SNP Profiles of SCA 24   View Data

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 Key

 1 2 3 4 5 6 7 8 9 10 11 12 13 14
_Input profile
CCCCGGCCAAGGGGCCAAAAGGGGGGAA
1._GC-05-167-4-20
CCCCGGCCAAGGGGCCAAAAGGGGGGAA
2._GC-03-015-2-03
CCCCGGCCTTCCGGGGAATTGGCCCCTT
3._GC-03-015-2-03
CCCCGGCCTTCCGGGGAATTGGCCCCTT
4._GC-03-015-2-03
CCCCGGCCTTCCGGGGAATTGGCCCCTT
5._GC-03-015-2-03
CCCCGGCCTTCCGGGGAATTGGCCCCTT
6._GC-03-015-2-03
CCCCGGCCTTCCGGGGAATTGGCCCCTT
7._GC-03-015-2-03
CCCCGGCCTTCCGGGGAATTGGCCCCTT
8._GC-05-167-4-20
CCCCGGCCTTCCGGGGAATTGGCCCCTT
9._GC-05-167-4-20
CCCCGGCCTTCCGGGGAATTGGCCCCTT
10._GC-05-167-4-20
CCCCGGCCTTCCGGGGAATTGGCCCCTT
11._GC-05-167-4-20
CCCCGGCCTTCCGGGGAATTGGCCCCTT
12._GC-05-167-4-20
CCCCGGCCTTCCGGGGAATTGGCCCCTT
13._SCA_24
__________CCGG__AA__________
14._SCA_24
__________CCGG__AA__________
15._SCA_24
__________CCGG__AA__________
16._SCA_24
__________CCGG__AA__________
17._SCA_24
__________CCGG__AA__________
18._SCA_24
__________CCGG__AA__________
19._SCA_24
__________CCGG__AA__________
20._SCA_24
__________CCGG__AA__________
21._SCA_24
__________CCGG__AA__________
22._SCA_24
__________CCGG__AA__________
23._SCA_24
__________CCGG__AA__________
24._SCA_24
__________CCGG__AA__________
25._SCA_24
__________CCGG__AA__________
26._RUQ_357
__________CCGG__AA__________
27._RUQ_357
__________CCGG__AA__________
28._RUQ_357
__________CC__GG____GG______
 15 16 17 18 19 20 21 22 23 24 25 26 27 28
_Input profile
AACCAAAACCAGAGGGAAAGGGAACCAA
1._GC-05-167-4-20
AACCAAAACCAGAGGGAAAGGGAACCAA
2._GC-03-015-2-03
TTGGTTTTCCAGCTCCAACTCCAAGGTT
3._GC-03-015-2-03
TTGGTTTTCCAGCTCCAACTCCAAGGTT
4._GC-03-015-2-03
TTGGTTTTCCAGCTCCAACTCCAAGGTT
5._GC-03-015-2-03
TTGGTTTTCCAGCTCCAACTCCAAGGTT
6._GC-03-015-2-03
TTGGTTTTCCAGCTCCAACTCCAAGGTT
7._GC-03-015-2-03
TTGGTTTTCCAGCTCCAACTCCAAGGTT
8._GC-05-167-4-20
TTGGTTTTCCAGCTCCAACTCCAAGGTT
9._GC-05-167-4-20
TTGGTTTTCCAGCTCCAACTCCAAGGTT
10._GC-05-167-4-20
TTGGTTTTCCAGCTCCAACTCCAAGGTT
11._GC-05-167-4-20
TTGGTTTTCCAGCTCCAACTCCAAGGTT
12._GC-05-167-4-20
TTGGTTTTCCAGCTCCAACTCCAAGGTT
13._SCA_24
__GGTT__CC__CT__AACTCCAAGGTT
14._SCA_24
__GGTT__CC__CT__AACTCCAAGGTT
15._SCA_24
__GGTT__CC__CT__AACTCCAAGGTT
16._SCA_24
__GGTT__CC__CT__AACTCCAAGGTT
17._SCA_24
__GGTT__CC__CT__AACTCCAAGGTT
18._SCA_24
__GGTT__CC__CT__AACTCCAAGGTT
19._SCA_24
__GGTT__CC__CT__AACTCCAAGGTT
20._SCA_24
__GGTT__CC__CT__AACTCCAAGGTT
21._SCA_24
__GGTT__CC__CT__AACTCCAAGGTT
22._SCA_24
__GGTT__CC__CT__AACTCCAAGGTT
23._SCA_24
__GGTT__CC__CT__AACTCCAAGGTT
24._SCA_24
__GGTT__CC__CT__AACTCCAAGGTT
25._SCA_24
__GGTT__CC__CT__AACTCCAAGGTT
26._RUQ_357
__GGTT__CC__CT__AACTCCAGGGTT
27._RUQ_357
__GGTT__CC__CT__AACTCCAGGGTT
28._RUQ_357
__GG__TT______CCAACTCCAAGGTT
 29 30 31 32 33 34 35 36 37 38 39 40 41 42
_Input profile
GGAAGGCCGGAGGGAGCGAATTAAAAGG
1._GC-05-167-4-20
GGAAGGCCGGAGGGAGCGAATTAAAAGG
2._GC-03-015-2-03
CCTTGGCCCCAGGGCTCGTTAAAAAAGG
3._GC-03-015-2-03
CCTTGGCCCCAGGGCTCGTTAAAAAAGG
4._GC-03-015-2-03
CCTTGGCCCCAGGGCTCGTTAAAAAAGG
5._GC-03-015-2-03
CCTTGGCCCCAGGGCTCGTTAAAAAAGG
6._GC-03-015-2-03
CCTTGGCCCCAGGGCTCGTTAAAAAAGG
7._GC-03-015-2-03
CCTTGGCCCCAGGGCTCGTTAAAAAAGG
8._GC-05-167-4-20
CCTTGGCCCCAGGGCTCGTTAAAAAAGG
9._GC-05-167-4-20
CCTTGGCCCCAGGGCTCGTTAAAAAAGG
10._GC-05-167-4-20
CCTTGGCCCCAGGGCTCGTTAAAAAAGG
11._GC-05-167-4-20
CCTTGGCCCCAGGGCTCGTTAAAAAAGG
12._GC-05-167-4-20
CCTTGGCCCCAGGGCTCGTTAAAAAAGG
13._SCA_24
CC____CCCCAG__CTCG____AA____
14._SCA_24
CC____CCCCAG__CTCG____AA____
15._SCA_24
CC____CCCCAG__CTCG____AA____
16._SCA_24
CC____CCCCAG__CTCG____AA____
17._SCA_24
CC____CCCCAG__CTCG____AA____
18._SCA_24
CC____CCCCAG__CTCG____AA____
19._SCA_24
CC____CCCCAG__CTCG____AA____
20._SCA_24
CC____CCCCAG__CTCG____AA____
21._SCA_24
CC____CCCCAG__CTCG____AA____
22._SCA_24
CC____CCCCAG__CTCG____AA____
23._SCA_24
CC____CCCCAG__CTCG____AA____
24._SCA_24
CC____CCCCAG__CTCG____AA____
25._SCA_24
CC____CCCCAG__CTCG____AA____
26._RUQ_357
CC____CCCCAG__CTCG____AA____
27._RUQ_357
CC____CCCCAG__CTCG____AA____
28._RUQ_357
____GGCCCCAG__CT________AAGG
 43 44 45 46 47 48 49 50 51 52 53 54 55 56
_Input profile
AAGGAAGGAGAACCGGAAACAACCGGCC
1._GC-05-167-4-20
AAGGAAGGAGAACCGGAAACAACCGGCC
2._GC-03-015-2-03
AACCAAGGAGAAGG__AAACAAGGGGCC
3._GC-03-015-2-03
AACCAAGGAGAAGG__AAACAAGGGGCC
4._GC-03-015-2-03
AACCAAGGAGAAGG__AAACAAGGGGCC
5._GC-03-015-2-03
AACCAAGGAGAAGG__AAACAAGGGGCC
6._GC-03-015-2-03
AACCAAGGAGAAGG__AAACAAGGGGCC
7._GC-03-015-2-03
AACCAAGGAGAAGG__AAACAAGGGGCC
8._GC-05-167-4-20
AACCAAGGAGAAGG__AAACAAGGGGCC
9._GC-05-167-4-20
AACCAAGGAGAAGG__AAACAAGGGGCC
10._GC-05-167-4-20
AACCAAGGAGAAGG__AAACAAGGGGCC
11._GC-05-167-4-20
AACCAAGGAGAAGG__AAACAAGGGGCC
12._GC-05-167-4-20
AACCAAGGAGAAGG__AAACAAGGGGCC
13._SCA_24
AA______AG________AC__GG__CC
14._SCA_24
AA______AG________AC__GG__CC
15._SCA_24
AA______AG________AC__GG__CC
16._SCA_24
AA______AG________AC__GG__CC
17._SCA_24
AA______AG________AC__GG__CC
18._SCA_24
AA______AG________AC__GG__CC
19._SCA_24
AA______AG________AC__GG__CC
20._SCA_24
AA______AG________AC__GG__CC
21._SCA_24
AA______AG________AC__GG__CC
22._SCA_24
AA______AG________AC__GG__CC
23._SCA_24
AA______AG________AC__GG__CC
24._SCA_24
AA______AG________AC__GG__CC
25._SCA_24
AA______AG________AC__GG__CC
26._RUQ_357
AA______AG________AC__GG__CC
27._RUQ_357
AA______AG________AC__GG__CC
28._RUQ_357
AA__________GG____AC__GG__CC
 57 58 59 60 61 62 63 64 65 66 67 68 69 70
_Input profile
CCGGAGAAAGAACCAAAAAACCAACCGG
1._GC-05-167-4-20
CCGGAGAAAGAACCAAAAAACCAACCGG
2._GC-03-015-2-03
CCCC__TTAAAAGGAATTTTGGTTCCCC
3._GC-03-015-2-03
CCCC__TTAAAAGGAATTTTGGTTCCCC
4._GC-03-015-2-03
CCCC__TTAAAAGGAATTTTGGTTCCCC
5._GC-03-015-2-03
CCCC__TTAAAAGGAATTTTGGTTCCCC
6._GC-03-015-2-03
CCCC__TTAAAAGGAATTTTGGTTCCCC
7._GC-03-015-2-03
CCCC__TTAAAAGGAATTTTGGTTCCCC
8._GC-05-167-4-20
CCCC__TTAAAAGGAATTTTGGTTCCCC
9._GC-05-167-4-20
CCCC__TTAAAAGGAATTTTGGTTCCCC
10._GC-05-167-4-20
CCCC__TTAAAAGGAATTTTGGTTCCCC
11._GC-05-167-4-20
CCCC__TTAAAAGGAATTTTGGTTCCCC
12._GC-05-167-4-20
CCCCCTTT__AAGGAATTTTGGTTCCCC
13._SCA_24
CC____TT____GG______________
14._SCA_24
CC____TT____GG______________
15._SCA_24
CC____TT____GG______________
16._SCA_24
CC____TT____GG______________
17._SCA_24
CC____TT____GG______________
18._SCA_24
CC____TT____GG______________
19._SCA_24
CC____TT____GG______________
20._SCA_24
CC____TT____GG______________
21._SCA_24
CC____TT____GG______________
22._SCA_24
CC____TT____GG______________
23._SCA_24
CC____TT____GG______________
24._SCA_24
CC____TT____GG______________
25._SCA_24
CC____TT____GG______________
26._RUQ_357
CC____TT____GG______________
27._RUQ_357
CC____TT____GG______________
28._RUQ_357
CC__CTTT____GGAATT____TTCC__
 71 72 73 74 75 76 77 78 79 80 81 82   
_Input profile
AAGGAAGGAGCCGGCCGGTTGGAAX_XX_X
1._GC-05-167-4-20
AAGGAAGGAGCCGGCCGGTTGGAAX_XX_X
2._GC-03-015-2-03
AACCTTCCAGCCCCCCCCTTCCAAX_XX_X
3._GC-03-015-2-03
AACCTTCCAGCCCCCCCCTTCCAAX_XX_X
4._GC-03-015-2-03
AACCTTCCAGCCCCCCCCTTCCAAX_XX_X
5._GC-03-015-2-03
AACCTTCCAGCCCCCCCCTTCCAAX_XX_X
6._GC-03-015-2-03
AACCTTCCAGCCCCCCCCTTCCAAX_XX_X
7._GC-03-015-2-03
AACCTTCCAGCCCCCCCCTTCCAAX_XX_X
8._GC-05-167-4-20
AACCTTCCAGCCCCCCCCTTCCAAX_XX_X
9._GC-05-167-4-20
AACCTTCCAGCCCCCCCCTTCCAAX_XX_X
10._GC-05-167-4-20
AACCTTCCAGCCCCCCCCTTCCAAX_XX_X
11._GC-05-167-4-20
AACCTTCCAGCCCCCCCCTTCCAAX_XX_X
12._GC-05-167-4-20
AACCTTCCAGCCCCCCCCTTCCAAX_XX_X
13._SCA_24
__CCTT______CCCC__TTCCAAX_XX_X
14._SCA_24
__CCTT______CCCC__TTCCAAX_XX_X
15._SCA_24
__CCTT______CCCC__TTCCAAX_XX_X
16._SCA_24
__CCTT______CCCC__TTCCAAX_XX_X
17._SCA_24
__CCTT______CCCC__TTCCAAX_XX_X
18._SCA_24
__CCTT______CCCC__TTCCAAX_XX_X
19._SCA_24
__CCTT______CCCC__TTCCAAX_XX_X
20._SCA_24
__CCTT______CCCC__TTCCAAX_XX_X
21._SCA_24
__CCTT______CCCC__TTCCAAX_XX_X
22._SCA_24
__CCTT______CCCC__TTCCAAX_XX_X
23._SCA_24
__CCTT______CCCC__TTCCAAX_XX_X
24._SCA_24
__CCTT______CCCC__TTCCAAX_XX_X
25._SCA_24
__CCTT______CCCC__TTCCAAX_XX_X
26._RUQ_357
__CCTT______CCCC__TTCCAAX_XX_X
27._RUQ_357
__CCTT______CCCC__TTCCAAX_XX_X
28._RUQ_357
__CCTT____CC__________AAX_XX_X

Input profile: SCA_24 GC-03-15-2-3

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

1._SCA_24 GC-05-167-4-20

identical
82 shared markers

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Mars Center for Cocoa Science, Brazil
Location: Field: 5, Block: 4, Rep: 20, Tree: 4
Notes: MCCS_Structure_refs_above_0.9membership
 Mars, 2018

2._SCA_24 GC-03-015-2-03

49.4 %
80 shared markers

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

3._SCA_24 GC-03-015-2-03

49.4 %
80 shared markers

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Mars Center for Cocoa Science, Brazil
Location: Tree: 2
Notes: 2 > FP4
 Mars, 2018

4._SCA_24 GC-03-015-2-03

49.4 %
80 shared markers

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

5._SCA_24 GC-03-015-2-03

49.4 %
80 shared markers

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

6._SCA_24 GC-03-015-2-03

49.4 %
80 shared markers

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Mars Center for Cocoa Science, Brazil
Location: Tree: 9
Notes: 9
 Mars, 2018

7._SCA_24 GC-03-015-2-03

49.4 %
80 shared markers

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

8._SCA_24 GC-05-167-4-20

49.4 %
80 shared markers

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

9._SCA_24 GC-05-167-4-20

49.4 %
80 shared markers

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

10._SCA_24 GC-05-167-4-20

49.4 %
80 shared markers

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

11._SCA_24 GC-05-167-4-20

49.4 %
80 shared markers

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

12._SCA_24 GC-05-167-4-20

48.8 %
80 shared markers

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

13._SCA_24

48.6 %
35 shared markers

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Mars Center for Cocoa Science, Brazil
Location: 3203 3
 Dapeng Zhang, 2016

14._SCA_24

48.6 %
35 shared markers

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Mars Center for Cocoa Science, Brazil
Location: 5420 3 > FP
 Dapeng Zhang, 2016

15._SCA_24

48.6 %
35 shared markers

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Mars Center for Cocoa Science, Brazil
Location: 5420 2 > FP
 Dapeng Zhang, 2016

16._SCA_24

48.6 %
35 shared markers

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Mars Center for Cocoa Science, Brazil
Location: 5420 1 > FP
 Dapeng Zhang, 2016

17._SCA_24

48.6 %
35 shared markers

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Mars Center for Cocoa Science, Brazil
Location: 5420 5
 Dapeng Zhang, 2016

18._SCA_24

48.6 %
35 shared markers

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Mars Center for Cocoa Science, Brazil
Location: 5420 4
 Dapeng Zhang, 2016

19._SCA_24

48.6 %
35 shared markers

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Mars Center for Cocoa Science, Brazil
Location: 3203 2 > FP
 Dapeng Zhang, 2016

20._SCA_24

48.6 %
35 shared markers

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Mars Center for Cocoa Science, Brazil
Location: 3203 1 > FP
 Dapeng Zhang, 2016

21._SCA_24

48.6 %
35 shared markers

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Mars Center for Cocoa Science, Brazil
Location: 3203 10
 Dapeng Zhang, 2016

22._SCA_24

48.6 %
35 shared markers

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Mars Center for Cocoa Science, Brazil
Location: 3203 9
 Dapeng Zhang, 2016

23._SCA_24

48.6 %
35 shared markers

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Mars Center for Cocoa Science, Brazil
Location: 3203 5
 Dapeng Zhang, 2016

24._SCA_24

48.6 %
35 shared markers

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International Cocoa Genebank, Trinidad (ICG,T), Trinidad and Tobago
Location: Marper D 569
 Dapeng Zhang, 2016

25._SCA_24

48.6 %
35 shared markers

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International Cocoa Genebank, Trinidad (ICG,T), Trinidad and Tobago
Location: Marper D 569
 Dapeng Zhang, 2016

26._SCA_24 RUQ_357

47.1 %
35 shared markers

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

27._SCA_24 RUQ_357

47.1 %
35 shared markers

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

28._SCA_24 RUQ_357

44.4 %
36 shared markers

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

 

  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