SNP Profiles of PA 88 [PER]   View Data

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 Key

 1 2 3 4 5 6 7 8 9 10 11 12 13 14
_Input profile
AATTCCGGAGAAGTTTAAGGCCCTAGCC
1._PA_88_[PER]___
____GG________TT________AG__
2._PA_88_[PER]___
____CG________TT____CC__GG__
3._PA_88_[PER]___
____CG________TT____CC__GG__
4._PA_88_[PER]___
____CG________TT____________
5._PA_88_[PER]___
____CG________TT____CC__GG__
6._PA_88_[PER]___
____CG________TT____CC__GG__
7._PA_88_[PER]___
____CG________TT____CC__GG__
8._PA_88_[PER]___
____CG________TT____CC__GG__
9._PA_88_[PER]___
____CG________TT____CC__GG__
10._PA_88_[PER]___
____CG________TT____CC__GG__
11._PA_88_[PER]___
____CG________TT____CC__GG__
12._PA_88_[PER]___
____CG________TT____CC__GG__
13._PA_88_[PER]___
____CG________TT____CC__GG__
14._PA_88_[PER]___
____CG________TT____CC__GG__
15._PA_88_[PER]___
____CG________TT____CC__GG__
16._PA_88_[PER]___
ATTTCGGGAGTTGGTTAAGTCCTTGGCC
17._PA_88_[PER]___
____CG________TT____CC__GG__
18._PA_88_[PER]___
____CG________TT____CC__GG__
19._PA_88_[PER]___
____CG________TT____CC__GG__
20._PA_88_[PER]___
____CG________TT____CC__GG__
21._PA_88_[PER]___
____CG________TT____CC__GG__
22._PA_88_[PER]___
____CG________TT____CC__GG__
23._PA_88_[PER]___
____CG________TT____CC__GG__
24._PA_88_[PER]___
____CG________TT____CC__GG__
25._PA_88_[PER]___
____CG________TT____CC__GG__
26._PA_88_[PER]___
____CG________TT____CC__GG__
27._PA_88_[PER]___
____CG________TT____CC__GG__
28._PA_88_[PER]___
____GG________TT____CT__AG__
29._PA_88_[PER]___
____GG________TT____CT__AG__
30._PA_88_[PER]___
____CG______________________
31._PA_88_[PER]___
____CG________AA________GG__
32._PA_88_[PER]___
____CG________AA________GG__
 15 16 17 18 19 20 21 22 23 24 25 26 27 28
_Input profile
AATTCCAGCGGGGGTTATACTTTTGGGG
1._PA_88_[PER]___
______AG____GG____________GG
2._PA_88_[PER]___
______AG____GG____________GG
3._PA_88_[PER]___
______AG____GG____________GG
4._PA_88_[PER]___
____CCAG__GGGG____AA____GGGG
5._PA_88_[PER]___
______AG____GG____________GG
6._PA_88_[PER]___
______AG____GG____________GG
7._PA_88_[PER]___
______AG____GG____________GG
8._PA_88_[PER]___
______AG____GG____________GG
9._PA_88_[PER]___
______AG____GG____________GG
10._PA_88_[PER]___
______AG____GG____________GG
11._PA_88_[PER]___
______AG____GG____________GG
12._PA_88_[PER]___
______AG____GG____________GG
13._PA_88_[PER]___
______AG____GG____________GG
14._PA_88_[PER]___
______AG____GG____________GG
15._PA_88_[PER]___
______AG____GG____________GG
16._PA_88_[PER]___
AATTCTAGCCAGGGTTAAAATTCCGGGG
17._PA_88_[PER]___
____CTAG__AGGGCC__AA____GGGG
18._PA_88_[PER]___
____CTAG__AGGGCC__AA____GGGG
19._PA_88_[PER]___
____CTAG__AGGGCC__AA____GGGG
20._PA_88_[PER]___
____CTAG__AGGGCC__AA____GGGG
21._PA_88_[PER]___
____CTAG__AGGGCC__AA____GGGG
22._PA_88_[PER]___
____CTAG__AGGGCC__AA____GGGG
23._PA_88_[PER]___
____CTAG__AGGGCC__AA____GGGG
24._PA_88_[PER]___
____CTAG__AGGGCC__AA____GGGG
25._PA_88_[PER]___
____CTAG__AGGGCC__AA____GGGG
26._PA_88_[PER]___
____CTAG__AGGGCC__AA____GGGG
27._PA_88_[PER]___
____CTAG__AGGGCC__AA____GGGG
28._PA_88_[PER]___
______GG____CG____________GG
29._PA_88_[PER]___
____CTGG__AACGCG__AA____GGGG
30._PA_88_[PER]___
____________CC______________
31._PA_88_[PER]___
______AG__AGCCGG__AA____GGCC
32._PA_88_[PER]___
______AG__AGCCGG__AA____GGCC
 29 30 31 32 33 34 35 36 37 38 39 40 41 42
_Input profile
TTCGAACCAACCCCAAAAGGAACCCTAC
1._PA_88_[PER]___
____AA________CC__GG__CC____
2._PA_88_[PER]___
____AA________AC__CG__AA____
3._PA_88_[PER]___
____AA________AC__CG__AA____
4._PA_88_[PER]___
CC__________CTAC__CG__AA____
5._PA_88_[PER]___
____AG________AC__CG__AA____
6._PA_88_[PER]___
____AG________AC__CG__AA____
7._PA_88_[PER]___
____AG________AC__CG__AA____
8._PA_88_[PER]___
____AG________AC__CG__AA____
9._PA_88_[PER]___
____AG________AC__CG__AA____
10._PA_88_[PER]___
____AG________AC__CG__AA____
11._PA_88_[PER]___
____AG________AC__CG__AA____
12._PA_88_[PER]___
____AG________AC__CG__AA____
13._PA_88_[PER]___
____AG________AC__CG__AA____
14._PA_88_[PER]___
____AG________AC__CG__AA____
15._PA_88_[PER]___
____AG________AC__CG__AA____
16._PA_88_[PER]___
CCCCAACCGGCTCTACATCGAGAACCAA
17._PA_88_[PER]___
CC__AG______CTAC__CG__AA____
18._PA_88_[PER]___
CC__AG______CTAC__CG__AA____
19._PA_88_[PER]___
CC__AG______CTAC__CG__AA____
20._PA_88_[PER]___
CC__AG______CTAC__CG__AA____
21._PA_88_[PER]___
CC__AG______CTAC__CG__AA____
22._PA_88_[PER]___
CC__AG______CTAC__CG__AA____
23._PA_88_[PER]___
CC__AG______CTAC__CG__AA____
24._PA_88_[PER]___
CC__AG______CTAC__CG__AA____
25._PA_88_[PER]___
CC__AG______CTAC__CG__AA____
26._PA_88_[PER]___
CC__AG______CTAC__CG__AA____
27._PA_88_[PER]___
CC__AG______CTAC__CG__AA____
28._PA_88_[PER]___
____GG________AC__CC__CC____
29._PA_88_[PER]___
CC__GG______CTAC__CC__CC____
30._PA_88_[PER]___
____________CTAC__CG________
31._PA_88_[PER]___
____________AGAC__CG__AA____
32._PA_88_[PER]___
____________AGAC__CG__AA____
 43 44 45 46 47 48 49 50 51 52 53 54 55 56
_Input profile
CCACGGAACCGGGGCCCCAATTGGCCTT
1._PA_88_[PER]___
________________AC__________
2._PA_88_[PER]___
________________AC__________
3._PA_88_[PER]___
________________AC__________
4._PA_88_[PER]___
____GG__________AC__________
5._PA_88_[PER]___
________________AC__________
6._PA_88_[PER]___
________________AC__________
7._PA_88_[PER]___
________________AC__________
8._PA_88_[PER]___
________________AC__________
9._PA_88_[PER]___
________________AC__________
10._PA_88_[PER]___
________________AC__________
11._PA_88_[PER]___
________________AC__________
12._PA_88_[PER]___
________________AC__________
13._PA_88_[PER]___
________________AC__________
14._PA_88_[PER]___
________________AC__________
15._PA_88_[PER]___
________________AC__________
16._PA_88_[PER]___
CTAAGGAATTGGGGCCACAAGTGGCCCT
17._PA_88_[PER]___
____GG__________AC__________
18._PA_88_[PER]___
____GG__________AC__________
19._PA_88_[PER]___
____GG__________AC__________
20._PA_88_[PER]___
____GG__________AC__________
21._PA_88_[PER]___
____GG__________AC__________
22._PA_88_[PER]___
____GG__________AC__________
23._PA_88_[PER]___
____GG__________AC__________
24._PA_88_[PER]___
____GG__________AC__________
25._PA_88_[PER]___
____GG__________AC__________
26._PA_88_[PER]___
____GG__________AC__________
27._PA_88_[PER]___
____GG__________AC__________
28._PA_88_[PER]___
________________AA__________
29._PA_88_[PER]___
____AG__________AA__________
30._PA_88_[PER]___
________________AC__________
31._PA_88_[PER]___
____GG__________AC__________
32._PA_88_[PER]___
____GG__________AC__________
 57 58             
_Input profile
ACCTX_XX_XX_XX_XX_XX_XX_XX_XX_XX_XX_XX_X
1._PA_88_[PER]___
____X_XX_XX_XX_XX_XX_XX_XX_XX_XX_XX_XX_X
2._PA_88_[PER]___
____X_XX_XX_XX_XX_XX_XX_XX_XX_XX_XX_XX_X
3._PA_88_[PER]___
____X_XX_XX_XX_XX_XX_XX_XX_XX_XX_XX_XX_X
4._PA_88_[PER]___
____X_XX_XX_XX_XX_XX_XX_XX_XX_XX_XX_XX_X
5._PA_88_[PER]___
____X_XX_XX_XX_XX_XX_XX_XX_XX_XX_XX_XX_X
6._PA_88_[PER]___
____X_XX_XX_XX_XX_XX_XX_XX_XX_XX_XX_XX_X
7._PA_88_[PER]___
____X_XX_XX_XX_XX_XX_XX_XX_XX_XX_XX_XX_X
8._PA_88_[PER]___
____X_XX_XX_XX_XX_XX_XX_XX_XX_XX_XX_XX_X
9._PA_88_[PER]___
____X_XX_XX_XX_XX_XX_XX_XX_XX_XX_XX_XX_X
10._PA_88_[PER]___
____X_XX_XX_XX_XX_XX_XX_XX_XX_XX_XX_XX_X
11._PA_88_[PER]___
____X_XX_XX_XX_XX_XX_XX_XX_XX_XX_XX_XX_X
12._PA_88_[PER]___
____X_XX_XX_XX_XX_XX_XX_XX_XX_XX_XX_XX_X
13._PA_88_[PER]___
____X_XX_XX_XX_XX_XX_XX_XX_XX_XX_XX_XX_X
14._PA_88_[PER]___
____X_XX_XX_XX_XX_XX_XX_XX_XX_XX_XX_XX_X
15._PA_88_[PER]___
____X_XX_XX_XX_XX_XX_XX_XX_XX_XX_XX_XX_X
16._PA_88_[PER]___
CCTTX_XX_XX_XX_XX_XX_XX_XX_XX_XX_XX_XX_X
17._PA_88_[PER]___
____X_XX_XX_XX_XX_XX_XX_XX_XX_XX_XX_XX_X
18._PA_88_[PER]___
____X_XX_XX_XX_XX_XX_XX_XX_XX_XX_XX_XX_X
19._PA_88_[PER]___
____X_XX_XX_XX_XX_XX_XX_XX_XX_XX_XX_XX_X
20._PA_88_[PER]___
____X_XX_XX_XX_XX_XX_XX_XX_XX_XX_XX_XX_X
21._PA_88_[PER]___
____X_XX_XX_XX_XX_XX_XX_XX_XX_XX_XX_XX_X
22._PA_88_[PER]___
____X_XX_XX_XX_XX_XX_XX_XX_XX_XX_XX_XX_X
23._PA_88_[PER]___
____X_XX_XX_XX_XX_XX_XX_XX_XX_XX_XX_XX_X
24._PA_88_[PER]___
____X_XX_XX_XX_XX_XX_XX_XX_XX_XX_XX_XX_X
25._PA_88_[PER]___
____X_XX_XX_XX_XX_XX_XX_XX_XX_XX_XX_XX_X
26._PA_88_[PER]___
____X_XX_XX_XX_XX_XX_XX_XX_XX_XX_XX_XX_X
27._PA_88_[PER]___
____X_XX_XX_XX_XX_XX_XX_XX_XX_XX_XX_XX_X
28._PA_88_[PER]___
____X_XX_XX_XX_XX_XX_XX_XX_XX_XX_XX_XX_X
29._PA_88_[PER]___
____X_XX_XX_XX_XX_XX_XX_XX_XX_XX_XX_XX_X
30._PA_88_[PER]___
____X_XX_XX_XX_XX_XX_XX_XX_XX_XX_XX_XX_X
31._PA_88_[PER]___
____X_XX_XX_XX_XX_XX_XX_XX_XX_XX_XX_XX_X
32._PA_88_[PER]___
____X_XX_XX_XX_XX_XX_XX_XX_XX_XX_XX_XX_X

Input profile: NA_232 RUQ_1504

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

1._PA_88_[PER]

77.3 %
11 shared markers

International Cocoa Genebank, Trinidad (ICG,T), Trinidad and Tobago
Location: Marper D677
 Dapeng Zhang, 2016

2._PA_88_[PER] RUQ_34

70.8 %
12 shared markers

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

3._PA_88_[PER]

70.8 %
12 shared markers

Cocoa Research Institute of Ghana (CRIG), Ghana
Location: P50 299
 Dapeng Zhang, 2016

4._PA_88_[PER] RUQ_34

68.8 %
16 shared markers

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

5._PA_88_[PER]

66.7 %
12 shared markers

Mars Center for Cocoa Science, Brazil
Location: 1313 1 > FP
 Dapeng Zhang, 2016

6._PA_88_[PER]

66.7 %
12 shared markers

Mars Center for Cocoa Science, Brazil
Location: 1313 6 > FP
 Dapeng Zhang, 2016

7._PA_88_[PER]

66.7 %
12 shared markers

Mars Center for Cocoa Science, Brazil
Location: 1313 4 > FP
 Dapeng Zhang, 2016

8._PA_88_[PER]

66.7 %
12 shared markers

Mars Center for Cocoa Science, Brazil
Location: 1313 16 > F
 Dapeng Zhang, 2016

9._PA_88_[PER]

66.7 %
12 shared markers

Mars Center for Cocoa Science, Brazil
Location: 1313 14
 Dapeng Zhang, 2016

10._PA_88_[PER]

66.7 %
12 shared markers

Mars Center for Cocoa Science, Brazil
Location: 1313 11
 Dapeng Zhang, 2016

11._PA_88_[PER]

66.7 %
12 shared markers

Mars Center for Cocoa Science, Brazil
Location: 1313 10
 Dapeng Zhang, 2016

12._PA_88_[PER]

66.7 %
12 shared markers

Mars Center for Cocoa Science, Brazil
Location: 1313 8
 Dapeng Zhang, 2016

13._PA_88_[PER]

66.7 %
12 shared markers

Mars Center for Cocoa Science, Brazil
Location: 1313 5
 Dapeng Zhang, 2016

14._PA_88_[PER]

66.7 %
12 shared markers

Mars Center for Cocoa Science, Brazil
Location: 1313 3
 Dapeng Zhang, 2016

15._PA_88_[PER]

66.7 %
12 shared markers

Mars Center for Cocoa Science, Brazil
Location: 1313 2
 Dapeng Zhang, 2016

16._PA_88_[PER] RUQ_34

66.4 %
58 shared markers

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

17._PA_88_[PER] GC-01-058-3-13

60 %
20 shared markers

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

18._PA_88_[PER] GC-01-058-3-13

60 %
20 shared markers

Mars Center for Cocoa Science, Brazil
Location: Tree: 6
Notes: 6 > FP3
 Mars, 2018

19._PA_88_[PER] GC-01-058-3-13

60 %
20 shared markers

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

20._PA_88_[PER] GC-01-058-3-13

60 %
20 shared markers

Mars Center for Cocoa Science, Brazil
Location: Tree: 4
Notes: 4 > FP2
 Mars, 2018

21._PA_88_[PER] GC-01-058-3-13

60 %
20 shared markers

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

22._PA_88_[PER] GC-01-058-3-13

60 %
20 shared markers

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

23._PA_88_[PER] GC-01-058-3-13

60 %
20 shared markers

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

24._PA_88_[PER] GC-01-058-3-13

60 %
20 shared markers

Mars Center for Cocoa Science, Brazil
Location: Tree: 10
Notes: 10
 Mars, 2018

25._PA_88_[PER] GC-01-058-3-13

60 %
20 shared markers

Mars Center for Cocoa Science, Brazil
Location: Tree: 11
Notes: 11
 Mars, 2018

26._PA_88_[PER] GC-01-058-3-13

60 %
20 shared markers

Mars Center for Cocoa Science, Brazil
Location: Tree: 14
Notes: 14
 Mars, 2018

27._PA_88_[PER] GC-01-058-3-13

60 %
20 shared markers

Mars Center for Cocoa Science, Brazil
Location: Tree: 16
Notes: 16 > FP4
 Mars, 2018

28._PA_88_[PER]

50 %
12 shared markers

Mars Center for Cocoa Science, Brazil
Location: 1313 13
 Dapeng Zhang, 2016

29._PA_88_[PER] GC-01-058-3-13

45 %
20 shared markers

Mars Center for Cocoa Science, Brazil
Location: Tree: 13
Notes: 13
 Mars, 2018

30._PA_88_[PER] PA88[PER]

41.7 %
6 shared markers

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

31._PA_88_[PER] GC-01-58-3-13

40.6 %
16 shared markers

Mars Center for Cocoa Science, Brazil
Location: Field: 1, Block: 3, Rep: 13, Tree: 2
Notes: MCCS_Structure_refs_above_0.9membership
 Mars, 2018

32._PA_88_[PER] RUQ_34

40.6 %
16 shared markers

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

 


  Key to SNP Markers

1TcSNP1527 2TcSNP1524 3TcSNP1458 4TcSNP1404 5TcSNP1401
6TcSNP1293 7TcSNP1275 8TcSNP1253 9TcSNP1230 10TcSNP1205
11TcSNP1144 12TcSNP1112 13TcSNP1062 14TcSNP1053 15TcSNP1019
16TcSNP1010 17TcSNP999 18TcSNP998 19TcSNP945 20TcSNP899
21TcSNP872 22TcSNP836 23TcSNP835 24TcSNP823 25TcSNP800
26TcSNP739 27TcSNP731 28TcSNP723 29TcSNP702 30TcSNP660
31TcSNP645 32TcSNP644 33TcSNP642 34TcSNP640 35TcSNP602
36TcSNP591 37TcSNP589 38TcSNP577 39TcSNP546 40TcSNP529
41TcSNP522 42TcSNP519 43TcSNP421 44TcSNP363 45TcSNP329
46TcSNP305 47TcSNP290 48TcSNP194 49TcSNP189 50TcSNP176
51TcSNP144 52TcSNP143 53TcSNP131 54TcSNP52 55TcSNP49
56TcSNP33 57TcSNP19 58TcSNP13