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
AAACAGAAAAGGGGCCAAGGGGAAGGAA
1._PA_88_[PER]___
AAACAGAAAAGGGGCCAAGGGGAAGGAA
2._PA_88_[PER]___
____________GG______________
3._PA_88_[PER]___
__________CC________GG______
4._PA_88_[PER]___
__________CCGG__AA__________
5._PA_88_[PER]___
__________CCGG__AA__________
6._PA_88_[PER]___
__________CCGG__AA__________
7._PA_88_[PER]___
__________CCGG__AA__________
8._PA_88_[PER]___
__________CCGG__AA__________
9._PA_88_[PER]___
__________CCGG__AA__________
10._PA_88_[PER]___
__________CCGG__AA__________
11._PA_88_[PER]___
__________CCGG__AA__________
12._PA_88_[PER]___
__________CCGG__AA__________
13._PA_88_[PER]___
__________CCGG__AA__________
14._PA_88_[PER]___
__________CCGG__AA__________
15._PA_88_[PER]___
__________CCGG__AA__________
16._PA_88_[PER]___
__________CCGG__AA__________
17._PA_88_[PER]___
AAACAGAATTCCGGGGAACCGGTTCCTT
18._PA_88_[PER]___
AAACAGAATTCCGGGGAACCGGTTCCTT
19._PA_88_[PER]___
AAACAGAATTCCGGGGAACCGGTTCCTT
20._PA_88_[PER]___
AAACAGAATTCCGGGGAACCGGTTCCTT
21._PA_88_[PER]___
AAACAGAATTCCGGGGAACCGGTTCCTT
22._PA_88_[PER]___
AAACAGAATTCCGGGGAACCGGTTCCTT
23._PA_88_[PER]___
AAACAGAATTCCGGGGAACCGGTTCCTT
24._PA_88_[PER]___
AAACAGAATTCCGGGGAACCGGTTCCTT
25._PA_88_[PER]___
AAACAGAATTCCGGGGAACCGGTTCCTT
26._PA_88_[PER]___
AAACAGAATTCCGGGGAACCGGTTCCTT
27._PA_88_[PER]___
AAACAGAATTCCGGGGAACCGGTTCCTT
28._PA_88_[PER]___
__________CC__GG____GG______
29._PA_88_[PER]___
__________CCAG__AA__________
30._PA_88_[PER]___
ACAAAAACTTCCAGGGAACCAATTCTGG
31._PA_88_[PER]___
__________CCAG__AA__________
 15 16 17 18 19 20 21 22 23 24 25 26 27 28
_Input profile
AAAAGGAGCCGGAAAAACAGCGGGCCAG
1._PA_88_[PER]___
AAAAGGAGCCGGAAAAACAGCGGGCCAG
2._PA_88_[PER]___
__TT____________AC__CG______
3._PA_88_[PER]___
______________TTAC__CG____CT
4._PA_88_[PER]___
__TTCC__CC__TT__ACCTCGGGGGCT
5._PA_88_[PER]___
__TTCC__CC__TT__ACCTCGGGGGCT
6._PA_88_[PER]___
__TTCC__CC__TT__ACCTCGGGGGCT
7._PA_88_[PER]___
__TTCC__CC__TT__ACCTCGGGGGCT
8._PA_88_[PER]___
__TTCC__CC__TT__ACCTCGGGGGCT
9._PA_88_[PER]___
__TTCC__CC__TT__ACCTCGGGGGCT
10._PA_88_[PER]___
__TTCC__CC__TT__ACCTCGGGGGCT
11._PA_88_[PER]___
__TTCC__CC__TT__ACCTCGGGGGCT
12._PA_88_[PER]___
__TTCC__CC__TT__ACCTCGGGGGCT
13._PA_88_[PER]___
__TTCC__CC__TT__ACCTCGGGGGCT
14._PA_88_[PER]___
__TTCC__CC__TT__ACCTCGGGGGCT
15._PA_88_[PER]___
__TTCC__CC__TT__ACCTCGGGGGCT
16._PA_88_[PER]___
__TTCC__CC__TT__ACCTCGGGGGCT
17._PA_88_[PER]___
TTTTCCTTCCGGTTTTACCTCGGGGGCT
18._PA_88_[PER]___
TTTTCCTTCCGGTTTTACCTCGGGGGCT
19._PA_88_[PER]___
TTTTCCTTCCGGTTTTACCTCGGGGGCT
20._PA_88_[PER]___
TTTTCCTTCCGGTTTTACCTCGGGGGCT
21._PA_88_[PER]___
TTTTCCTTCCGGTTTTACCTCGGGGGCT
22._PA_88_[PER]___
TTTTCCTTCCGGTTTTACCTCGGGGGCT
23._PA_88_[PER]___
TTTTCCTTCCGGTTTTACCTCGGGGGCT
24._PA_88_[PER]___
TTTTCCTTCCGGTTTTACCTCGGGGGCT
25._PA_88_[PER]___
TTTTCCTTCCGGTTTTACCTCGGGGGCT
26._PA_88_[PER]___
TTTTCCTTCCGGTTTTACCTCGGGGGCT
27._PA_88_[PER]___
TTTTCCTTCCGGTTTTACCTCGGGGGCT
28._PA_88_[PER]___
__TT__CT______TTACCTCGGGGGCT
29._PA_88_[PER]___
__TTCT__CC______ACCTGGAGGG__
30._PA_88_[PER]___
CCTTCCTTACGGTTCTAATTGGAATTCC
31._PA_88_[PER]___
__TTCC__AC__TT__AATTGGAATTCC
 29 30 31 32 33 34 35 36 37 38 39 40 41 42
_Input profile
GGATGGAAGGGGGGGGGGCCTTAAGGGG
1._PA_88_[PER]___
GGATGGAAGGGGGGGGGGCCTTAAGGGG
2._PA_88_[PER]___
__________GG____________GG__
3._PA_88_[PER]___
____GGAAGGGG______________GG
4._PA_88_[PER]___
CC____AACCGG__CCGG____AA____
5._PA_88_[PER]___
______AACCGG__CCGG____AA____
6._PA_88_[PER]___
CC____AACCGG__CCGG____AA____
7._PA_88_[PER]___
CC____AACCGG__CCGG____AA____
8._PA_88_[PER]___
CC____AACCGG__CCGG____AA____
9._PA_88_[PER]___
CC____AACCGG__CCGG____AA____
10._PA_88_[PER]___
CC____AACCGG__CCGG____AA____
11._PA_88_[PER]___
CC____AACCGG__CCGG____AA____
12._PA_88_[PER]___
CC____AACCGG__CCGG____AA____
13._PA_88_[PER]___
CC____AACCGG__CCGG____AA____
14._PA_88_[PER]___
CC____AACCGG__CCGG____AA____
15._PA_88_[PER]___
CC____AACCGG__CCGG____AA____
16._PA_88_[PER]___
CC____AACCGG__CCGG____AA____
17._PA_88_[PER]___
CCATGGAACCGGGGCCGGGGAAAAGGGG
18._PA_88_[PER]___
__ATGGAACCGGGGCCGGGGAAAAGGGG
19._PA_88_[PER]___
CCATGGAACCGGGGCCGGGGAAAAGGGG
20._PA_88_[PER]___
CCATGGAACCGGGGCCGGGGAAAAGGGG
21._PA_88_[PER]___
CCATGGAACCGGGGCCGGGGAAAAGGGG
22._PA_88_[PER]___
CCATGGAACCGGGGCCGGGGAAAAGGGG
23._PA_88_[PER]___
CCATGGAACCGGGGCCGGGGAAAAGGGG
24._PA_88_[PER]___
CCATGGAACCGGGGCCGGGGAAAAGGGG
25._PA_88_[PER]___
CCATGGAACCGGGGCCGGGGAAAAGGGG
26._PA_88_[PER]___
CCATGGAACCGGGGCCGGGGAAAAGGGG
27._PA_88_[PER]___
CCATGGAACCGGGGCCGGGGAAAAGGGG
28._PA_88_[PER]___
____GGAACCGG__CC________GGGG
29._PA_88_[PER]___
______AC__AA__CCGG____AT____
30._PA_88_[PER]___
CTAAGGAACCAAGGCTGGGGAATTAGGG
31._PA_88_[PER]___
CT____AACCAA__CTGG____TT____
 43 44 45 46 47 48 49 50 51 52 53 54 55 56
_Input profile
AAAAAAGGGGAAGGGGCCAAAGACGGCG
1._PA_88_[PER]___
AAAAAAGGGGAAGGGGCCAAAGACGGCG
2._PA_88_[PER]___
__________________AA______CG
3._PA_88_[PER]___
AATT________CC____________CG
4._PA_88_[PER]___
AA______GG________AA__GT__CG
5._PA_88_[PER]___
AA______GG________AA__GT__CG
6._PA_88_[PER]___
AA______GG________AA__GT__CG
7._PA_88_[PER]___
AA______GG________AA__GT__CG
8._PA_88_[PER]___
AA______GG________AA__GT__CG
9._PA_88_[PER]___
AA______GG________AA__GT__CG
10._PA_88_[PER]___
AA______GG________AA__GT__CG
11._PA_88_[PER]___
AA______GG________AA__GT__CG
12._PA_88_[PER]___
AA______GG________AA__GT__CG
13._PA_88_[PER]___
AA______GG________AA__GT__CG
14._PA_88_[PER]___
AA______GG________AA__GT__CG
15._PA_88_[PER]___
AA______GG________AA__GT__CG
16._PA_88_[PER]___
AA______GG________AA__GT__CG
17._PA_88_[PER]___
AATTAAGGGGAACC__CCAAAGGTGGCG
18._PA_88_[PER]___
AATTAAGGGGAACC__CCAAAGGTGGCG
19._PA_88_[PER]___
AATTAAGGGGAA____CCAAAGGTGGCG
20._PA_88_[PER]___
AATTAAGGGGAACC__CCAAAGGTGGCG
21._PA_88_[PER]___
AATTAAGGGGAACC__CCAAAGGTGGCG
22._PA_88_[PER]___
AATTAAGGGGAACC__CCAAAGGTGGCG
23._PA_88_[PER]___
AATTAAGGGGAACC__CCAAAGGTGGCG
24._PA_88_[PER]___
AATTAAGGGGAACC__CCAAAGGTGGCG
25._PA_88_[PER]___
AATTAAGGGGAACC__CCAAAGGTGGCG
26._PA_88_[PER]___
AATTAAGGGGAACC__CCAAAGGTGGCG
27._PA_88_[PER]___
AATT__GGGGAACC__CCAAAGGTGGCG
28._PA_88_[PER]___
AA__________CC____AA__GT__CG
29._PA_88_[PER]___
AA______GG________CC__GG__GG
30._PA_88_[PER]___
AACCGGGGGGTTCC__CCCCAGTTAGCC
31._PA_88_[PER]___
AA______GG________CC__TT__CC
 57 58 59 60 61 62 63 64 65 66 67 68 69 70
_Input profile
ACGGAGAGAGAACCGGAAACCCAAAAGG
1._PA_88_[PER]___
ACGGAGAGAGAACCGGAAACCCAAAAGG
2._PA_88_[PER]___
AC__CT______GGGG________AATT
3._PA_88_[PER]___
AC__CT____________GT________
4._PA_88_[PER]___
AC____CT____GG______________
5._PA_88_[PER]___
AC____CT____GG______________
6._PA_88_[PER]___
AC____CT____GG______________
7._PA_88_[PER]___
AC____CT____GG______________
8._PA_88_[PER]___
AC____CT____GG______________
9._PA_88_[PER]___
AC____CT____GG______________
10._PA_88_[PER]___
AC____CT____GG______________
11._PA_88_[PER]___
AC____CT____GG______________
12._PA_88_[PER]___
AC____CT____GG______________
13._PA_88_[PER]___
AC____CT____GG______________
14._PA_88_[PER]___
AC____CT____GG______________
15._PA_88_[PER]___
AC____CT____GG______________
16._PA_88_[PER]___
AC____CT____GG______________
17._PA_88_[PER]___
ACCCCTCTAAAAGGGGTTGTGGTTAACC
18._PA_88_[PER]___
ACCCCTCTAAAAGGGGTTGTGGTTAACC
19._PA_88_[PER]___
ACCCCTCTAAAAGGGGTTGTGGTTAACC
20._PA_88_[PER]___
ACCCCTCTAAAAGGGGTTGTGGTTAACC
21._PA_88_[PER]___
ACCCCTCTAAAAGGGGTTGTGGTTAACC
22._PA_88_[PER]___
ACCCCTCTAAAAGGGGTTGTGGTTAACC
23._PA_88_[PER]___
ACCCCTCTAAAAGGGGTTGTGGTTAACC
24._PA_88_[PER]___
ACCCCTCTAAAAGGGGTTGTGGTTAACC
25._PA_88_[PER]___
ACCCCTCTAAAAGGGGTTGTGGTTAACC
26._PA_88_[PER]___
ACCCCTCTAAAAGGGGTTGTGGTTAACC
27._PA_88_[PER]___
ACCCCTCTAAAAGGGGTTGGGGTTAACC
28._PA_88_[PER]___
AC__CTCT____GGGGTT____TTAA__
29._PA_88_[PER]___
CC____TT____GG______________
30._PA_88_[PER]___
ACCCCTCTAAAAGGGGTTTTTTTTAACG
31._PA_88_[PER]___
AC____CT____GG______________
 71 72 73 74 75 76 77 78 79 80 81 82   
_Input profile
GGCCGGGGAGCCAACGGGAAAGAGX_XX_X
1._PA_88_[PER]___
GGCCGGGGAGCCAACGGGAAAGAGX_XX_X
2._PA_88_[PER]___
__GG____AG____________AGX_XX_X
3._PA_88_[PER]___
GGCCCC______________CT__X_XX_X
4._PA_88_[PER]___
__GGCC________CG__AACTAGX_XX_X
5._PA_88_[PER]___
__GGCC______TTCG__AACTAGX_XX_X
6._PA_88_[PER]___
__GGCC______TTCG__AACTAGX_XX_X
7._PA_88_[PER]___
__GGCC______TTCG__AACTAGX_XX_X
8._PA_88_[PER]___
__GGCC______TTCG__AACTAGX_XX_X
9._PA_88_[PER]___
__GGCC______TTCG__AACTAGX_XX_X
10._PA_88_[PER]___
__GGCC______TTCG__AACTAGX_XX_X
11._PA_88_[PER]___
__GGCC______TTCG__AACTAGX_XX_X
12._PA_88_[PER]___
__GGCC______TTCG__AACTAGX_XX_X
13._PA_88_[PER]___
__GGCC______TTCG__AACTAGX_XX_X
14._PA_88_[PER]___
__GGCC______TTCG__AACTAGX_XX_X
15._PA_88_[PER]___
__GGCC______TTCG__AACTAGX_XX_X
16._PA_88_[PER]___
__GGCC______TTCG__AACTAGX_XX_X
17._PA_88_[PER]___
__GGCCCCAGCC__CGCCAACTAGX_XX_X
18._PA_88_[PER]___
__GGCCCCAGCCTTCGCCAACTAGX_XX_X
19._PA_88_[PER]___
__GGCCCCAGCCTTCGCCAACTAGX_XX_X
20._PA_88_[PER]___
__GGCCCCAGCCTTCGCCAACTAGX_XX_X
21._PA_88_[PER]___
__GGCCCCAGCCTTCGCCAACTAGX_XX_X
22._PA_88_[PER]___
__GGCCCCAGCCTTCGCCAACTAGX_XX_X
23._PA_88_[PER]___
__GGCCCCAGCCTTCGCCAACTAGX_XX_X
24._PA_88_[PER]___
__GGCCCCAGCCTTCGCCAACTAGX_XX_X
25._PA_88_[PER]___
__GGCCCCAGCCTTCGCCAACTAGX_XX_X
26._PA_88_[PER]___
__GGCCCCAGCCTTCGCCAACTAGX_XX_X
27._PA_88_[PER]___
__GGCCCCAGCCTTCGCCAACTAGX_XX_X
28._PA_88_[PER]___
__GGCC__GGCC__________AGX_XX_X
29._PA_88_[PER]___
__GGCC______TTCG__AACTAGX_XX_X
30._PA_88_[PER]___
__CGCCCCAACCTTCCCCAATTGGX_XX_X
31._PA_88_[PER]___
__CGCC______TTCC__AATTGGX_XX_X

Input profile: PA_88_[PER] GC-01-58-3-13

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

1._PA_88_[PER] RUQ_34

identical
82 shared markers

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

2._PA_88_[PER] RUQ_34

70.6 %
17 shared markers

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

3._PA_88_[PER] PA88[PER]

59.1 %
22 shared markers

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

4._PA_88_[PER]

52.9 %
34 shared markers

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

5._PA_88_[PER]

52.9 %
34 shared markers

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

6._PA_88_[PER]

51.4 %
35 shared markers

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

7._PA_88_[PER]

51.4 %
35 shared markers

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

8._PA_88_[PER]

51.4 %
35 shared markers

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

9._PA_88_[PER]

51.4 %
35 shared markers

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

10._PA_88_[PER]

51.4 %
35 shared markers

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

11._PA_88_[PER]

51.4 %
35 shared markers

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

12._PA_88_[PER]

51.4 %
35 shared markers

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

13._PA_88_[PER]

51.4 %
35 shared markers

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

14._PA_88_[PER]

51.4 %
35 shared markers

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

15._PA_88_[PER] RUQ_34

51.4 %
35 shared markers

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

16._PA_88_[PER]

51.4 %
35 shared markers

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

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

51.3 %
79 shared markers

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

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

51.3 %
79 shared markers

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

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

51.3 %
79 shared markers

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

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

50.6 %
80 shared markers

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

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

50.6 %
80 shared markers

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

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

50.6 %
80 shared markers

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

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

50.6 %
80 shared markers

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

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

50.6 %
80 shared markers

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

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

50.6 %
80 shared markers

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

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

50.6 %
80 shared markers

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

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

50 %
79 shared markers

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

28._PA_88_[PER] RUQ_34

47.3 %
37 shared markers

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

29._PA_88_[PER]

40.3 %
31 shared markers

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

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

33.8 %
80 shared markers

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

31._PA_88_[PER]

31.4 %
35 shared markers

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

 


  Key to SNP Markers

1Tcm001s00947643 2Tcm003s01336581 3Tcm003s07402719 4Tcm006s26664133 5TcSNP1034
6TcSNP1060 7TcSNP1062 8TcSNP1063 9TcSNP1075 10TcSNP1096
11TcSNP1111 12TcSNP1149 13TcSNP1156 14TcSNP1175 15TcSNP122
16TcSNP1253 17TcSNP1270 18TcSNP1309 19TcSNP1350 20TcSNP1383
21TcSNP1414 22TcSNP1439 23TcSNP144 24TcSNP1442 25TcSNP1458
26TcSNP1484 27TcSNP150 28TcSNP151 29TcSNP1520 30TcSNP154
31TcSNP174 32TcSNP193 33TcSNP226 34TcSNP230 35TcSNP240
36TcSNP242 37TcSNP25 38TcSNP28 39TcSNP316 40TcSNP32
41TcSNP329 42TcSNP364 43TcSNP372 44TcSNP413 45TcSNP418
46TcSNP42 47TcSNP429 48TcSNP430 49TcSNP448 50TcSNP497
51TcSNP521 52TcSNP529 53TcSNP547 54TcSNP560 55TcSNP561
56TcSNP577 57TcSNP591 58TcSNP60 59TcSNP602 60TcSNP619
61TcSNP653 62TcSNP689 63TcSNP723 64TcSNP731 65TcSNP75
66TcSNP751 67TcSNP776 68TcSNP799 69TcSNP823 70TcSNP836
71TcSNP860 72TcSNP872 73TcSNP891 74TcSNP894 75TcSNP899
76TcSNP90 77TcSNP917 78TcSNP929 79TcSNP944 80TcSNP953
81TcSNP994 82TcSNP998