SNP Profiles of CC 10 View Data

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	1	2	3	4	5	6	7	8	9	10	11	12	13	14
_Input profile	AC	AC	AG	AA	AG	AG	AA	AC	AA	GG	AG	AA	AA	AC
1._CC_10_Fld#_47A_Plt#_4	AC	AC	AG	AA	AG	AG	AA	AC	AA	GG	AG	AA	AA	AC
2._CC_10_Fld#_47B_Plt#_2	AA	CC	AG	AA	AG	AG	AG	AC	AA	GG	AG	AG	AA	CC
3._CC_10	_	_	_	_	_	CT	AA	_	AA	_	_	_	_	_
4._GC-08-271-8-43	AC	AC	AG	AA	TT	CT	AA	GT	AA	CC	AG	TT	TT	GG
5._GC-08-271-8-43	AC	AC	AG	AA	_	CT	AA	GT	AA	CC	AG	TT	TT	GG
6._GC-08-271-8-43	AC	AC	AG	AA	TT	CT	AA	GT	AA	CC	AG	TT	TT	GG
7._GC-08-271-8-43	AC	AC	AG	AA	TT	CT	AA	GT	AA	CC	AG	TT	TT	GG
8._GC-08-271-8-43	AC	AC	AG	AA	TT	CT	AA	GT	AA	CC	AG	TT	TT	GG
9._CC_10	_	_	_	_	_	CT	AA	_	AA	_	_	_	_	_
10._CC_10	_	_	_	_	_	CT	AA	_	AA	_	_	_	_	_
11._CC_10	_	_	_	_	_	CT	AA	_	AA	_	_	_	_	_
12._CC_10	_	_	_	_	_	CT	AA	_	AA	_	_	_	_	_
13._CC_10	_	_	_	_	_	CT	AA	_	AA	_	_	_	_	_
14._CC_10	_	_	_	_	_	CT	AA	_	AA	_	_	_	_	_

	15	16	17	18	19	20	21	22	23	24	25	26	27	28
_Input profile	AG	AA	GG	AG	AA	GG	AA	AG	AC	AG	CG	AG	AC	AG
1._CC_10_Fld#_47A_Plt#_4	AG	AA	GG	AG	AA	GG	AA	AG	AC	AG	CG	AG	AC	AG
2._CC_10_Fld#_47B_Plt#_2	GG	AA	AG	GG	AA	GG	AG	AA	CC	GG	CC	AG	AC	AA
3._CC_10	_	GT	CC	_	AA	_	TT	_	CC	CT	CG	AG	GT	CT
4._GC-08-271-8-43	CT	GT	CC	TT	AA	GG	TT	CT	CC	CT	CG	AG	GT	CT
5._GC-08-271-8-43	CT	GT	CC	TT	AA	GG	TT	CT	CC	CT	CG	AG	GT	CT
6._GC-08-271-8-43	CT	GT	CC	TT	AA	GG	TT	CT	CC	CT	CG	AG	GT	CT
7._GC-08-271-8-43	CT	GT	CC	TT	AA	GG	TT	CT	CC	CT	CG	AG	GT	CT
8._GC-08-271-8-43	CT	GT	CC	TT	AA	GG	TT	CT	CC	CT	CG	AG	GT	CT
9._CC_10	_	GT	CC	_	AA	_	TT	_	CC	CT	CG	AG	GT	CT
10._CC_10	_	GT	CC	_	AA	_	TT	_	CC	CT	CG	AG	GT	CT
11._CC_10	_	GT	CC	_	AA	_	TT	_	CC	CT	CG	AG	GT	CT
12._CC_10	_	GT	CC	_	AA	_	TT	_	CC	CT	CG	AG	GT	CT
13._CC_10	_	GT	_	_	AA	_	TT	_	CC	CT	GG	_	GT	_
14._CC_10	_	GT	CC	_	AA	_	TT	_	CC	CT	GG	AG	GT	CT

	29	30	31	32	33	34	35	36	37	38	39	40	41	42
_Input profile	AG	AT	AG	AC	CG	AG	GG	AG	GG	CC	AT	AT	AG	AG
1._CC_10_Fld#_47A_Plt#_4	AG	AT	AG	AC	CG	AG	GG	AG	GG	CC	AT	AT	AG	AG
2._CC_10_Fld#_47B_Plt#_2	AG	TT	AG	AA	GG	AA	GG	AG	CG	CC	TT	AT	AG	GG
3._CC_10	CT	_	_	AC	CG	AG	_	_	GG	_	_	TT	_	_
4._GC-08-271-8-43	CT	AT	GG	AC	CG	AG	GG	_	GG	GG	AT	TT	AG	AG
5._GC-08-271-8-43	CT	AT	GG	AC	CG	AG	GG	CT	GG	GG	AT	TT	AG	AG
6._GC-08-271-8-43	CT	AT	GG	AC	CG	AG	GG	CT	GG	GG	AT	TT	AG	AG
7._GC-08-271-8-43	CT	AT	GG	AC	CG	AG	GG	CT	GG	GG	AT	TT	AG	AG
8._GC-08-271-8-43	CT	AT	GG	AC	CG	AG	GG	CT	GG	GG	AT	TT	AG	AG
9._CC_10	CT	_	_	AC	CG	AG	_	CT	GG	_	_	TT	_	_
10._CC_10	CT	_	_	AC	CG	AG	_	CT	GG	_	_	TT	_	_
11._CC_10	CT	_	_	AC	CG	AG	_	CT	GG	_	_	TT	_	_
12._CC_10	CT	_	_	AC	CG	AG	_	CT	GG	_	_	TT	_	_
13._CC_10	_	_	_	AC	_	AG	_	CT	GG	_	_	TT	_	_
14._CC_10	CT	_	_	AC	CG	AG	_	CT	GG	_	_	TT	_	_

	43	44	45	46	47	48	49	50	51	52	53	54	55	56
_Input profile	AT	AG	AG	AG	GG	AT	CG	AG	CC	CC	GG	AC	AA	CC
1._CC_10_Fld#_47A_Plt#_4	AT	AG	AG	AG	GG	AT	CG	AG	CC	CC	GG	AC	AA	CC
2._CC_10_Fld#_47B_Plt#_2	AT	AA	GG	GG	GG	AT	GG	AG	CC	AC	AG	AC	AA	CC
3._CC_10	AT	_	_	_	GG	_	_	_	_	CC	_	TT	_	CC
4._GC-08-271-8-43	AT	CT	AG	AG	GG	AT	CG	_	CC	CC	GG	TT	AA	CC
5._GC-08-271-8-43	AT	CT	AG	AG	GG	AT	CG	_	CC	CC	GG	TT	AA	CC
6._GC-08-271-8-43	AT	CT	AG	AG	GG	AT	CG	_	CC	CC	GG	TT	AA	CC
7._GC-08-271-8-43	AT	CT	AG	AG	GG	AT	CG	_	CC	CC	GG	TT	AA	CC
8._GC-08-271-8-43	AT	CT	AG	AG	GG	AT	CG	_	CC	CC	GG	TT	AA	CC
9._CC_10	AT	_	_	_	GG	_	_	_	_	CC	_	TT	_	CC
10._CC_10	AT	_	_	_	GG	_	_	_	_	CC	_	TT	_	CC
11._CC_10	AT	_	_	_	GG	_	_	_	_	CC	_	TT	_	CC
12._CC_10	AT	_	_	_	GG	_	_	_	_	CC	_	TT	_	CC
13._CC_10	_	_	_	_	GG	_	_	_	_	CC	_	TT	_	CC
14._CC_10	TT	_	_	_	GG	_	_	_	_	CC	_	TT	_	CC

	57	58	59	60	61	62	63	64	65	66	67	68	69	70
_Input profile	AC	AG	GG	AG	AG	AG	AC	AG	AG	AC	AC	AC	AC	CC
1._CC_10_Fld#_47A_Plt#_4	AC	AG	GG	AG	AG	AG	AC	AG	AG	AC	AC	AC	AC	CC
2._CC_10_Fld#_47B_Plt#_2	AC	GG	AG	AA	AG	AA	CC	AA	AG	AA	AA	AC	AA	CC
3._CC_10	AC	_	_	CT	_	_	GT	_	_	_	_	_	_	_
4._GC-08-271-8-43	AC	CC	CC	CT	AG	AG	GT	GG	CT	GT	GT	GT	AC	GG
5._GC-08-271-8-43	AC	CC	CC	CT	AG	AG	GT	GG	CT	GT	GT	GT	AC	GG
6._GC-08-271-8-43	AC	CC	CC	CT	AG	AG	GT	GG	CT	GT	GT	GT	AC	GG
7._GC-08-271-8-43	AC	CC	CC	CT	AG	AG	GT	GG	CT	GT	GT	GT	AC	GG
8._GC-08-271-8-43	AC	CC	CC	CT	AG	AG	GT	GG	CT	GT	GT	GT	AC	GG
9._CC_10	AC	_	_	CT	_	_	GT	_	_	_	_	_	_	_
10._CC_10	AC	_	_	CT	_	_	GT	_	_	_	_	_	_	_
11._CC_10	AC	_	_	CT	_	_	GT	_	_	_	_	_	_	_
12._CC_10	AC	_	_	CT	_	_	GT	_	_	_	_	_	_	_
13._CC_10	_	_	_	CT	_	_	GT	_	_	_	_	_	_	_
14._CC_10	AC	_	_	CT	_	_	GT	_	_	_	_	_	_	_

	71	72	73	74	75	76	77	78	79	80	81	82
_Input profile	AG	CG	GG	GG	AG	AC	AA	GG	AG	AA	AG	AG	X_X	X_X
1._CC_10_Fld#_47A_Plt#_4	AG	CG	GG	GG	AG	AC	AA	GG	AG	AA	AG	AG	X_X	X_X
2._CC_10_Fld#_47B_Plt#_2	AG	CC	GG	CG	AG	CC	AG	GG	AG	AA	AG	GG	X_X	X_X
3._CC_10	_	GG	CC	_	_	_	TT	GG	_	AA	CT	AG	X_X	X_X
4._GC-08-271-8-43	AA	GG	CC	CC	AG	AC	TT	GG	CT	AA	CT	AG	X_X	X_X
5._GC-08-271-8-43	AA	GG	CC	CC	AG	AC	TT	GG	CT	AA	CT	AG	X_X	X_X
6._GC-08-271-8-43	AA	GG	CC	CC	AG	AC	TT	GG	CT	AA	CT	AG	X_X	X_X
7._GC-08-271-8-43	AA	GG	CC	CC	AG	AC	TT	GG	CT	AA	CT	AG	X_X	X_X
8._GC-08-271-8-43	AA	GG	CC	CC	AG	AC	TT	GG	CT	AA	CT	AG	X_X	X_X
9._CC_10	_	GG	CC	_	_	_	TT	GG	_	AA	CT	AG	X_X	X_X
10._CC_10	_	GG	CC	_	_	_	TT	GG	_	AA	CT	AG	X_X	X_X
11._CC_10	_	GG	CC	_	_	_	TT	GG	_	AA	CT	AG	X_X	X_X
12._CC_10	_	GG	CC	_	_	_	TT	GG	_	AA	CT	AG	X_X	X_X
13._CC_10	_	GG	CC	_	_	_	TT	GG	_	AA	CT	AG	X_X	X_X
14._CC_10	_	GG	CC	_	_	_	TT	GG	_	AA	CT	AG	X_X	X_X

Input profile: CC_10 CC_10_Fld#_47_Plt#_5

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USDA-TARS, United States of America

Location: Field: 47, Tree: 5

Notes: TARS_Cacao_collection

1._CC_10 CC_10_Fld#_47A_Plt#_4

identical
82 shared markers

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USDA-TARS, United States of America

Location: Field: 47A, Tree: 4

2._CC_10 CC_10_Fld#_47B_Plt#_2

75 %
82 shared markers

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USDA-TARS, United States of America

Location: Field: 47B, Tree: 2

3._CC_10

54.4 %
34 shared markers

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Mars Center for Cocoa Science, Brazil

Location: 8843 2

Dapeng Zhang, 2016

4._CC_10 GC-08-271-8-43

53.8 %
80 shared markers

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Mars Center for Cocoa Science, Brazil

Location: Tree: 2

Notes: 2

5._CC_10 GC-08-271-8-43

53.8 %
80 shared markers

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Mars Center for Cocoa Science, Brazil

Location: Tree: 9

Notes: Dead

6._CC_10 GC-08-271-8-43

53.1 %
81 shared markers

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Mars Center for Cocoa Science, Brazil

Location: Tree: 1

Notes: 1

7._CC_10 GC-08-271-8-43

53.1 %
81 shared markers

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Mars Center for Cocoa Science, Brazil

Location: Tree: 5

Notes: 5

8._CC_10 GC-08-271-8-43

53.1 %
81 shared markers

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Mars Center for Cocoa Science, Brazil

Location: Tree: 7

Notes: Dead

9._CC_10

52.9 %
35 shared markers

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Mars Center for Cocoa Science, Brazil

Location: 8843 9

Dapeng Zhang, 2016

10._CC_10

52.9 %
35 shared markers

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Mars Center for Cocoa Science, Brazil

Location: 8843 7

Dapeng Zhang, 2016

11._CC_10

52.9 %
35 shared markers

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Mars Center for Cocoa Science, Brazil

Location: 8843 5

Dapeng Zhang, 2016

12._CC_10

52.9 %
35 shared markers

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Mars Center for Cocoa Science, Brazil

Location: 8843 1

Dapeng Zhang, 2016

Population Assignment:

Dapeng Zhang, 2016

13._CC_10

50 %
28 shared markers

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

Location: Cabiria

Dapeng Zhang, 2016

14._CC_10

50 %
35 shared markers

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Malaysian Cocoa Board (MCB), Malaysia

Location: Trial 1/Rep 1 45

Dapeng Zhang, 2016

Key to SNP Markers

Key to SNP Markers

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