCAATTCTTTTTATGGX_XX_XX_XX_X
3._GC-05-138-3-40
TTTTCCAATTCTTTTTATGGX_XX_XX_XX_X
4._GC-05-138-3-40
TTTTCCAATTCTTTTTATGGX_XX_XX_XX_X
5._PA_156_[PER]
TTTT__AA__CTTTTT____X_XX_XX_XX_X
6._PA_156_[PER]
TTTT__AA__CTTTTT____X_XX_XX_XX_X
7._PA_156_[PER]
TTTT__AA__CTTTTT____X_XX_XX_XX_X
8._PA_156_[PER]
TTTT__AA__CTTTTT____X_XX_XX_XX_X
9._PA_156_[PER]
TTTT__AA__CTTTTT____X_XX_XX_XX_X
10._RUQ_1531
______AA__CCTT______X_XX_XX_XX_X
11._GC-05-137-3-39
CCCCCTAACTCCTTTTAAGGX_XX_XX_XX_X
12._GC-05-137-3-39
CCCCCTAACTCCTTTTAAGGX_XX_XX_XX_X
13._GC-05-137-3-39
CCCCCTAACTCCTTTTAAGGX_XX_XX_XX_X
14._GC-05-137-3-39
CCCCCTAACTCCTTTTAAGGX_XX_XX_XX_X
15._GC-05-137-3-39
CCCCCTAACTCCTTTTAAGGX_XX_XX_XX_X
16._PA_156_[PER]
CC____AA__CCTTTT____X_XX_XX_XX_X
17._PA_156_[PER]
CCCC__AA__CCTTTT____X_XX_XX_XX_X
18._PA_156_[PER]
CCCC__AA__CCTTTT____X_XX_XX_XX_X
19._PA_156_[PER]
CCCC__AA__CCTTTT____X_XX_XX_XX_X
20._PA_156_[PER]
CCCC__AA__CCTTTT____X_XX_XX_XX_X
21._RUQ_1531
CCCC__AA__CCTTTT____X_XX_XX_XX_X
22._PA_156_[PER]
CCCC__AA__CCTTTT____X_XX_XX_XX_X
23._PA_156_[PER]
CCCC__AA__CCTTTT____X_XX_XX_XX_X
24._PA156[PER]
CC__________________X_XX_XX_XX_X
25._RUQ_1531
__CC____CT__TT______X_XX_XX_XX_X
26._RUQ_1531
GG__AG____GGAAAATTGGX_XX_XX_XX_X

Input profile: PA_156_[PER] GC-05-138-3-40

 
Mars Center for Cocoa Science, Brazil
Location: Tree: 3
Notes: 3 > FP3
 Mars, 2018

1._PA_156_[PER] GC-05-138-3-40

identical
94 shared markers

Mars Center for Cocoa Science, Brazil
Location: Tree: 1
Notes: 1 > FP1
 Mars, 2018

2._PA_156_[PER] GC-05-138-3-40

identical
94 shared markers

Mars Center for Cocoa Science, Brazil
Location: Tree: 4
Notes: 4
 Mars, 2018

3._PA_156_[PER] GC-05-138-3-40

identical
94 shared markers

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

4._PA_156_[PER] GC-05-138-3-40

identical
93 shared markers

Mars Center for Cocoa Science, Brazil
Location: Tree: 2
Notes: 2 > FP2
 Mars, 2018

5._PA_156_[PER]

identical
40 shared markers

Mars Center for Cocoa Science, Brazil
Location: 5340 4
 Dapeng Zhang, 2016

6._PA_156_[PER]

identical
40 shared markers

Mars Center for Cocoa Science, Brazil
Location: 5340 5
 Dapeng Zhang, 2016

7._PA_156_[PER]

identical
40 shared markers

Mars Center for Cocoa Science, Brazil
Location: 5340 1 > FP
 Dapeng Zhang, 2016

8._PA_156_[PER]

identical
40 shared markers

Mars Center for Cocoa Science, Brazil
Location: 5340 3 > FP
 Dapeng Zhang, 2016

9._PA_156_[PER]

identical
39 shared markers

Mars Center for Cocoa Science, Brazil
Location: 5340 2 > FP
 Dapeng Zhang, 2016

10._PA_156_[PER] RUQ_1531

78.6 %
42 shared markers

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

11._PA_156_[PER] GC-05-137-3-39

75.3 %
93 shared markers

Mars Center for Cocoa Science, Brazil
Location: Tree: 5
Notes: 5 > FP4
 Mars, 2018

12._PA_156_[PER] GC-05-137-3-39

75 %
94 shared markers

Mars Center for Cocoa Science, Brazil
Location: Tree: 3
Notes: 3 > FP2
 Mars, 2018

13._PA_156_[PER] GC-05-137-3-39

74.5 %
94 shared markers

Mars Center for Cocoa Science, Brazil
Location: Tree: 4
Notes: 4 > FP3
 Mars, 2018

14._PA_156_[PER] GC-05-137-3-39

74.5 %
94 shared markers

Mars Center for Cocoa Science, Brazil
Location: Tree: 2
Notes: 2
 Mars, 2018

15._PA_156_[PER] GC-05-137-3-39

74.2 %
93 shared markers

Mars Center for Cocoa Science, Brazil
Location: Tree: 1
Notes: 1
 Mars, 2018

16._PA_156_[PER]

71.1 %
38 shared markers

International Cocoa Genebank, Trinidad (ICG,T), Trinidad and Tobago
Location: 5A D295 T1
 Dapeng Zhang, 2016

17._PA_156_[PER]

70 %
40 shared markers

Mars Center for Cocoa Science, Brazil
Location: 5339 2
 Dapeng Zhang, 2016

18._PA_156_[PER]

70 %
40 shared markers

Mars Center for Cocoa Science, Brazil
Location: 5339 3 > FP
 Dapeng Zhang, 2016

19._PA_156_[PER]

70 %
40 shared markers

Mars Center for Cocoa Science, Brazil
Location: 5339 4 > FP
 Dapeng Zhang, 2016

20._PA_156_[PER]

70 %
40 shared markers

Mars Center for Cocoa Science, Brazil
Location: 5339 5 > FP
 Dapeng Zhang, 2016

21._PA_156_[PER] RUQ_1531

70 %
40 shared markers

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

22._PA_156_[PER]

70 %
40 shared markers

Malaysian Cocoa Board (MCB), Malaysia
Location: Plot 1 - Row1 C0184 28
 Dapeng Zhang, 2016

23._PA_156_[PER]

69.2 %
39 shared markers

Mars Center for Cocoa Science, Brazil
Location: 5339 1
 Dapeng Zhang, 2016
Population Assignment: 
 Dapeng Zhang, 2016

24._PA_156_[PER] PA156[PER]

68 %
25 shared markers

Center for Forestry Research and Technology Transfer, Vietnam
Location: CEFORTT
 Jocelyn De Wever et al., 2019

25._PA_156_[PER] RUQ_1531

59.5 %
21 shared markers

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

26._PA_156_[PER] RUQ_1531

40 %
80 shared markers

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