SNP Profiles of SC 1 [COL] View Data

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	1	2	3	4	5	6	7	8	9	10	11	12	13	14
_Input profile	AA	AA	CT	CC	AG	AG	CT	CC	CT	CT	GG	CT	CC	CT
1._GC-01-119-6-16	AA	AA	CT	CC	AG	AG	CT	CC	CT	CT	GG	CT	CC	CT
2._GC-01-119-6-16	AA	AA	CT	CC	AG	AG	CT	CC	CT	CT	GG	CT	CC	CT
3._GC-01-119-6-16	AA	AA	CT	CC	AG	AG	CT	CC	CT	CT	GG	CT	CC	CT
4._GC-01-119-6-16	AA	AA	CT	CC	AG	AG	CT	CC	CT	CT	GG	CT	CC	_
5._GC-01-119-6-16	AA	AA	CT	CC	AG	AG	CT	CC	CT	CT	GG	CT	CC	CT
6._SC_1_[COL]	AA	AA	CT	CC	_	_	_	_	CT	CT	GG	_	CC	_
7._SC_1_[COL]	AA	AA	CT	CC	_	_	_	_	CT	CT	GG	_	CC	_
8._SC_1_[COL]	AA	AA	CT	CC	_	_	_	_	CT	CT	GG	_	CC	_
9._SC_1_[COL]	AA	AA	CT	CC	_	_	_	_	CT	CT	GG	_	CC	_
10._SC_1_[COL]	AA	AA	CT	CC	_	_	_	_	CT	CT	GG	_	CC	_
11._SC_1_[COL]	AA	AA	CT	CC	_	_	_	_	CT	CT	GG	_	CC	_
12._RUQ_41	AA	AA	CT	CC	_	_	_	_	CT	CT	GG	_	CC	_
13._SC_1_[COL]	AA	AA	CT	CC	_	_	_	_	CT	CT	GG	_	CC	_
14._SC_1_[COL]	AA	AA	CT	CC	_	_	_	_	CT	CT	GG	_	CC	_

	15	16	17	18	19	20	21	22	23	24	25	26	27	28
_Input profile	AT	CC	AA	AA	GG	CG	GG	CT	AG	TT	AG	AT	AT	CG
1._GC-01-119-6-16	AT	CC	AA	AA	GG	CG	GG	CT	AG	TT	AG	AT	AT	CG
2._GC-01-119-6-16	AT	CC	AA	AA	GG	CG	GG	CT	AG	TT	AG	AT	AT	CG
3._GC-01-119-6-16	AT	CC	AA	AA	GG	CG	GG	CT	AG	TT	AG	AT	AT	CG
4._GC-01-119-6-16	AT	CC	AA	AA	GG	CG	GG	CT	AG	TT	AG	AT	AT	CG
5._GC-01-119-6-16	AT	CC	AA	AA	GG	CG	GG	CT	AG	TT	AG	AT	AT	CG
6._SC_1_[COL]	_	_	_	AA	_	_	GG	_	_	_	_	AT	AT	_
7._SC_1_[COL]	_	_	_	AA	_	_	GG	_	_	_	_	AT	AT	_
8._SC_1_[COL]	_	_	_	AA	_	_	GG	_	_	_	_	AT	AT	_
9._SC_1_[COL]	_	_	_	AA	_	_	GG	_	_	_	_	AT	AT	_
10._SC_1_[COL]	_	_	_	AA	_	_	GG	_	_	_	_	AT	AT	_
11._SC_1_[COL]	_	_	_	AA	_	_	GG	_	_	_	_	AT	AT	_
12._RUQ_41	_	_	_	AA	_	_	GG	_	_	_	_	AT	AT	_
13._SC_1_[COL]	_	_	_	AA	_	_	GG	_	_	_	_	AT	AT	_
14._SC_1_[COL]	_	_	_	AA	_	_	GG	_	_	_	_	AT	AT	_

	29	30	31	32	33	34	35	36	37	38	39	40	41	42
_Input profile	GG	AA	CT	GT	AG	CG	AC	AA	GT	GG	GT	AG	CT	AA
1._GC-01-119-6-16	GG	AA	CT	GT	AG	CG	AC	AA	GT	GG	GT	AG	CT	AA
2._GC-01-119-6-16	GG	AA	CT	GT	AG	CG	AC	AA	GT	GG	GT	AG	CT	AA
3._GC-01-119-6-16	GG	AA	CT	GT	AG	CG	AC	AA	GT	GG	GT	AG	CT	AA
4._GC-01-119-6-16	GG	AA	CT	GT	AG	CG	AC	AA	GT	GG	GT	AG	CT	AA
5._GC-01-119-6-16	GG	AA	CT	GT	AG	CG	AC	AA	GT	GG	GT	AG	CT	AA
6._SC_1_[COL]	GG	AA	_	_	_	CG	_	AA	GT	_	_	AG	_	_
7._SC_1_[COL]	GG	AA	_	_	_	CG	_	AA	GT	_	_	AG	_	_
8._SC_1_[COL]	GG	AA	_	_	_	CG	_	AA	GT	_	_	AG	_	_
9._SC_1_[COL]	GG	AA	_	_	_	CG	_	AA	GT	_	_	AG	_	_
10._SC_1_[COL]	GG	AA	_	_	_	CG	_	AA	GT	_	_	AG	_	_
11._SC_1_[COL]	GG	AA	_	_	_	CG	_	AA	GT	_	_	AG	_	_
12._RUQ_41	GG	AA	_	_	_	CG	_	AA	GT	_	_	AG	_	_
13._SC_1_[COL]	GG	AA	_	_	_	CG	_	AA	GT	_	_	AG	_	_
14._SC_1_[COL]	GG	AA	_	_	_	CG	_	AA	GT	_	_	AG	_	_

	43	44	45	46	47	48	49	50	51	52	53	54	55	56
_Input profile	CC	GT	AT	CC	AG	AG	AG	CT	CC	GG	GG	GT	TT	CT
1._GC-01-119-6-16	CC	GT	AT	CC	AG	AG	AG	CT	CC	GG	GG	GT	TT	CT
2._GC-01-119-6-16	CC	GT	_	CC	AG	AG	AG	CT	CC	GG	GG	GT	TT	CT
3._GC-01-119-6-16	CC	GT	AT	CC	AG	AG	AG	CT	CC	GG	GG	GT	TT	CT
4._GC-01-119-6-16	CC	GT	AT	CC	AG	AG	AG	CT	CC	GG	GG	GT	TT	CT
5._GC-01-119-6-16	CC	GT	AT	CC	AG	AG	AG	CT	CC	GG	GG	GT	TT	CT
6._SC_1_[COL]	_	_	_	CC	_	_	_	_	_	_	_	_	_	CT
7._SC_1_[COL]	_	_	_	CC	_	_	_	_	_	_	_	_	_	CT
8._SC_1_[COL]	_	_	_	CC	_	_	_	_	_	_	_	_	_	CT
9._SC_1_[COL]	_	_	_	CC	_	_	_	_	_	_	_	_	_	CT
10._SC_1_[COL]	_	_	_	CC	_	_	_	_	_	_	_	_	_	CT
11._SC_1_[COL]	_	_	_	CC	_	_	_	_	_	_	_	_	_	CT
12._RUQ_41	_	_	_	CC	_	_	_	_	_	_	_	_	_	CT
13._SC_1_[COL]	_	_	_	CC	_	_	_	_	_	_	_	_	_	CT
14._SC_1_[COL]	_	_	_	CC	_	_	_	_	_	_	_	_	_	CT

	57	58	59	60	61	62	63	64	65	66	67	68	69	70
_Input profile	CT	GT	GG	CG	CT	CT	AC	GG	AG	AC	AG	GT	GT	AG
1._GC-01-119-6-16	CT	GT	GG	CG	CT	CT	AC	GG	AG	AC	AG	GT	GT	AG
2._GC-01-119-6-16	CT	GT	GG	CG	CT	CT	AC	GG	AG	AC	AG	GT	GT	AG
3._GC-01-119-6-16	CT	GT	GG	CG	CT	CT	AC	GG	AG	AC	AG	GT	GT	AG
4._GC-01-119-6-16	CT	GT	GG	CG	CT	CT	AC	GG	AG	AC	AG	GT	GT	AG
5._GC-01-119-6-16	CT	GT	GG	CG	_	CT	AC	GG	AG	AC	AG	GT	GT	AG
6._SC_1_[COL]	CT	_	_	CG	_	CT	AC	GG	_	AC	AG	GT	GT	_
7._SC_1_[COL]	CT	_	_	CG	_	CT	AC	GG	_	AC	AG	GT	GT	_
8._SC_1_[COL]	CT	_	_	CG	_	CT	AC	GG	_	AC	AG	GT	GT	_
9._SC_1_[COL]	CT	_	_	CG	_	CT	AC	GG	_	AC	AG	GT	GT	_
10._SC_1_[COL]	CT	_	_	CG	_	CT	AC	GG	_	AC	AG	GT	GT	_
11._SC_1_[COL]	CT	_	_	CG	_	CT	AC	GG	_	AC	AG	GT	GT	_
12._RUQ_41	CT	_	_	CG	_	CT	AC	GG	_	AC	AG	GT	GT	_
13._SC_1_[COL]	CT	_	_	CG	_	CT	AC	GG	_	AC	AG	GT	GT	_
14._SC_1_[COL]	CT	_	_	CG	_	CT	AC	GG	_	AC	AG	GT	GT	_

	71	72	73	74	75	76	77	78	79	80	81	82	83	84
_Input profile	CT	CC	GG	TT	AC	AG	AC	AA	AG	CC	CG	CT	AT	CC
1._GC-01-119-6-16	CT	CC	GG	TT	AC	AG	AC	AA	AG	CC	CG	CT	AT	CC
2._GC-01-119-6-16	CT	CC	GG	TT	AC	AG	AC	AA	AG	CC	CG	CT	AT	CC
3._GC-01-119-6-16	CT	CC	GG	TT	AC	AG	AC	AA	AG	CC	CG	CT	AT	CC
4._GC-01-119-6-16	CT	CC	GG	TT	AC	AG	AC	AA	AG	CC	CG	CT	AT	CC
5._GC-01-119-6-16	CT	CC	GG	TT	AC	AG	AC	AA	AG	CC	CG	CT	AT	CC
6._SC_1_[COL]	_	_	GG	TT	_	_	_	_	_	CC	CG	_	_	_
7._SC_1_[COL]	_	_	GG	TT	_	_	_	_	_	CC	CG	_	_	_
8._SC_1_[COL]	_	_	GG	TT	_	_	_	_	_	CC	CG	_	_	_
9._SC_1_[COL]	_	_	GG	TT	_	_	_	_	_	CC	CG	_	_	_
10._SC_1_[COL]	_	_	GG	TT	_	_	_	_	_	CC	CG	_	_	_
11._SC_1_[COL]	_	_	GG	TT	_	_	_	_	_	CC	CG	_	_	_
12._RUQ_41	_	_	AG	TT	_	_	_	_	_	CC	_	_	_	_
13._SC_1_[COL]	_	_	AG	TT	_	_	_	_	_	CC	GG	_	_	_
14._SC_1_[COL]	_	_	AG	TT	_	_	_	_	_	CC	GG	_	_	_

	85	86	87	88	89	90	91	92	93	94	95
_Input profile	CT	CT	CT	TT	AG	CT	CT	GT	TT	AT	GG	X_X	X_X	X_X
1._GC-01-119-6-16	CT	CT	CT	TT	AG	CT	CT	GT	TT	AT	GG	X_X	X_X	X_X
2._GC-01-119-6-16	CT	CT	CT	TT	AG	CT	CT	GT	TT	AT	GG	X_X	X_X	X_X
3._GC-01-119-6-16	CT	CT	CT	_	AG	CT	CT	GT	TT	AT	GG	X_X	X_X	X_X
4._GC-01-119-6-16	CT	CT	CT	TT	AG	CT	CT	GT	TT	AT	GG	X_X	X_X	X_X
5._GC-01-119-6-16	CT	CT	CT	TT	AG	CT	CT	GT	TT	AT	GG	X_X	X_X	X_X
6._SC_1_[COL]	CT	CT	CT	_	AG	_	CT	GT	TT	_	_	X_X	X_X	X_X
7._SC_1_[COL]	CT	CT	CT	_	AG	_	CT	GT	TT	_	_	X_X	X_X	X_X
8._SC_1_[COL]	CT	CT	CT	_	AG	_	CT	GT	TT	_	_	X_X	X_X	X_X
9._SC_1_[COL]	CT	CT	CT	_	AG	_	CT	GT	TT	_	_	X_X	X_X	X_X
10._SC_1_[COL]	CT	CT	CT	_	AG	_	CT	GT	TT	_	_	X_X	X_X	X_X
11._SC_1_[COL]	CT	CT	CT	_	AG	_	CT	GT	TT	_	_	X_X	X_X	X_X
12._RUQ_41	CT	CT	CT	_	AG	_	CT	GT	TT	_	_	X_X	X_X	X_X
13._SC_1_[COL]	CT	CT	CT	_	AG	_	CT	GT	TT	_	_	X_X	X_X	X_X
14._SC_1_[COL]	CT	CT	CT	_	AG	_	CT	GT	TT	_	_	X_X	X_X	X_X

Input profile: SC_1_[COL] GC-01-119-6-16

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Mars Center for Cocoa Science, Brazil

Location: Tree: 9

Notes: 9 > FP1

1._SC_1_[COL] GC-01-119-6-16

identical
95 shared markers

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Mars Center for Cocoa Science, Brazil

Location: Tree: 2

Notes: 2 > FP2

2._SC_1_[COL] GC-01-119-6-16

identical
94 shared markers

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Mars Center for Cocoa Science, Brazil

Location: Tree: 4

Notes: 4

3._SC_1_[COL] GC-01-119-6-16

identical
94 shared markers

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Mars Center for Cocoa Science, Brazil

Location: Tree: 5

Notes: 5

4._SC_1_[COL] GC-01-119-6-16

identical
94 shared markers

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Mars Center for Cocoa Science, Brazil

Location: Tree: 12

Notes: 12

5._SC_1_[COL] GC-01-119-6-16

identical
94 shared markers

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Mars Center for Cocoa Science, Brazil

Location: Tree: 13

Notes: 13

6._SC_1_[COL]

identical
40 shared markers

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Mars Center for Cocoa Science, Brazil

Location: 1616 4

Dapeng Zhang, 2016

Population Assignment:

Dapeng Zhang, 2016

7._SC_1_[COL]

identical
40 shared markers

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Mars Center for Cocoa Science, Brazil

Location: 1616 5

Dapeng Zhang, 2016

8._SC_1_[COL]

identical
40 shared markers

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Mars Center for Cocoa Science, Brazil

Location: 1616 12

Dapeng Zhang, 2016

9._SC_1_[COL]

identical
40 shared markers

View View all Clone Any

Mars Center for Cocoa Science, Brazil

Location: 1616 13

Dapeng Zhang, 2016

10._SC_1_[COL]

identical
40 shared markers

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Mars Center for Cocoa Science, Brazil

Location: 1616 2 > FP

Dapeng Zhang, 2016

11._SC_1_[COL]

identical
40 shared markers

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Mars Center for Cocoa Science, Brazil

Location: 1616 9 > FP

Dapeng Zhang, 2016

12._SC_1_[COL] RUQ_41

98.7 %
39 shared markers

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

Dapeng Zhang, 2016

13._SC_1_[COL]

97.5 %
40 shared markers

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

Location: 4A C274 T1

Dapeng Zhang, 2016

14._SC_1_[COL]

97.5 %
40 shared markers

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

Location: 4A C319 T2

Dapeng Zhang, 2016

Key to SNP Markers

Key to SNP Markers

1	TcSNP1075	2	TcSNP1350	3	TcSNP534	4	TcSNP591	5	TcSNP42
6	TcSNP418	7	TcSNP702	8	TcSNP1096	9	TcSNP1060	10	TcSNP1165
11	TcSNP429	12	TcSNP75	13	TcSNP891	14	TcSNP122	15	TcSNP316
16	TcSNP521	17	TcSNP860	18	TcSNP1062	19	TcSNP836	20	TcSNP878
21	TcSNP929	22	TcSNP413	23	TcSNP653	24	TcSNP1149	25	TcSNP174
26	TcSNP32	27	TcSNP372	28	TcSNP448	29	TcSNP872	30	TcSNP953
31	TcSNP1034	32	TcSNP1175	33	TcSNP1111	34	TcSNP577	35	TcSNP90
36	TcSNP998	37	TcSNP150	38	TcSNP28	39	TcSNP751	40	TcSNP1484
41	TcSNP602	42	TcSNP561	43	TcSNP894	44	TcSNP1063	45	TcSNP1126
46	TcSNP1270	47	TcSNP606	48	TcSNP329	49	TcSNP689	50	TcSNP944
51	TcSNP1242	52	TcSNP1383	53	TcSNP547	54	TcSNP776	55	TcSNP1309
56	TcSNP151	57	TcSNP1520	58	TcSNP799	59	TcSNP899	60	TcSNP226
61	TcSNP1439	62	TcSNP1442	63	TcSNP193	64	TcSNP25	65	TcSNP364
66	TcSNP144	67	TcSNP230	68	TcSNP560	69	TcSNP723	70	TcSNP731
71	TcSNP701	72	TcSNP1041	73	TcSNP645	74	TcSNP917	75	Tcm003s01336581
76	Tcm003s07402719	77	Tcm001s00947643	78	Tcm006s26664133	79	Tcm002s20575712	80	TcSNP529
81	TcSNP1458	82	TcSNP60	83	TcSNP430	84	TcSNP823	85	TcSNP619
86	TcSNP994	87	TcSNP1144	88	TcSNP1156	89	TcSNP469	90	TcSNP999
91	TcSNP242	92	TcSNP1253	93	TcSNP1414	94	TcSNP154	95	TcSNP240