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
AACCCCCCGGAATTTTCCTTAGTTTTTT
1._GC-03-015-2-03
AACCCCCCGGAATTTTCCTTAGTTTTTT
2._GC-03-015-2-03
AACCCCCCGGAATTTTCCTTAGTTTTTT
3._GC-03-015-2-03
AACCCCCCGGAATTTTCCTTAGTTTTTT
4._GC-03-015-2-03
AACCCCCCGGAATTTTCCTTAGTTTTTT
5._GC-03-015-2-03
AACCCCCCGGAATTTTCCTTAGTTTTTT
6._GC-03-015-2-03
AACCCCCCGGAATTTTCCTTAGTTTTTT
7._GC-05-167-4-20
AACCCCCCGGAATTTTCCTTAGTTTTTT
8._GC-05-167-4-20
AACCCCCCGGAATTTTCCTTAGTTTTTT
9._GC-05-167-4-20
AACCCCCCGGAATTTTCCTTAGTTTTTT
10._GC-05-167-4-20
AACCCCCCGGAA__TTCCTTAGTTTTTT
11._SCA_24
AACCCCCC________CCTTAG__TT__
12._SCA_24
AACCCCCC________CCTTAG__TT__
13._SCA_24
AACCCCCC________CCTTAG__TT__
14._SCA_24
AACCCCCC________CCTTAG__TT__
15._SCA_24
AACCCCCC________CCTTAG__TT__
16._SCA_24
AACCCCCC________CCTTAG__TT__
17._SCA_24
AACCCCCC________CCTTAG__TT__
18._SCA_24
AACCCCCC________CCTTAG__TT__
19._SCA_24
AACCCCCC________CCTTAG__TT__
20._SCA_24
AACCCCCC________CCTTAG__TT__
21._SCA_24
AACCCCCC________CCTTAG__TT__
22._RUQ_357
____CCCC____CT__CC____TTTT__
23._SCA_24
AACCCCCC________CCTTAG__TT__
24._SCA_24
AACCCCCC________CCTTAG__TT__
25._RUQ_357
AACCCCCC________CCTTAG__TT__
26._RUQ_357
AACCCCCC________CCTTAG__TT__
27._GC-03-15-2-3
AACC__CCGGAA__AAGG__AGAAAAAA
28._GC-05-167-4-20
AACC__CCGGAA__AAGG__AGAAAAAA
 15 16 17 18 19 20 21 22 23 24 25 26 27 28
_Input profile
AAAAAAGGCCGGCCCCAACCGGAAAAGG
1._GC-03-015-2-03
AAAAAAGGCCGGCCCCAACCGGAAAAGG
2._GC-03-015-2-03
AAAAAAGGCCGGCCCCAACCGGAAAAGG
3._GC-03-015-2-03
AAAAAAGGCCGGCCCCAACCGGAAAAGG
4._GC-03-015-2-03
AAAAAAGGCCGGCCCCAACCGGAAAAGG
5._GC-03-015-2-03
AAAAAAGGCCGGCCCCAACCGGAAAAGG
6._GC-03-015-2-03
AAAAAAGGCCGGCCCCAACCGGAAAAGG
7._GC-05-167-4-20
AAAAAAGGCCGGCCCCAACCGGAAAAGG
8._GC-05-167-4-20
AAAAAAGGCCGGCCCCAACCGGAAAAGG
9._GC-05-167-4-20
AAAAAAGGCCGGCCCCAACCGGAAAAGG
10._GC-05-167-4-20
AAAAAAGGCCGGCCCC__CCGGAAAAGG
11._SCA_24
______GG____CC________AAAA__
12._SCA_24
______GG____CC________AAAA__
13._SCA_24
______GG____CC________AAAA__
14._SCA_24
______GG____CC________AAAA__
15._SCA_24
______GG____CC________AAAA__
16._SCA_24
______GG____CC________AAAA__
17._SCA_24
______GG____CC________AAAA__
18._SCA_24
______GG____CC________AAAA__
19._SCA_24
______GG____CC________AAAA__
20._SCA_24
______GG____CC________AAAA__
21._SCA_24
______GG____CC________AAAA__
22._RUQ_357
__________GG________GG__AAGG
23._SCA_24
______GG____CC________AAAA__
24._SCA_24
______GG____CC________AAAA__
25._RUQ_357
______GG____CC________AAAA__
26._RUQ_357
______GG____CC________AAAA__
27._GC-03-15-2-3
TTAAAAGGGG__CCGGAGGGGGAAAACC
28._GC-05-167-4-20
TTAAAAGGGG__CCGGAGGGGGAAAACC
 29 30 31 32 33 34 35 36 37 38 39 40 41 42
_Input profile
CCTTTTTTGGCCCCAAGGTTTTAAGGCC
1._GC-03-015-2-03
CCTTTTTTGGCCCCAAGGTTTTAAGGCC
2._GC-03-015-2-03
CCTTTTTTGGCCCCAAGGTTTTAAGGCC
3._GC-03-015-2-03
CCTTTTTTGGCCCCAAGGTTTTAAGGCC
4._GC-03-015-2-03
CCTTTTTTGGCCCCAAGGTTTTAAGGCC
5._GC-03-015-2-03
CCTTTTTTGGCCCCAAGGTTTTAAGGCC
6._GC-03-015-2-03
CCTTTTTTGGCCCCAAGGTTTTAAGGCC
7._GC-05-167-4-20
CCTTTTTTGGCCCCAAGGTTTTAAGGCC
8._GC-05-167-4-20
CCTTTTTTGGCCCCAAGGTTTTAAGGCC
9._GC-05-167-4-20
CCTTTTTTGGCCCCAAGGTTTTAAGGCC
10._GC-05-167-4-20
CCTTTTTTGGCCCCAAGGTTTTAAGGCC
11._SCA_24
CCTT______CC__AAGG____AA____
12._SCA_24
CCTT______CC__AAGG____AA____
13._SCA_24
CCTT______CC__AAGG____AA____
14._SCA_24
CCTT______CC__AAGG____AA____
15._SCA_24
CCTT______CC__AAGG____AA____
16._SCA_24
CCTT______CC__AAGG____AA____
17._SCA_24
CCTT______CC__AAGG____AA____
18._SCA_24
CCTT______CC__AAGG____AA____
19._SCA_24
CCTT______CC__AAGG____AA____
20._SCA_24
CCTT______CC__AAGG____AA____
21._SCA_24
CCTT______CC__AAGG____AA____
22._RUQ_357
CC______GGCCCCAAGG____AA____
23._SCA_24
CCTT______CC__AAGG____AA____
24._SCA_24
CCTT______CC__AAGG____AA____
25._RUQ_357
CCTT______CC__AAGG____AG____
26._RUQ_357
CCTT______CC__AAGG____AG____
27._GC-03-15-2-3
GGTTAAAAGGCCCCAACCAAAAAAGGGG
28._GC-05-167-4-20
GGTTAAAAGGCCCCAACCAAAAAAGGGG
 43 44 45 46 47 48 49 50 51 52 53 54 55 56
_Input profile
GGTTTTGGAAAACCCCAGAAGGTTTTCC
1._GC-03-015-2-03
GGTTTTGGAAAACCCCAGAAGGTTTTCC
2._GC-03-015-2-03
GGTTTTGGAAAACCCCAGAAGGTTTTCC
3._GC-03-015-2-03
GGTTTTGGAAAACCCCAGAAGGTTTTCC
4._GC-03-015-2-03
GGTTTTGGAAAACCCCAGAAGGTTTTCC
5._GC-03-015-2-03
GGTTTTGGAAAACCCCAGAAGGTTTTCC
6._GC-03-015-2-03
GGTTTTGGAAAACCCCAGAAGGTTTTCC
7._GC-05-167-4-20
GGTTTTGGAAAACCCCAGAAGGTTTTCC
8._GC-05-167-4-20
GGTTTTGGAAAACCCCAGAAGGTTTTCC
9._GC-05-167-4-20
GGTTTTGGAAAACCCCAGAAGGTTTTCC
10._GC-05-167-4-20
GGTTTTGGAAAACCCCAGAAGGTTTTCC
11._SCA_24
____TT__________________TTCC
12._SCA_24
____TT__________________TTCC
13._SCA_24
____TT__________________TTCC
14._SCA_24
____TT__________________TTCC
15._SCA_24
____TT__________________TTCC
16._SCA_24
____TT__________________TTCC
17._SCA_24
____TT__________________TTCC
18._SCA_24
____TT__________________TTCC
19._SCA_24
____TT__________________TTCC
20._SCA_24
____TT__________________TTCC
21._SCA_24
____TT__________________TTCC
22._RUQ_357
GGTT____AA____________TTTT__
23._SCA_24
____TT__________________TTCC
24._SCA_24
____TT__________________TTCC
25._RUQ_357
____TT__________________TTCC
26._RUQ_357
____TT__________________TTCC
27._GC-03-15-2-3
CC__AA__AAAAGG__AGAACCAAAAGG
28._GC-05-167-4-20
CC__AA__AAAAGG__AGAACCAAAAGG
 57 58 59 60 61 62 63 64 65 66 67 68 69 70
_Input profile
TTAGCCCCCTCCCGGGAAAGGGGGAACT
1._GC-03-015-2-03
TTAGCCCCCTCCCGGGAAAGGGGGAACT
2._GC-03-015-2-03
TTAGCCCCCTCCCGGGAAAGGGGGAACT
3._GC-03-015-2-03
TTAGCCCCCTCCCGGGAAAGGGGGAACT
4._GC-03-015-2-03
TTAGCCCCCTCCCGGGAAAGGGGGAACT
5._GC-03-015-2-03
TTAGCCCCCTCCCGGGAAAGGGGGAACT
6._GC-03-015-2-03
TTAGCCCCCTCCCGGGAAAGGGGGAACT
7._GC-05-167-4-20
TTAGCCCCCTCCCGGGAAAGGGGGAACT
8._GC-05-167-4-20
TTAGCCCCCTCCCGGGAAAGGGGGAACT
9._GC-05-167-4-20
TTAGCCCCCTCCCGGGAAAGGGGGAACT
10._GC-05-167-4-20
TTAGCCCCCTCCCGGGAAAGGGGGAACT
11._SCA_24
____CC__CTCCCG__AAAGGGGG____
12._SCA_24
____CC__CTCCCG__AAAGGGGG____
13._SCA_24
____CC__CTCCCG__AAAGGGGG____
14._SCA_24
____CC__CTCCCG__AAAGGGGG____
15._SCA_24
____CC__CTCCCG__AAAGGGGG____
16._SCA_24
____CC__CTCCCG__AAAGGGGG____
17._SCA_24
____CC__CTCCCG__AAAGGGGG____
18._SCA_24
____CC__CTCCCG__AAAGGGGG____
19._SCA_24
____CC__CTCCCG__AAAGGGGG____
20._SCA_24
____CC__CTCCCG__AAAGGGGG____
21._SCA_24
____CC__CTCCCG__AAAGGGGG____
22._RUQ_357
TT__CCCCCTCC__GGAAAGGGGGAA__
23._SCA_24
____CC__CTCCCG__AAAGGGGG____
24._SCA_24
____CC__CTCCCG__AAAGGGGG____
25._RUQ_357
____CC__CTCCCG__AAAGGGGG____
26._RUQ_357
____CC__CTCCCG__AAAGGGGG____
27._GC-03-15-2-3
AAAGGGGGAGCCCGGGAAAGCCCCAA__
28._GC-05-167-4-20
AAAGGGGGAGCCCGGGAAAGCCCCAA__
 71 72 73 74 75 76 77 78 79 80 81 82 83 84
_Input profile
CCAGCCCCGGCCCCAAACCCCCAACCTT
1._GC-03-015-2-03
CCAGCCCCGGCCCCAAACCCCCAACCTT
2._GC-03-015-2-03
CCAGCCCCGGCCCCAAACCCCCAACCTT
3._GC-03-015-2-03
CCAGCCCCGGCCCCAAACCCCCAACCTT
4._GC-03-015-2-03
CCAGCCCCGGCCCCAAACCCCCAACCTT
5._GC-03-015-2-03
CCAGCCCCGGCCCCAAACCCCCAACCTT
6._GC-03-015-2-03
CCAGCCCCGGCCCCAAACCCCCAACCTT
7._GC-05-167-4-20
CCAGCCCCGGCCCCAAACCCCCAACCTT
8._GC-05-167-4-20
CCAGCCCCGGCCCCAAACCCCCAACCTT
9._GC-05-167-4-20
CCAGCCCCGGCCCCAAACCCCCAACCTT
10._GC-05-167-4-20
CCAGCCCCGGCCCCAAACCCCCAACCTT
11._SCA_24
__AGCC__________ACCC______TT
12._SCA_24
__AGCC__________ACCC______TT
13._SCA_24
__AGCC__________ACCC______TT
14._SCA_24
__AGCC__________ACCC______TT
15._SCA_24
__AGCC__________ACCC______TT
16._SCA_24
__AGCC__________ACCC______TT
17._SCA_24
__AGCC__________ACCC______TT
18._SCA_24
__AGCC__________ACCC______TT
19._SCA_24
__AGCC__________ACCC______TT
20._SCA_24
__AGCC__________ACCC______TT
21._SCA_24
__AGCC__________ACCC______TT
22._RUQ_357
________________ACCC____CCTT
23._SCA_24
__AACC__________ACCC______TT
24._SCA_24
__AACC__________ACCC______TT
25._RUQ_357
__AACC__________ACCC______TT
26._RUQ_357
__AACC__________ACCC______TT
27._GC-03-15-2-3
____GGCCGGCCCC__ACGGGGAACCAA
28._GC-05-167-4-20
____GGCCGGCCCC__ACGGGGAACCAA
 85 86 87 88 89 90 91 92 93 94     
_Input profile
CCCCCCGGCCCTGGCTTTGGX_XX_XX_XX_X
1._GC-03-015-2-03
CCCCCCGGCCCTGGCTTTGGX_XX_XX_XX_X
2._GC-03-015-2-03
CCCCCCGGCCCTGGCTTTGGX_XX_XX_XX_X
3._GC-03-015-2-03
CCCCCCGGCCCTGGCTTTGGX_XX_XX_XX_X
4._GC-03-015-2-03
CCCCCCGGCCCTGGCTTTGGX_XX_XX_XX_X
5._GC-03-015-2-03
CCCCCCGGCCCTGGCTTTGGX_XX_XX_XX_X
6._GC-03-015-2-03
CCCCCCGGCCCTGGCTTTGGX_XX_XX_XX_X
7._GC-05-167-4-20
CCCCCCGGCCCTGGCTTTGGX_XX_XX_XX_X
8._GC-05-167-4-20
CCCCCCGGCCCTGGCTTTGGX_XX_XX_XX_X
9._GC-05-167-4-20
CCCCCCGGCCCTGGCTTTGGX_XX_XX_XX_X
10._GC-05-167-4-20
CCCCCCGGCCCTGGCTTTGGX_XX_XX_XX_X
11._SCA_24
CCCC__GG__CTGGCT____X_XX_XX_XX_X
12._SCA_24
CCCC__GG__CTGGCT____X_XX_XX_XX_X
13._SCA_24
CCCC__GG__CTGGCT____X_XX_XX_XX_X
14._SCA_24
CCCC__GG__CTGGCT____X_XX_XX_XX_X
15._SCA_24
CCCC__GG__CTGGCT____X_XX_XX_XX_X
16._SCA_24
CCCC__GG__CTGGCT____X_XX_XX_XX_X
17._SCA_24
CCCC__GG__CTGGCT____X_XX_XX_XX_X
18._SCA_24
CCCC__GG__CTGGCT____X_XX_XX_XX_X
19._SCA_24
CCCC__GG__CTGGCT____X_XX_XX_XX_X
20._SCA_24
CCCC__GG__CTGGCT____X_XX_XX_XX_X
21._SCA_24
CCCC__GG__CTGGCT____X_XX_XX_XX_X
22._RUQ_357
______GGCCCTGG______X_XX_XX_XX_X
23._SCA_24
CCCC__GG__CTGGCT____X_XX_XX_XX_X
24._SCA_24
CCCC__GG__CTGGCT____X_XX_XX_XX_X
25._RUQ_357
CCCC__GG__CTGGCT____X_XX_XX_XX_X
26._RUQ_357
CCCC__GG__CTGGCT____X_XX_XX_XX_X
27._GC-03-15-2-3
GG__GG____AGCCAGAAGGX_XX_XX_XX_X
28._GC-05-167-4-20
GG__GG____AGCCAGAAGGX_XX_XX_XX_X

Input profile: SCA_24 GC-05-167-4-20

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

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

identical
94 shared markers

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

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

identical
94 shared markers

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

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

identical
94 shared markers

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

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

identical
94 shared markers

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

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

identical
94 shared markers

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

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

identical
94 shared markers

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

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

identical
94 shared markers

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

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

identical
94 shared markers

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

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

identical
94 shared markers

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

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

identical
92 shared markers

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

11._SCA_24

identical
40 shared markers

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

12._SCA_24

identical
40 shared markers

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

13._SCA_24

identical
40 shared markers

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

14._SCA_24

identical
40 shared markers

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

15._SCA_24

identical
40 shared markers

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

16._SCA_24

identical
40 shared markers

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

17._SCA_24

identical
40 shared markers

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

18._SCA_24

identical
40 shared markers

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

19._SCA_24

identical
40 shared markers

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

20._SCA_24

identical
40 shared markers

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

21._SCA_24

identical
40 shared markers

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

22._SCA_24 RUQ_357

98.8 %
41 shared markers

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

23._SCA_24

98.8 %
40 shared markers

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

24._SCA_24

98.8 %
40 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 RUQ_357

97.5 %
40 shared markers

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

26._SCA_24 RUQ_357

97.5 %
40 shared markers

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

27._SCA_24 GC-03-15-2-3

49.4 %
80 shared markers

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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

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

49.4 %
80 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

 

  Key to SNP Markers

1TcSNP1075 2TcSNP1350 3TcSNP534 4TcSNP591 5TcSNP42
6TcSNP418 7TcSNP702 8TcSNP1096 9TcSNP1060 10TcSNP1165
11TcSNP429 12TcSNP75 13TcSNP891 14TcSNP122 15TcSNP316
16TcSNP521 17TcSNP860 18TcSNP1062 19TcSNP836 20TcSNP878
21TcSNP929 22TcSNP413 23TcSNP653 24TcSNP1149 25TcSNP174
26TcSNP32 27TcSNP372 28TcSNP448 29TcSNP872 30TcSNP953
31TcSNP1034 32TcSNP1175 33TcSNP1111 34TcSNP577 35TcSNP90
36TcSNP998 37TcSNP150 38TcSNP28 39TcSNP751 40TcSNP1484
41TcSNP561 42TcSNP894 43TcSNP1063 44TcSNP1126 45TcSNP1270
46TcSNP606 47TcSNP329 48TcSNP689 49TcSNP944 50TcSNP1242
51TcSNP1383 52TcSNP547 53TcSNP776 54TcSNP1309 55TcSNP151
56TcSNP1520 57TcSNP799 58TcSNP899 59TcSNP226 60TcSNP1439
61TcSNP1442 62TcSNP193 63TcSNP25 64TcSNP364 65TcSNP144
66TcSNP230 67TcSNP560 68TcSNP723 69TcSNP731 70TcSNP701
71TcSNP1041 72TcSNP645 73TcSNP917 74Tcm003s01336581 75Tcm003s07402719
76Tcm001s00947643 77Tcm006s26664133 78Tcm002s20575712 79TcSNP529 80TcSNP1458
81TcSNP60 82TcSNP430 83TcSNP823 84TcSNP619 85TcSNP994
86TcSNP1144 87TcSNP1156 88TcSNP469 89TcSNP999 90TcSNP242
91TcSNP1253 92TcSNP1414 93TcSNP154 94TcSNP240