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

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

Notes: 13

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

identical
94 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: 9

Notes: 9 > FP1

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

identical
93 shared markers

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Mars Center for Cocoa Science, Brazil

Location: Tree: 4

Notes: 4

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

identical
93 shared markers

View View all Clone Any

Mars Center for Cocoa Science, Brazil

Location: Tree: 5

Notes: 5

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

identical
93 shared markers

View View all Clone Any

Mars Center for Cocoa Science, Brazil

Location: Tree: 12

Notes: 12

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

View View all Clone Any

Mars Center for Cocoa Science, Brazil

Location: 1616 5

Dapeng Zhang, 2016

8._SC_1_[COL]

identical
40 shared markers

View View all Clone Any

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

View View all Clone Any

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	TcSNP1442	62	TcSNP193	63	TcSNP25	64	TcSNP364	65	TcSNP144
66	TcSNP230	67	TcSNP560	68	TcSNP723	69	TcSNP731	70	TcSNP701
71	TcSNP1041	72	TcSNP645	73	TcSNP917	74	Tcm003s01336581	75	Tcm003s07402719
76	Tcm001s00947643	77	Tcm006s26664133	78	Tcm002s20575712	79	TcSNP529	80	TcSNP1458
81	TcSNP60	82	TcSNP430	83	TcSNP823	84	TcSNP619	85	TcSNP994
86	TcSNP1144	87	TcSNP1156	88	TcSNP469	89	TcSNP999	90	TcSNP242
91	TcSNP1253	92	TcSNP1414	93	TcSNP154	94	TcSNP240