SNP Profiles of PA 156/T1   View Data

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 Key

 1 2 3 4 5 6 7 8 9 10 11 12 13 14
_Input profile
AAAACTAAGGGGCCCCCCCCGGTTCTCT
1._PA_156_[PER]___
AAAACTAAGGGGCCCCCCCCGGTTCTCT
2._PA_156_[PER]___
AAAACTAAGGGGCCCCCCCCGGTTCTCT
3._PA_156_[PER]___
AAAACTAAGGGGCCCCCCCCGGTTCTCT
4._PA_156_[PER]___
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._PA_156_[PER]___
____CCCC____CT__CC____TTCC__
11._PA_156_[PER]___
AACCCCCCGGAGCTCCCCCCGGTTCCTT
12._PA_156_[PER]___
AACCCCCCGGAGCTCCCCCCGGTTCCTT
13._PA_156_[PER]___
AACCCCCCGGAGCTCCCCCCGGTTCCTT
14._PA_156_[PER]___
AACCCCCCGGAGCTCCCCCCGGTTCCTT
15._PA_156_[PER]___
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._PA_156_[PER]___
AACCCCCC________CCCCGG__CC__
22._PA_156_[PER]___
AACCCCCC________CCCCGG__CC__
23._PA_156_[PER]___
AACCCCCC________CCCCGG__CC__
24._PA_156_[PER]___
______CC________CC______CC__
25._PA_156_[PER]___
______CC____CT______________
26._PA_156_[PER]___
AACC__CCGGAG__GGGG__GGAAGGAA
 15 16 17 18 19 20 21 22 23 24 25 26 27 28
_Input profile
AACCAAGGCCCGCTAATTGGATAACCCG
1._PA_156_[PER]___
AACCAAGGCCCGCTAATTGGATAACCCG
2._PA_156_[PER]___
AACCAAGGCCCGCTAATTGGATAACCCG
3._PA_156_[PER]___
AACCAAGGCCCGCTAATTGGATAACCCG
4._PA_156_[PER]___
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._PA_156_[PER]___
________CC________GG__AACCGG
11._PA_156_[PER]___
AACCGG__CCCGTTAATTGGATAACCGG
12._PA_156_[PER]___
AACCGGCCCCCGTTAATTGGATAACCGG
13._PA_156_[PER]___
AACCGGCCCCCGTTAATTGGATAACCGG
14._PA_156_[PER]___
AACCGGCCCCCGTTAATTGGATAACCGG
15._PA_156_[PER]___
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._PA_156_[PER]___
____GG____CG________ATAA__GG
22._PA_156_[PER]___
____GG____CG________ATAA__GG
23._PA_156_[PER]___
____GG____CG________ATAA__GG
24._PA_156_[PER]___
________GG__TT____GG__AACCCC
25._PA_156_[PER]___
____GGTT__________________GG
26._PA_156_[PER]___
TTCCGGGG__CGAAAAAAGGATAAGGCC
 29 30 31 32 33 34 35 36 37 38 39 40 41 42
_Input profile
AATTGGAGCGCCAGTTGGTTAGCTAGCC
1._PA_156_[PER]___
AATTGGAGCGCCAGTTGGTTAGCTAGCC
2._PA_156_[PER]___
AATTGGAGCGCCAGTTGGTTAGCTAGCC
3._PA_156_[PER]___
AATTGGAGCGCCAGTTGGTTAGCTAGCC
4._PA_156_[PER]___
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._PA_156_[PER]___
______GGCGCCAGGG____AGTT____
11._PA_156_[PER]___
AATTGTGGCGCCAGGGGGTTAGTTGGCC
12._PA_156_[PER]___
AATTGTGGCGCCAGGGGGTTAGTTAGCC
13._PA_156_[PER]___
AATTGTGGCGCCAGGGGGTTAGTTGGCC
14._PA_156_[PER]___
AATTGTGGCGCCAGGGGGTTAGTTGGCC
15._PA_156_[PER]___
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._PA_156_[PER]___
AA______CG__AGGG____AG______
22._PA_156_[PER]___
AA______CG__AGGG____AG______
23._PA_156_[PER]___
AA______CG__AGGG____AG______
24._PA_156_[PER]___
______GGCG________TT__TT____
25._PA_156_[PER]___
________CG__AG________TT____
26._PA_156_[PER]___
AAAAACGGCGCCAGCCCCAAAGAAGGGG
 43 44 45 46 47 48 49 50 51 52 53 54 55 56
_Input profile
GGTTCTAAGGAACCCCGGGGTTTTCCCT
1._PA_156_[PER]___
GGTTCTAAGGAACCCCGGGGTTTTCCCT
2._PA_156_[PER]___
GGTTCTAAGGAACCCCGGGGTTTTCCCT
3._PA_156_[PER]___
GGTTCTAAGGAACCCCGGGGTTTTCCCT
4._PA_156_[PER]___
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._PA_156_[PER]___
GGTT____GG____________TTCC__
11._PA_156_[PER]___
GGTTTTAAGGAACCCCGGAGGGTTCCCC
12._PA_156_[PER]___
GGTTTTAAGGAACCCCGGAGGGTTCCCC
13._PA_156_[PER]___
GGTTTTAAGGAACCCCGGAGGGTTCCCC
14._PA_156_[PER]___
GGTTTTAAGGAACCCCGGAGGGTTCCCC
15._PA_156_[PER]___
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._PA_156_[PER]___
____TT__________________CCCC
22._PA_156_[PER]___
____TT__________________CCCC
23._PA_156_[PER]___
____TT____________________CC
24._PA_156_[PER]___
__TT__AA________________CC__
25._PA_156_[PER]___
________GG__________________
26._PA_156_[PER]___
CC__AA__GGAAGG__GGAGCCAAGGGG
 57 58 59 60 61 62 63 64 65 66 67 68 69 70
_Input profile
TTAACCCTCTAAGGGGAAAAGTGGGGTT
1._PA_156_[PER]___
TTAACCCTCTAAGGGGAAAAGTGGGGTT
2._PA_156_[PER]___
TTAACCCTCTAAGGGGAAAAGTGGGGTT
3._PA_156_[PER]___
TTAACCCTCTAAGGGGAAAAGTGGGGTT
4._PA_156_[PER]___
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._PA_156_[PER]___
TTGGCCCTCTAA__GGACAATTGGGG__
11._PA_156_[PER]___
TTAGCCCTCTAAGGGGACAATTGGGGCT
12._PA_156_[PER]___
TTAGCCCTCTAAGGGGACAATTGGGGCT
13._PA_156_[PER]___
TTAGCCCTCTAAGGGGACAATTGGGGCT
14._PA_156_[PER]___
TTAGCCCTCTAAGGGGACAATTGGGGCT
15._PA_156_[PER]___
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._PA_156_[PER]___
____CC__CTAAGG__ACAATTGG____
22._PA_156_[PER]___
____CC__CTAAGG__ACAATTGG____
23._PA_156_[PER]___
____CC__CTAAGG__ACAATTGG____
24._PA_156_[PER]___
____GGCT__AA__GGACAA________
25._PA_156_[PER]___
__AG____________ACAA__GGGG__
26._PA_156_[PER]___
AAAGGGAGAGAAGGGGACAAAACCGG__
 71 72 73 74 75 76 77 78 79 80 81 82 83 84
_Input profile
CCAGCTAAAAACAAAACCGGCCATAACT
1._PA_156_[PER]___
CCAGCTAAAAACAAAACCGGCCATAACT
2._PA_156_[PER]___
CCAGCTAAAAACAAAACCGGCCATAACT
3._PA_156_[PER]___
CCAGCTAAAAACAAAACCGGCCATAACT
4._PA_156_[PER]___
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._PA_156_[PER]___
________________ACGG____ACTT
11._PA_156_[PER]___
CCAATTCCAGAAAAAGACGGCCATACTT
12._PA_156_[PER]___
CCAATTCCAGAAAAAGACGGCCATACTT
13._PA_156_[PER]___
CCAATTCCAGAAAAAGACGGCCATACTT
14._PA_156_[PER]___
CCAATTCCAGAAAAAGACGGCCATACTT
15._PA_156_[PER]___
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._PA_156_[PER]___
__AATT__________ACGG______TT
22._PA_156_[PER]___
__AATT__________ACGG______TT
23._PA_156_[PER]___
__AATT__________ACGG______TT
24._PA_156_[PER]___
CC________________CC________
25._PA_156_[PER]___
__AA____________ACGG____AC__
26._PA_156_[PER]___
____AACCAGAAAA__ACCCGGATACAA
 85 86 87 88 89 90 91 92 93 94     
_Input profile
TTTTCCAATTCTTTTTATGGX_XX_XX_XX_X
1._PA_156_[PER]___
TTTTCCAATTCTTTTTATGGX_XX_XX_XX_X
2._PA_156_[PER]___
TTTTCCAATTCTTTTTATGGX_XX_XX_XX_X
3._PA_156_[PER]___
TTTTCCAATTCTTTTTATGGX_XX_XX_XX_X
4._PA_156_[PER]___
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._PA_156_[PER]___
______AA__CCTT______X_XX_XX_XX_X
11._PA_156_[PER]___
CCCCCTAACTCCTTTTAAGGX_XX_XX_XX_X
12._PA_156_[PER]___
CCCCCTAACTCCTTTTAAGGX_XX_XX_XX_X
13._PA_156_[PER]___
CCCCCTAACTCCTTTTAAGGX_XX_XX_XX_X
14._PA_156_[PER]___
CCCCCTAACTCCTTTTAAGGX_XX_XX_XX_X
15._PA_156_[PER]___
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._PA_156_[PER]___
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._PA_156_[PER]___
CC__________________X_XX_XX_XX_X
25._PA_156_[PER]___
__CC____CT__TT______X_XX_XX_XX_X
26._PA_156_[PER]___
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: 4
Notes: 4
 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: 3
Notes: 3 > FP3
 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

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
Population Assignment: 

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