SNP Profiles of MAN 15/2 View Data

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_Input profile	CC	AA	CG	CC	CT	CC	TT	GT	CT	TT	AA	AG	CT	AA
1._MAN_15_/2_[BRA]	CC	AA	CG	CC	CT	CC	TT	GT	CT	TT	AA	AG	CT	AA
2._RUQ_86	_	_	CG	_	_	_	_	GT	_	TT	_	AG	_	AA
3._RUQ_86	CC	AG	CG	CC	CT	CC	TT	GT	CT	TT	AA	AG	CT	AA
4._RUQ_86	_	AA	CG	CC	_	_	_	-	_	_	_	_	CT	AA
5._MAN_15_/2_[BRA]	CC	AA	CG	CC	CT	CC	TT	GT	CT	TT	AA	GG	CT	AA
6._MAN_15_/2_[BRA]	CC	AA	CG	CC	CT	CC	TT	GT	CT	TT	AA	GG	CT	AA
7._GC-05-072-2-23	CC	AA	CG	CC	CT	CC	TT	GT	CT	TT	AA	GG	CT	AA
8._GC-05-072-2-23	CC	AA	CG	CC	CT	CC	TT	GT	CT	TT	AA	GG	CT	AA
9._MAN_15_/2_[BRA]	CC	AA	CG	CC	CT	_	TT	GT	CT	TT	AA	GG	CT	AA
10._MAN_15_/2_[BRA]	CC	AA	CG	CC	CT	_	TT	GT	CT	TT	AA	GG	CT	AA
11._MAN_15_/2_[BRA]	CC	AA	CG	CC	CT	_	TT	GT	CT	TT	AA	GG	CT	AA
12._GC-05-072-2-23	CC	AA	CG	CC	CT	_	TT	GT	CT	TT	AA	GG	CT	AA
13._GC-05-072-2-23	CC	AA	CG	CC	CT	_	TT	GT	CT	TT	AA	GG	CT	AA
14._GC-05-072-2-23	CC	AA	CG	CC	CT	_	TT	GT	CT	TT	AA	GG	CT	AA
15._MAN15/2[BRA]	_	_	CG	_	_	_	_	_	_	_	_	_	CT	_
16._MAN_15_/2_[BRA]	_	AA	GG	CC	_	AA	TT	TT	CC	_	_	AA	CC	AA
17._RUQ_86	GG	AA	CG	GG	AG	CC	AA	AA	_	_	AA	AG	AG	AA

	15	16	17	18	19	20	21	22	23	24	25	26	27	28
_Input profile	CT	AA	GG	CT	CT	GG	GG	AA	CC	AC	GG	GT	CC	AC
1._MAN_15_/2_[BRA]	_	AA	GG	CT	CT	GG	GG	AA	CC	AC	GG	GT	CC	AC
2._RUQ_86	_	_	_	_	_	GG	GG	AA	_	AC	GG	_	_	AC
3._RUQ_86	CT	AA	GG	CT	CT	GG	GG	AA	CC	AC	GG	GT	CC	AC
4._RUQ_86	_	_	_	_	TT	GG	GG	_	CC	AC	CG	GT	CC	AC
5._MAN_15_/2_[BRA]	CT	AA	GG	CT	CT	GG	GG	AA	CC	AC	CG	GT	CC	AC
6._MAN_15_/2_[BRA]	CT	AA	GG	CT	CT	GG	GG	AA	CC	AC	CG	GT	CC	AC
7._GC-05-072-2-23	CT	AA	GG	CT	CT	GG	GG	AA	CC	AC	CG	GT	CC	AC
8._GC-05-072-2-23	CT	AA	GG	CT	CT	GG	GG	AA	CC	AC	CG	GT	CC	AC
9._MAN_15_/2_[BRA]	CT	AA	GG	CT	CT	GG	GG	AA	CC	AC	CG	GT	CC	AC
10._MAN_15_/2_[BRA]	CT	AA	GG	CT	CT	GG	GG	AA	CC	AC	CG	GT	CC	AC
11._MAN_15_/2_[BRA]	CT	AA	GG	CT	CT	GG	GG	AA	CC	AC	CG	GT	CC	AC
12._GC-05-072-2-23	CT	AA	GG	CT	CT	GG	GG	AA	CC	AC	CG	GT	CC	AC
13._GC-05-072-2-23	CT	AA	GG	CT	CT	GG	GG	AA	CC	AC	CG	GT	CC	AC
14._GC-05-072-2-23	CT	AA	GG	CT	CT	GG	GG	AA	CC	AC	CG	GT	CC	AC
15._MAN15/2[BRA]	CT	_	_	_	CT	CC	_	_	_	AC	CG	_	_	_
16._MAN_15_/2_[BRA]	TT	AA	GG	TT	CC	GG	GG	AA	CT	AA	CG	TT	CT	CC
17._RUQ_86	AG	AA	GG	AG	AG	CC	CC	_	GG	AC	CG	AC	_	AC

	29	30	31	32	33	34	35	36	37	38	39	40
_Input profile	AG	GG	AA	TT	AG	CG	AC	CT	GT	CC	AT	GG	X_X	X_X
1._MAN_15_/2_[BRA]	AG	GG	AA	TT	AG	CG	AC	CT	GT	CC	AT	GG	X_X	X_X
2._RUQ_86	_	_	_	_	AG	_	_	_	_	CC	_	_	X_X	X_X
3._RUQ_86	AG	GG	AA	TT	AG	CG	AC	CT	GT	CC	AT	GG	X_X	X_X
4._RUQ_86	AG	_	AA	TT	AG	CG	AC	CT	GT	CC	_	_	X_X	X_X
5._MAN_15_/2_[BRA]	AG	GG	AA	TT	AA	CG	AA	CC	GT	CC	AT	GG	X_X	X_X
6._MAN_15_/2_[BRA]	AG	GG	AA	TT	AA	CG	AA	CC	GT	CC	AT	GG	X_X	X_X
7._GC-05-072-2-23	AG	GG	AA	TT	AA	CG	AA	CC	GT	CC	AT	GG	X_X	X_X
8._GC-05-072-2-23	AG	GG	AA	TT	AA	CG	AA	CC	GT	CC	AT	GG	X_X	X_X
9._MAN_15_/2_[BRA]	AG	GG	AA	TT	AA	CG	AA	CC	GT	CC	AT	GG	X_X	X_X
10._MAN_15_/2_[BRA]	AG	GG	AA	TT	AA	CG	AA	CC	GT	CC	AT	GG	X_X	X_X
11._MAN_15_/2_[BRA]	AG	GG	AA	TT	AA	CG	AA	CC	GT	CC	AT	GG	X_X	X_X
12._GC-05-072-2-23	AG	GG	AA	TT	AA	CG	AA	CC	GT	CC	AT	GG	X_X	X_X
13._GC-05-072-2-23	AG	GG	AA	TT	AA	CG	AA	CC	GT	CC	AT	GG	X_X	X_X
14._GC-05-072-2-23	AG	GG	AA	TT	AA	CG	AA	CC	GT	CC	AT	GG	X_X	X_X
15._MAN15/2[BRA]	_	_	AA	_	AG	CG	AC	CT	_	CC	_	_	X_X	X_X
16._MAN_15_/2_[BRA]	AA	GG	AA	CC	GG	CG	AC	CT	GG	CC	TT	GG	X_X	X_X
17._RUQ_86	_	GG	AA	AA	AG	CG	AC	AG	AC	CC	AT	GG	X_X	X_X

Input profile: MAN_15_/2_[BRA]

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Malaysian Cocoa Board (MCB), Malaysia

Location: C0297

Dapeng Zhang, 2016

1._MAN_15_/2_[BRA]

identical
39 shared markers

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

Location: 5A N3/476 T2

Dapeng Zhang, 2016

2._MAN_15_/2_[BRA] RUQ_86

identical
13 shared markers

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

Lambert Motilal, 2023

3._MAN_15_/2_[BRA] RUQ_86

98.8 %
40 shared markers

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Centro Agronómico Tropical de Investigación y Enseñanza (CATIE), Costa Rica

Dapeng Zhang, 2016

4._MAN_15_/2_[BRA] RUQ_86

95.7 %
23 shared markers

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

Dapeng Zhang, 2014

5._MAN_15_/2_[BRA]

93.8 %
40 shared markers

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Mars Center for Cocoa Science, Brazil

Location: 5223 5 > FP

Dapeng Zhang, 2016

6._MAN_15_/2_[BRA]

93.8 %
40 shared markers

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Mars Center for Cocoa Science, Brazil

Location: 5223 2 > FP

Dapeng Zhang, 2016

7._MAN_15_/2_[BRA] GC-05-072-2-23

93.8 %
40 shared markers

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Mars Center for Cocoa Science, Brazil

Location: Tree: 5

Notes: 5 > FP4

8._MAN_15_/2_[BRA] GC-05-072-2-23

93.8 %
40 shared markers

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Mars Center for Cocoa Science, Brazil

Location: Tree: 2

Notes: 2 > FP2

9._MAN_15_/2_[BRA]

93.6 %
39 shared markers

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Mars Center for Cocoa Science, Brazil

Location: 5223 3 > FP

Dapeng Zhang, 2016

10._MAN_15_/2_[BRA]

93.6 %
39 shared markers

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Mars Center for Cocoa Science, Brazil

Location: 5223 1 > FP

Dapeng Zhang, 2016

11._MAN_15_/2_[BRA]

93.6 %
39 shared markers

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Mars Center for Cocoa Science, Brazil

Location: 5223 4

Dapeng Zhang, 2016

Population Assignment:

Dapeng Zhang, 2016

12._MAN_15_/2_[BRA] GC-05-072-2-23

93.6 %
39 shared markers

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Mars Center for Cocoa Science, Brazil

Location: Tree: 4

Notes: 4

13._MAN_15_/2_[BRA] GC-05-072-2-23

93.6 %
39 shared markers

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Mars Center for Cocoa Science, Brazil

Location: Tree: 3

Notes: 3 > FP3

14._MAN_15_/2_[BRA] GC-05-072-2-23

93.6 %
39 shared markers

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Mars Center for Cocoa Science, Brazil

Location: Tree: 1

Notes: 1 > FP1

15._MAN_15_/2_[BRA] MAN15/2[BRA]

88.5 %
13 shared markers

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Center for Forestry Research and Technology Transfer, Vietnam

Location: CEFORTT

Jocelyn De Wever et al., 2019

16._MAN_15_/2_[BRA]

69.4 %
36 shared markers

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

Location: La Montaña Lot 6 Row 53 46-48

Dapeng Zhang, 2016

17._MAN_15_/2_[BRA] RUQ_86

52.9 %
35 shared markers

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

Notes: Reading_Collection

Key to SNP Markers

Key to SNP Markers

1	TcSNP1520	2	TcSNP1484	3	TcSNP1458	4	TcSNP1442	5	TcSNP1414
6	TcSNP1350	7	TcSNP1270	8	TcSNP1253	9	TcSNP1165	10	TcSNP1144
11	TcSNP1075	12	TcSNP1062	13	TcSNP1060	14	TcSNP998	15	TcSNP994
16	TcSNP953	17	TcSNP929	18	TcSNP917	19	TcSNP891	20	TcSNP872
21	TcSNP723	22	TcSNP645	23	TcSNP619	24	TcSNP591	25	TcSNP577
26	TcSNP560	27	TcSNP534	28	TcSNP529	29	TcSNP469	30	TcSNP429
31	TcSNP372	32	TcSNP242	33	TcSNP230	34	TcSNP226	35	TcSNP193
36	TcSNP151	37	TcSNP150	38	TcSNP144	39	TcSNP32	40	TcSNP25