SNP Profiles of ICS 40 View Data

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	1	2	3	4	5	6	7	8	9	10	11	12	13	14
_Input profile	CT	AG	CG	CT	TT	AA	CC	CT	CT	AA	AA	CT	AA	CT
1._ICS_40	CT	AG	CG	CT	TT	AA	CC	CT	CT	AA	AA	CT	AA	CT
2._GC-01-106-6-03	CT	AG	CG	CT	TT	AA	CC	CT	CT	AA	AA	CT	AA	CT
3._GC-01-106-6-03	CT	AG	CG	CT	TT	AA	CC	CT	CT	AA	AA	CT	AA	CT
4._GC-01-106-6-03	CT	AG	CG	CT	TT	AA	CC	CT	CT	AA	AA	CT	AA	CT
5._GC-01-106-6-03	CT	AG	CG	CT	TT	AA	CC	CT	CT	AA	AA	CT	AA	CT
6._GC-01-106-6-03	CT	AG	CG	CT	TT	AA	CC	CT	CT	AA	AA	CT	AA	CT
7._ICS_40	CT	AG	CG	CT	TT	AA	CC	CT	CT	AA	AA	CT	AA	CT
8._ICS_40	CT	AG	CG	CT	TT	AA	CC	CT	CT	AA	AA	CT	AA	CT
9._ICS_40	CT	AG	CG	CT	TT	AA	CC	CT	CT	AA	AA	CT	AA	CT
10._ICS_40	CT	AG	CG	CT	TT	AA	CC	CT	CT	AA	AA	CT	AA	CT
11._GC-01-106-6-03	CT	AG	CG	CT	TT	AA	CC	CT	CT	AA	AA	CT	AA	CT
12._GC-01-106-6-03	CT	AG	CG	CT	TT	AA	CC	CT	CT	AA	AA	CT	AA	CT
13._GC-01-106-6-03	CT	AG	CG	CT	TT	AA	CC	CT	CT	AA	AA	CT	AA	_
14._ICS_40	CT	AG	CG	CT	TT	AA	CC	CT	CT	AA	AA	CT	AA	_
15._ICS_40	CT	AG	CG	CT	TT	AA	CC	CT	CT	AA	AA	CT	AA	CT
16._RUQ_1432	_	AG	CG	CT	_	_	_	_	_	_	_	CT	AA	_
17._RUQ_1432	CT	AG	CG	CT	CT	AA	CC	CT	CT	AA	AA	CT	AA	CT
18._ICS_40	CT	AG	GG	CT	TT	AA	CC	CT	CT	AA	AA	CT	AA	CT
19._ICS_40	_	_	GG	CT	TT	AA	_	CT	CT	AA	AA	CT	AA	CT
20._RUQ_1432	_	_	CG	_	_	_	_	_	CT	_	AA	_	AA	_
21._ICS_40	CC	GG	GG	TT	CT	AC	CT	CC	CC	AA	GG	CC	AA	CT
22._RUQ_1432	AG	AG	CC	AG	AA	AA	GG	_	_	AA	AA	AG	AA	AG
23._GC-01-106-6-03	CC	GG	CC	TT	CT	AC	CT	TT	CC	AA	GG	CC	AA	CT
24._ICS_40	CC	GG	CC	TT	CT	AC	CT	TT	CC	AA	GG	CC	AA	CT

	15	16	17	18	19	20	21	22	23	24	25	26	27	28
_Input profile	AA	GG	TT	CC	CG	GT	GG	CT	AC	CC	GT	CT	CC	AG
1._ICS_40	AA	GG	TT	CC	CG	GT	GG	CT	AC	CC	GT	CT	CC	AG
2._GC-01-106-6-03	AA	GG	TT	CC	CG	GT	GG	CT	AC	CC	GT	CT	CC	AG
3._GC-01-106-6-03	AA	GG	TT	CC	CG	GT	GG	CT	AC	CC	GT	CT	CC	AG
4._GC-01-106-6-03	AA	GG	TT	CC	CG	GT	GG	CT	AC	CC	GT	CT	CC	AG
5._GC-01-106-6-03	AA	GG	TT	CC	CG	GT	GG	CT	AC	CC	GT	CT	CC	AG
6._GC-01-106-6-03	AA	GG	TT	CC	CG	GT	GG	CT	AC	CC	GT	CT	CC	AG
7._ICS_40	AA	GG	TT	CC	CG	GT	GG	CT	AC	CC	GT	CT	CC	AG
8._ICS_40	AA	GG	TT	CC	CG	GT	GG	CT	AC	CC	GT	CT	CC	AG
9._ICS_40	AA	GG	TT	CC	CG	GT	GG	CT	AC	CC	GT	CT	CC	AG
10._ICS_40	AA	GG	TT	CC	CG	GT	GG	CT	AC	CC	GT	CT	CC	AG
11._GC-01-106-6-03	AA	GG	TT	CC	CG	GT	GG	CT	AC	CC	GT	CT	CC	AG
12._GC-01-106-6-03	AA	GG	TT	CC	CG	GT	GG	CT	AC	CC	GT	CT	CC	AG
13._GC-01-106-6-03	AA	GG	TT	CC	CG	GT	GG	CT	AC	CC	GT	CT	CC	AG
14._ICS_40	AA	GG	TT	CC	CG	GT	GG	CT	AC	CC	GT	CT	CC	AG
15._ICS_40	AA	GG	TT	CC	CG	GT	GG	CT	AC	CC	GT	CT	CC	AG
16._RUQ_1432	_	_	_	CC	CG	GT	_	CT	AA	CC	GT	CT	CC	AG
17._RUQ_1432	AA	GG	TT	CC	CG	GT	AG	CT	AC	CC	GT	CT	CC	AG
18._ICS_40	AA	GG	TT	CC	CG	GT	AG	CT	AC	CC	GT	CT	CC	AG
19._ICS_40	AA	GG	TT	CC	CG	GT	AG	CT	_	CC	GT	CT	CC	AG
20._RUQ_1432	_	_	_	_	CG	GT	AG	_	AC	CC	_	_	CC	_
21._ICS_40	AA	CG	CT	CC	CG	GG	AA	CT	CC	CC	TT	CT	AC	AA
22._RUQ_1432	AA	GG	AA	GG	CG	AC	_	AG	AC	CC	AC	_	CC	_
23._GC-01-106-6-03	AT	GG	CT	TT	CC	GT	AA	TT	CC	GG	GG	CC	AA	AG
24._ICS_40	AT	GG	CT	TT	CC	GT	AA	TT	CC	GG	GG	CC	AA	AG

	29	30	31	32	33	34	35	36	37	38	39
_Input profile	GG	AT	CT	AG	CG	AC	CT	GT	AC	AT	GG	X_X	X_X	X_X
1._ICS_40	GG	AT	CT	AG	CG	AC	CT	GT	AC	AT	GG	X_X	X_X	X_X
2._GC-01-106-6-03	GG	AT	CT	AG	CG	AC	CT	GT	AC	AT	GG	X_X	X_X	X_X
3._GC-01-106-6-03	GG	AT	CT	AG	CG	AC	CT	GT	AC	AT	GG	X_X	X_X	X_X
4._GC-01-106-6-03	GG	AT	CT	AG	CG	AC	CT	GT	AC	AT	GG	X_X	X_X	X_X
5._GC-01-106-6-03	GG	AT	CT	AG	CG	AC	CT	GT	AC	AT	GG	X_X	X_X	X_X
6._GC-01-106-6-03	GG	AT	CT	AG	CG	AC	CT	GT	AC	AT	GG	X_X	X_X	X_X
7._ICS_40	GG	AT	CT	AG	CG	AC	CT	GT	AC	AT	GG	X_X	X_X	X_X
8._ICS_40	GG	AT	CT	AG	CG	AC	CT	GT	AC	AT	GG	X_X	X_X	X_X
9._ICS_40	GG	AT	CT	AG	CG	AC	CT	GT	AC	AT	GG	X_X	X_X	X_X
10._ICS_40	GG	AT	CT	AG	CG	AC	CT	GT	AC	AT	GG	X_X	X_X	X_X
11._GC-01-106-6-03	GG	AT	CT	AG	CG	AC	CT	GT	AC	AT	GG	X_X	X_X	X_X
12._GC-01-106-6-03	GG	AT	CT	AG	CG	_	CT	GT	AC	AT	GG	X_X	X_X	X_X
13._GC-01-106-6-03	GG	AT	CT	AG	CG	AC	CT	GT	AC	AT	GG	X_X	X_X	X_X
14._ICS_40	GG	AT	CT	AG	CG	AC	CT	GT	AC	AT	GG	X_X	X_X	X_X
15._ICS_40	GG	AT	CT	AG	CG	_	CT	GT	AC	AT	GG	X_X	X_X	X_X
16._RUQ_1432	_	AT	CT	AG	CG	AC	CT	GT	AC	_	_	X_X	X_X	X_X
17._RUQ_1432	GG	AT	CT	AG	CG	AC	CT	GT	AC	AT	GG	X_X	X_X	X_X
18._ICS_40	GG	AT	CT	AG	CG	AC	CT	GT	AC	AT	GG	X_X	X_X	X_X
19._ICS_40	GG	_	CT	AG	_	AC	_	GT	AC	AT	GG	X_X	X_X	X_X
20._RUQ_1432	_	_	_	AG	_	_	_	_	AC	_	_	X_X	X_X	X_X
21._ICS_40	AG	AA	TT	AA	GG	AC	CC	GT	CC	TT	CG	X_X	X_X	X_X
22._RUQ_1432	GG	AT	AG	AG	CG	AC	AG	AC	AC	AT	GG	X_X	X_X	X_X
23._GC-01-106-6-03	AA	AT	CC	AG	CC	CC	TT	GG	AC	AT	GG	X_X	X_X	X_X
24._ICS_40	AA	AT	CC	AG	CC	CC	TT	GG	AC	AT	GG	X_X	X_X	X_X

Input profile: ICS_40

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Mars Center for Cocoa Science, Brazil

Location: 1603 16

Dapeng Zhang, 2016

1._ICS_40

identical
39 shared markers

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Mars Center for Cocoa Science, Brazil

Location: 1603 1

Dapeng Zhang, 2016

Population Assignment:

Dapeng Zhang, 2016

2._ICS_40 GC-01-106-6-03

identical
39 shared markers

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Mars Center for Cocoa Science, Brazil

Location: Tree: 1

Notes: 1

3._ICS_40 GC-01-106-6-03

identical
39 shared markers

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Mars Center for Cocoa Science, Brazil

Location: Tree: 4

Notes: Dead

4._ICS_40 GC-01-106-6-03

identical
39 shared markers

View View all Clone Any

Mars Center for Cocoa Science, Brazil

Location: Tree: 16

Notes: 16

5._ICS_40 GC-01-106-6-03

identical
39 shared markers

View View all Clone Any

Mars Center for Cocoa Science, Brazil

Location: Tree: 6

Notes: Dead

6._ICS_40 GC-01-106-6-03

identical
39 shared markers

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Mars Center for Cocoa Science, Brazil

Location: Tree: 11

Notes: 11

7._ICS_40

identical
39 shared markers

View View all Clone Any

Mars Center for Cocoa Science, Brazil

Location: 1603 4

Dapeng Zhang, 2016

8._ICS_40

identical
39 shared markers

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Mars Center for Cocoa Science, Brazil

Location: 1603 6

Dapeng Zhang, 2016

9._ICS_40

identical
39 shared markers

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Mars Center for Cocoa Science, Brazil

Location: 1603 11

Dapeng Zhang, 2016

10._ICS_40

identical
39 shared markers

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Mars Center for Cocoa Science, Brazil

Location: 1603 13

Dapeng Zhang, 2016

11._ICS_40 GC-01-106-6-03

identical
39 shared markers

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Mars Center for Cocoa Science, Brazil

Location: Tree: 13

Notes: 13

12._ICS_40 GC-01-106-6-03

identical
38 shared markers

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Mars Center for Cocoa Science, Brazil

Location: Field: 1, Block: 6, Rep: 3, Tree: PL6

Notes: PL6 FP4

13._ICS_40 GC-01-106-6-03

identical
38 shared markers

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Mars Center for Cocoa Science, Brazil

Location: Field: 1, Block: 6, Rep: 3, Tree: PL4

Notes: PL4 FP3

14._ICS_40

identical
38 shared markers

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Mars Center for Cocoa Science, Brazil

Location: 1603 4 > FP

Dapeng Zhang, 2016

15._ICS_40

identical
38 shared markers

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Mars Center for Cocoa Science, Brazil

Location: 1603 6 > FP

Dapeng Zhang, 2016

16._ICS_40 RUQ_1432

97.8 %
23 shared markers

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

Dapeng Zhang, 2014

17._ICS_40 RUQ_1432

97.4 %
39 shared markers

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

Dapeng Zhang, 2016

18._ICS_40

97.4 %
39 shared markers

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Malaysian Cocoa Board (MCB), Malaysia

Location: C0201 2A

Dapeng Zhang, 2016

19._ICS_40

96.9 %
32 shared markers

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International Cocoa Genebank, Trinidad (ICG,T), Trinidad and Tobago

Location: San Juan Block2

Dapeng Zhang, 2016

20._ICS_40 RUQ_1432

95.8 %
12 shared markers

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

Lambert Motilal, 2023

21._ICS_40

61.5 %
39 shared markers

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International Cocoa Genebank, Trinidad (ICG,T), Trinidad and Tobago

Location: 6B E287 T4

Dapeng Zhang, 2016

22._ICS_40 RUQ_1432

57.4 %
34 shared markers

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

Notes: Reading_Collection

23._ICS_40 GC-01-106-6-03

56.4 %
39 shared markers

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Mars Center for Cocoa Science, Brazil

Location: Tree: 9

Notes: 9

24._ICS_40

56.4 %
39 shared markers

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Mars Center for Cocoa Science, Brazil

Location: 1603 9

Dapeng Zhang, 2016

Key to SNP Markers

Key to SNP Markers

1	TcSNP1520	2	TcSNP1484	3	TcSNP1458	4	TcSNP1442	5	TcSNP1414
6	TcSNP1350	7	TcSNP1270	8	TcSNP1165	9	TcSNP1144	10	TcSNP1075
11	TcSNP1062	12	TcSNP1060	13	TcSNP998	14	TcSNP994	15	TcSNP953
16	TcSNP929	17	TcSNP917	18	TcSNP891	19	TcSNP872	20	TcSNP723
21	TcSNP645	22	TcSNP619	23	TcSNP591	24	TcSNP577	25	TcSNP560
26	TcSNP534	27	TcSNP529	28	TcSNP469	29	TcSNP429	30	TcSNP372
31	TcSNP242	32	TcSNP230	33	TcSNP226	34	TcSNP193	35	TcSNP151
36	TcSNP150	37	TcSNP144	38	TcSNP32	39	TcSNP25