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
GGTTCTAAGGAACCCCGGGGTTTTCTTT
1._PA_156_[PER]___
GGTTCTAAGGAACCCCGGGGTTTTCTTT
2._PA_156_[PER]___
GGTTCTAAGGAACCCCGGGGTTTTCTTT
3._PA_156_[PER]___
GGTTCTAAGGAACCCCGGGGTTTTCTTT
4._PA_156_[PER]___
GGTTCTAAGGAACCCCGGGGTTTTCTTT
5._PA_156_[PER]___
____CT__________________CT__
6._PA_156_[PER]___
____CT__________________CT__
7._PA_156_[PER]___
____CT__________________CT__
8._PA_156_[PER]___
____CT__________________CT__
9._PA_156_[PER]___
____CT__________________CT__
10._PA_156_[PER]___
GGTT____GG____________TT__TT
11._PA_156_[PER]___
GGTTTTAAGGAACCCCGGAGGGTTCCTT
12._PA_156_[PER]___
GGTTTTAAGGAACCCCGGAGGGTTCCTT
13._PA_156_[PER]___
GGTTTTAAGGAACCCCGGAGGGTTCCTT
14._PA_156_[PER]___
GGTTTTAAGGAACCCCGGAGGGTTCCTT
15._PA_156_[PER]___
GGTTTTAAGGAACCCCGGAGGGTTCCTT
16._PA_156_[PER]___
____TT__________________CC__
17._PA_156_[PER]___
____TT__________________CC__
18._PA_156_[PER]___
____TT__________________CC__
19._PA_156_[PER]___
____TT__________________CC__
20._PA_156_[PER]___
____TT__________________CC__
21._PA_156_[PER]___
____TT__________________CC__
22._PA_156_[PER]___
____TT__________________CC__
23._PA_156_[PER]___
____TT__________________CC__
24._PA_156_[PER]___
__TT__AA____________________
25._PA_156_[PER]___
________GG__________________
26._PA_156_[PER]___
CC__AA__GGAAGG__GGAGCCAAGGAA
 57 58 59 60 61 62 63 64 65 66 67 68 69 70
_Input profile
AACCCTCTAAGGGGAAAAGTGGGGTTCC
1._PA_156_[PER]___
AACCCTCTAAGGGGAAAAGTGGGGTTCC
2._PA_156_[PER]___
AACCCTCTAAGGGGAAAAGTGGGGTTCC
3._PA_156_[PER]___
AACCCTCTAAGGGGAAAAGTGGGGTTCC
4._PA_156_[PER]___
AACCCTCTAAGGGGAAAAGTGGGGTTCC
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]___
GGCCCTCTAA__GGACAATTGGGG____
11._PA_156_[PER]___
AGCCCTCTAAGGGGACAATTGGGGCTCC
12._PA_156_[PER]___
AGCCCTCTAAGGGGACAATTGGGGCTCC
13._PA_156_[PER]___
AGCCCTCTAAGGGGACAATTGGGGCTCC
14._PA_156_[PER]___
AGCCCTCTAAGGGGACAATTGGGGCTCC
15._PA_156_[PER]___
AGCCCTCTAAGGGGACAATTGGGGCTCC
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________CC
25._PA_156_[PER]___
AG____________ACAA__GGGG____
26._PA_156_[PER]___
AGGGAGAGAAGGGGACAAAACCGG____
 71 72 73 74 75 76 77 78 79 80 81 82 83 84
_Input profile
AGCTAAAAACAAAACCGGCCATAACTTT
1._PA_156_[PER]___
AGCTAAAAACAAAACCGGCCATAACTTT
2._PA_156_[PER]___
AGCTAAAAACAAAACCGGCCATAACTTT
3._PA_156_[PER]___
AGCTAAAAACAAAACCGGCCATAACTTT
4._PA_156_[PER]___
AGCTAAAAACAAAACCGGCCATAACTTT
5._PA_156_[PER]___
AGCT__________CCGG______CTTT
6._PA_156_[PER]___
AGCT__________CCGG______CTTT
7._PA_156_[PER]___
AGCT__________CCGG______CTTT
8._PA_156_[PER]___
AGCT__________CCGG______CTTT
9._PA_156_[PER]___
AGCT__________CCGG______CTTT
10._PA_156_[PER]___
______________ACGG____ACTT__
11._PA_156_[PER]___
AATTCCAGAAAAAGACGGCCATACTTCC
12._PA_156_[PER]___
AATTCCAGAAAAAGACGGCCATACTTCC
13._PA_156_[PER]___
AATTCCAGAAAAAGACGGCCATACTTCC
14._PA_156_[PER]___
AATTCCAGAAAAAGACGGCCATACTTCC
15._PA_156_[PER]___
AATTCCAGAAAAAGACGGCCATACTTCC
16._PA_156_[PER]___
AATT__________ACGG______TTCC
17._PA_156_[PER]___
AATT__________ACGG______TTCC
18._PA_156_[PER]___
AATT__________ACGG______TTCC
19._PA_156_[PER]___
AATT__________ACGG______TTCC
20._PA_156_[PER]___
AATT__________ACGG______TTCC
21._PA_156_[PER]___
AATT__________ACGG______TTCC
22._PA_156_[PER]___
AATT__________ACGG______TTCC
23._PA_156_[PER]___
AATT__________ACGG______TTCC
24._PA_156_[PER]___
________________CC________CC
25._PA_156_[PER]___
AA____________ACGG____AC____
26._PA_156_[PER]___
__AACCAGAAAA__ACCCGGATACAAGG
 85 86 87 88 89 90 91 92 93      
_Input profile
TTCCAATTCTTTTTATGGX_XX_XX_XX_XX_X
1._PA_156_[PER]___
TTCCAATTCTTTTTATGGX_XX_XX_XX_XX_X
2._PA_156_[PER]___
TTCCAATTCTTTTTATGGX_XX_XX_XX_XX_X
3._PA_156_[PER]___
TTCCAATTCTTTTTATGGX_XX_XX_XX_XX_X
4._PA_156_[PER]___
TTCCAATTCTTTTTATGGX_XX_XX_XX_XX_X
5._PA_156_[PER]___
TT__AA__CTTTTT____X_XX_XX_XX_XX_X
6._PA_156_[PER]___
TT__AA__CTTTTT____X_XX_XX_XX_XX_X
7._PA_156_[PER]___
TT__AA__CTTTTT____X_XX_XX_XX_XX_X
8._PA_156_[PER]___
TT__AA__CTTTTT____X_XX_XX_XX_XX_X
9._PA_156_[PER]___
TT__AA__CTTTTT____X_XX_XX_XX_XX_X
10._PA_156_[PER]___
____AA__CCTT______X_XX_XX_XX_XX_X
11._PA_156_[PER]___
CCCTAACTCCTTTTAAGGX_XX_XX_XX_XX_X
12._PA_156_[PER]___
CCCTAACTCCTTTTAAGGX_XX_XX_XX_XX_X
13._PA_156_[PER]___
CCCTAACTCCTTTTAAGGX_XX_XX_XX_XX_X
14._PA_156_[PER]___
CCCTAACTCCTTTTAAGGX_XX_XX_XX_XX_X
15._PA_156_[PER]___
CCCTAACTCCTTTTAAGGX_XX_XX_XX_XX_X
16._PA_156_[PER]___
____AA__CCTTTT____X_XX_XX_XX_XX_X
17._PA_156_[PER]___
CC__AA__CCTTTT____X_XX_XX_XX_XX_X
18._PA_156_[PER]___
CC__AA__CCTTTT____X_XX_XX_XX_XX_X
19._PA_156_[PER]___
CC__AA__CCTTTT____X_XX_XX_XX_XX_X
20._PA_156_[PER]___
CC__AA__CCTTTT____X_XX_XX_XX_XX_X
21._PA_156_[PER]___
CC__AA__CCTTTT____X_XX_XX_XX_XX_X
22._PA_156_[PER]___
CC__AA__CCTTTT____X_XX_XX_XX_XX_X
23._PA_156_[PER]___
CC__AA__CCTTTT____X_XX_XX_XX_XX_X
24._PA_156_[PER]___
__________________X_XX_XX_XX_XX_X
25._PA_156_[PER]___
CC____CT__TT______X_XX_XX_XX_XX_X
26._PA_156_[PER]___
__AG____GGAAAATTGGX_XX_XX_XX_XX_X

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

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

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

identical
93 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
93 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
93 shared markers

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

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

identical
93 shared markers

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

5._PA_156_[PER]

identical
39 shared markers

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

6._PA_156_[PER]

identical
39 shared markers

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

7._PA_156_[PER]

identical
39 shared markers

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

8._PA_156_[PER]

identical
39 shared markers

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

9._PA_156_[PER]

identical
39 shared markers

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

10._PA_156_[PER] RUQ_1531

78 %
41 shared markers

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

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

75 %
92 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

74.7 %
93 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

74.2 %
93 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

74.2 %
93 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]

70.3 %
37 shared markers

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

17._PA_156_[PER]

69.2 %
39 shared markers

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

18._PA_156_[PER]

69.2 %
39 shared markers

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

19._PA_156_[PER]

69.2 %
39 shared markers

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

20._PA_156_[PER]

69.2 %
39 shared markers

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

21._PA_156_[PER]

69.2 %
39 shared markers

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

22._PA_156_[PER] RUQ_1531

69.2 %
39 shared markers

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

23._PA_156_[PER]

69.2 %
39 shared markers

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

24._PA_156_[PER] PA156[PER]

66.7 %
24 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

40.5 %
79 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 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