SNP Profiles of PA-156   View Data

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 Key

 1234567891011121314
_Input profile
AACCCCCCGGAGCTCCCCCCGGTTCCTT
1._GC-05-137-3-39
AACCCCCCGGAGCTCCCCCCGGTTCCTT
2._GC-05-137-3-39
AACCCCCCGGAGCTCCCCCCGGTTCCTT
3._GC-05-137-3-39
AACCCCCCGGAGCTCCCCCCGGTTCCTT
4._PA_156_[PER]
AACCCCCC____CCCCGG_CC_
5._PA_156_[PER]
AACCCCCC____CCCCGG_CC_
6._PA_156_[PER]
AACCCCCC____CCCCGG_CC_
7._PA_156_[PER]
AACCCCCC____CCCCGG_CC_
8._RUQ_1531
AACCCCCC____CCCCGG_CC_
9._PA_156_[PER]
AACCCCCC____CCCCGG_CC_
10._PA_156_[PER]
AACCCCCC____CCCCGG_CC_
11._PA_156_[PER]
AACCCCCC____CCCCGG_CC_
12._RUQ_1531
___CC__CT_______
13._GC-05-137-3-39
AACCCCCCGGAGCTCCCCCCGGTTCCTT
14._RUQ_1531
__CCCC__CT_CC__TTCC_
15._PA156[PER]
___CC____CC___CC_
16._GC-05-138-3-40
AAAACTAAGGGGCCCCCCCCGGTTCTCT
17._GC-05-138-3-40
AAAACTAAGGGGCCCCCCCCGGTTCTCT
18._GC-05-138-3-40
AAAACTAAGGGGCCCCCCCCGGTTCTCT
19._GC-05-138-3-40
AAAACTAAGGGGCCCCCCCCGGTTCTCT
20._GC-05-138-3-40
AAAACTAAGGGGCCCCCCCCGGTTCTCT
21._PA_156_[PER]
AAAACTAA____CCCCGG_CT_
22._PA_156_[PER]
AAAACTAA____CCCCGG_CT_
23._PA_156_[PER]
AAAACTAA____CCCCGG_CT_
24._PA_156_[PER]
AAAACTAA____CCCCGG_CT_
25._PA_156_[PER]
AAAACTAA____CCCCGG_CT_
26._RUQ_1531
AACC_CCGGAG_GGGG_GGAAGGAA
 1516171819202122232425262728
_Input profile
AACCGGCCCGTTAATTGGATAACCGGAA
1._GC-05-137-3-39
AACCGGCCCGTTAATTGGATAACCGGAA
2._GC-05-137-3-39
AACCGGCCCGTTAATTGGATAACCGGAA
3._GC-05-137-3-39
AACCGGCCCGTTAATTGGATAACCGGAA
4._PA_156_[PER]
__GG_CG____ATAA_GGAA
5._PA_156_[PER]
__GG_CG____ATAA_GGAA
6._PA_156_[PER]
__GG_CG____ATAA_GGAA
7._PA_156_[PER]
__GG_CG____ATAA_GGAA
8._RUQ_1531
__GG_CG____ATAA_GGAA
9._PA_156_[PER]
__GG_CG____ATAA_GGAA
10._PA_156_[PER]
__GG_CG____ATAA_GGAA
11._PA_156_[PER]
__GG_CG____ATAA_GGAA
12._RUQ_1531
__GG_________GG_
13._GC-05-137-3-39
AACCGGCCCGTTAATTGGATAACCGGAA
14._RUQ_1531
___CC____GG_AACCGG_
15._PA156[PER]
___GG_TT__GG_AACCCC_
16._GC-05-138-3-40
AACCAACCCGCTAATTGGATAACCCGAA
17._GC-05-138-3-40
AACCAACCCGCTAATTGGATAACCCGAA
18._GC-05-138-3-40
AACCAACCCGCTAATTGGATAACCCGAA
19._GC-05-138-3-40
AACCAACCCGCTAATTGGATAACCCGAA
20._GC-05-138-3-40
AACCAACCCGCTAATTGGATAACCCGAA
21._PA_156_[PER]
__AA_CG____ATAA_CGAA
22._PA_156_[PER]
__AA_CG____ATAA_CGAA
23._PA_156_[PER]
__AA_CG____ATAA_CGAA
24._PA_156_[PER]
__AA_CG____ATAA_CGAA
25._PA_156_[PER]
__AA_CG____ATAA_CGAA
26._RUQ_1531
TTCCGG_CGAAAAAAGGATAAGGCCAA
 2930313233343536373839404142
_Input profile
TTGTGGCGCCAGGGGGTTAGTTGGCCGG
1._GC-05-137-3-39
TTGTGGCGCCAGGGGGTTAGTTGGCCGG
2._GC-05-137-3-39
TTGTGGCGCCAGGGGGTTAGTTGGCCGG
3._GC-05-137-3-39
TTGTGGCGCCAGGGGGTTAGTTGGCCGG
4._PA_156_[PER]
___CG_AGGG__AG____
5._PA_156_[PER]
___CG_AGGG__AG____
6._PA_156_[PER]
___CG_AGGG__AG____
7._PA_156_[PER]
___CG_AGGG__AG____
8._RUQ_1531
___CG_AGGG__AG____
9._PA_156_[PER]
___CG_AGGG__AG____
10._PA_156_[PER]
___CG_AGGG__AG____
11._PA_156_[PER]
___CG_AGGG__AG____
12._RUQ_1531
___CG_AG____TT___
13._GC-05-137-3-39
TTGTGGCGCCAGGGGGTTAGTTAGCCGG
14._RUQ_1531
__GGCGCCAGGG__AGTT__GG
15._PA156[PER]
__GGCG____TT_TT___
16._GC-05-138-3-40
TTGGAGCGCCAGTTGGTTAGCTAGCCGG
17._GC-05-138-3-40
TTGGAGCGCCAGTTGGTTAGCTAGCCGG
18._GC-05-138-3-40
TTGGAGCGCCAGTTGGTTAGCTAGCCGG
19._GC-05-138-3-40
TTGGAGCGCCAGTTGGTTAGCTAGCCGG
20._GC-05-138-3-40
TTGGAGCGCCAGTTGGTTAGCTAGCCGG
21._PA_156_[PER]
___CG_AGTT__AG____
22._PA_156_[PER]
___CG_AGTT__AG____
23._PA_156_[PER]
___CG_AGTT__AG____
24._PA_156_[PER]
___CG_AGTT__AG____
25._PA_156_[PER]
___CG_AGTT__AG____
26._RUQ_1531
AAACGGCGCCAGCCCCAAAGAAGGGGCC
 4344454647484950515253545556
_Input profile
TTTTAAGGAACCCCGGAGGGTTCCCCTT
1._GC-05-137-3-39
TTTTAAGGAACCCCGGAGGGTTCCCCTT
2._GC-05-137-3-39
TTTTAAGGAACCCCGGAGGGTTCCCCTT
3._GC-05-137-3-39
TTTTAAGGAACCCCGGAGGGTT_CCTT
4._PA_156_[PER]
_TT_________CCCC_
5._PA_156_[PER]
_TT_________CCCC_
6._PA_156_[PER]
_TT_________CCCC_
7._PA_156_[PER]
_TT_________CCCC_
8._RUQ_1531
_TT_________CCCC_
9._PA_156_[PER]
_TT_________CCCC_
10._PA_156_[PER]
_TT__________CC_
11._PA_156_[PER]
_TT_________CCCC_
12._RUQ_1531
___GG__________
13._GC-05-137-3-39
TTTTAAGGAACCCCGGAGGGTTCCCCTT
14._RUQ_1531
TT__GG______TTCC_TT
15._PA156[PER]
TT_AA________CC__
16._GC-05-138-3-40
TTCTAAGGAACCCCGGGGTTTTCCCTTT
17._GC-05-138-3-40
TTCTAAGGAACCCCGGGGTTTTCCCTTT
18._GC-05-138-3-40
TTCTAAGGAACCCCGGGGTTTTCCCTTT
19._GC-05-138-3-40
TTCTAAGGAACCCCGGGGTTTTCCCTTT
20._GC-05-138-3-40
TTCTAAGGAACCCCGGGGTTTT_CTTT
21._PA_156_[PER]
_CT_________CCCT_
22._PA_156_[PER]
_CT_________CCCT_
23._PA_156_[PER]
_CT_________CCCT_
24._PA_156_[PER]
_CT_________CCCT_
25._PA_156_[PER]
_CT__________CT_
26._RUQ_1531
_AA_GGAAGG_GGAGCCAAGGGGAA
 5758596061626364656667686970
_Input profile
AGCCCTCTAAGGGGACAATTGGGGCTCC
1._GC-05-137-3-39
AGCCCTCTAAGGGGACAATTGGGGCTCC
2._GC-05-137-3-39
AGCCCTCTAAGGGGACAATTGGGGCTCC
3._GC-05-137-3-39
AGCCCTCTAAGGGGACAATTGGGGCTCC
4._PA_156_[PER]
_CC_CTAAGG_ACAATTGG___
5._PA_156_[PER]
_CC_CTAAGG_ACAATTGG___
6._PA_156_[PER]
_CC_CTAAGG_ACAATTGG___
7._PA_156_[PER]
_CC_CTAAGG_ACAATTGG___
8._RUQ_1531
_CC_CTAAGG_ACAATTGG___
9._PA_156_[PER]
_CC_CTAAGG_ACAATTGG___
10._PA_156_[PER]
_CC_CTAAGG_ACAATTGG___
11._PA_156_[PER]
___CTAAGG_ACAATTGG___
12._RUQ_1531
AG______ACAA_GGGG__
13._GC-05-137-3-39
AGCCCTCTAAGGGGACAATTGGGGCTCC
14._RUQ_1531
GGCCCTCTAA_GGACAATTGGGG__
15._PA156[PER]
_GGCT_AA_GGACAA____CC
16._GC-05-138-3-40
AACCCTCTAAGGGGAAAAGTGGGGTTCC
17._GC-05-138-3-40
AACCCTCTAAGGGGAAAAGTGGGGTTCC
18._GC-05-138-3-40
AACCCTCTAAGGGGAAAAGTGGGGTTCC
19._GC-05-138-3-40
AACCCTCTAAGGGGAAAAGTGGGGTTCC
20._GC-05-138-3-40
AACCCTCTAAGGGGAAAAGTGGGGTTCC
21._PA_156_[PER]
_CC_CTAAGG_AAAAGTGG___
22._PA_156_[PER]
_CC_CTAAGG_AAAAGTGG___
23._PA_156_[PER]
_CC_CTAAGG_AAAAGTGG___
24._PA_156_[PER]
_CC_CTAAGG_AAAAGTGG___
25._PA_156_[PER]
_CC_CTAAGG_AAAAGTGG___
26._RUQ_1531
AGGGAGAGAAGGGGACAAAACCGG__
 7172737475767778798081828384
_Input profile
AATTCCAGAAAAAGACGGCCATACTTCC
1._GC-05-137-3-39
AATTCCAGAAAAAGACGGCCATACTTCC
2._GC-05-137-3-39
AATTCCAGAAAAAGACGGCCATACTTCC
3._GC-05-137-3-39
AATTCCAGAAAAAGACGGCCATACTTCC
4._PA_156_[PER]
AATT_____ACGG___TTCC
5._PA_156_[PER]
AATT_____ACGG___TTCC
6._PA_156_[PER]
AATT_____ACGG___TTCC
7._PA_156_[PER]
AATT_____ACGG___TTCC
8._RUQ_1531
AATT_____ACGG___TTCC
9._PA_156_[PER]
AATT_____ACGG___TTCC
10._PA_156_[PER]
AATT_____ACGG___TTCC
11._PA_156_[PER]
AATT_____ACGG___TTCC
12._RUQ_1531
AA______ACGG__AC__
13._GC-05-137-3-39
AATTCCAGAAAAAGACGGCCATACTTCC
14._RUQ_1531
_______ACGG__ACTT_
15._PA156[PER]
________CC____CC
16._GC-05-138-3-40
AGCTAAAAACAAAACCGGCCATAACTTT
17._GC-05-138-3-40
AGCTAAAAACAAAACCGGCCATAACTTT
18._GC-05-138-3-40
AGCTAAAAACAAAACCGGCCATAACTTT
19._GC-05-138-3-40
AGCTAAAAACAAAACCGGCCATAACTTT
20._GC-05-138-3-40
AGCTAAAAACAAAACCGGCCATAACTTT
21._PA_156_[PER]
AGCT_____CCGG___CTTT
22._PA_156_[PER]
AGCT_____CCGG___CTTT
23._PA_156_[PER]
AGCT_____CCGG___CTTT
24._PA_156_[PER]
AGCT_____CCGG___CTTT
25._PA_156_[PER]
AGCT_____CCGG___CTTT
26._RUQ_1531
_AACCAGAAAA_ACCCGGATACAAGG
 858687888990919293     
_Input profile
CCCTAACTCCTTTTAAGGX_XX_XX_XX_XX_X
1._GC-05-137-3-39
CCCTAACTCCTTTTAAGGX_XX_XX_XX_XX_X
2._GC-05-137-3-39
CCCTAACTCCTTTTAAGGX_XX_XX_XX_XX_X
3._GC-05-137-3-39
CCCTAACTCCTTTTAAGGX_XX_XX_XX_XX_X
4._PA_156_[PER]
CC_AA_CCTTTT__X_XX_XX_XX_XX_X
5._PA_156_[PER]
CC_AA_CCTTTT__X_XX_XX_XX_XX_X
6._PA_156_[PER]
CC_AA_CCTTTT__X_XX_XX_XX_XX_X
7._PA_156_[PER]
CC_AA_CCTTTT__X_XX_XX_XX_XX_X
8._RUQ_1531
CC_AA_CCTTTT__X_XX_XX_XX_XX_X
9._PA_156_[PER]
CC_AA_CCTTTT__X_XX_XX_XX_XX_X
10._PA_156_[PER]
CC_AA_CCTTTT__X_XX_XX_XX_XX_X
11._PA_156_[PER]
__AA_CCTTTT__X_XX_XX_XX_XX_X
12._RUQ_1531
CC__CT_TT___X_XX_XX_XX_XX_X
13._GC-05-137-3-39
CCCTAACTCCTTTTAAGGX_XX_XX_XX_XX_X
14._RUQ_1531
__AA-CCTT___X_XX_XX_XX_XX_X
15._PA156[PER]
_________X_XX_XX_XX_XX_X
16._GC-05-138-3-40
TTCCAATTCTTTTTATGGX_XX_XX_XX_XX_X
17._GC-05-138-3-40
TTCCAATTCTTTTTATGGX_XX_XX_XX_XX_X
18._GC-05-138-3-40
TTCCAATTCTTTTTATGGX_XX_XX_XX_XX_X
19._GC-05-138-3-40
TTCCAATTCTTTTTATGGX_XX_XX_XX_XX_X
20._GC-05-138-3-40
TTCCAATTCTTTTTATGGX_XX_XX_XX_XX_X
21._PA_156_[PER]
TT_AA_CTTTTT__X_XX_XX_XX_XX_X
22._PA_156_[PER]
TT_AA_CTTTTT__X_XX_XX_XX_XX_X
23._PA_156_[PER]
TT_AA_CTTTTT__X_XX_XX_XX_XX_X
24._PA_156_[PER]
TT_AA_CTTTTT__X_XX_XX_XX_XX_X
25._PA_156_[PER]
TT_AA_CTTTTT__X_XX_XX_XX_XX_X
26._RUQ_1531
_AG__GGAAAATTGGX_XX_XX_XX_XX_X

Input profile: PA_156_[PER] GC-05-137-3-39

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

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

identical
93 shared markers

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

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

identical
93 shared markers

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

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

identical
92 shared markers

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

4._PA_156_[PER]

identical
40 shared markers

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

5._PA_156_[PER]

identical
40 shared markers

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

6._PA_156_[PER]

identical
40 shared markers

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

7._PA_156_[PER]

identical
40 shared markers

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

8._PA_156_[PER] RUQ_1531

identical
40 shared markers

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

9._PA_156_[PER]

identical
40 shared markers

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

10._PA_156_[PER]

identical
39 shared markers

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

11._PA_156_[PER]

identical
38 shared markers

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

12._PA_156_[PER] RUQ_1531

identical
20 shared markers

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

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

99.5 %
93 shared markers

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

14._PA_156_[PER] RUQ_1531

98.8 %
42 shared markers

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

15._PA_156_[PER] PA156[PER]

84 %
25 shared markers

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

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

75.3 %
93 shared markers

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

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

75.3 %
93 shared markers

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

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

75.3 %
93 shared markers

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

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

75.3 %
93 shared markers

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

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

75 %
92 shared markers

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

21._PA_156_[PER]

70 %
40 shared markers

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

22._PA_156_[PER]

70 %
40 shared markers

 View  View all  Clone  Any
Mars Center for Cocoa Science, Brazil
Location: 5340 5
 Dapeng Zhang, 2016

23._PA_156_[PER]

70 %
40 shared markers

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

24._PA_156_[PER]

70 %
40 shared markers

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

25._PA_156_[PER]

69.2 %
39 shared markers

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

26._PA_156_[PER] RUQ_1531

49.4 %
79 shared markers

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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 18TcSNP878 19TcSNP929 20TcSNP413
21TcSNP653 22TcSNP1149 23TcSNP174 24TcSNP32 25TcSNP372
26TcSNP448 27TcSNP872 28TcSNP953 29TcSNP1034 30TcSNP1175
31TcSNP1111 32TcSNP577 33TcSNP90 34TcSNP998 35TcSNP150
36TcSNP28 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