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

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

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

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

Notes: 12

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: 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

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

View View all Clone Any

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	TcSNP316	15	TcSNP521
16	TcSNP860	17	TcSNP1062	18	TcSNP836	19	TcSNP878	20	TcSNP929
21	TcSNP413	22	TcSNP653	23	TcSNP1149	24	TcSNP174	25	TcSNP32
26	TcSNP372	27	TcSNP448	28	TcSNP872	29	TcSNP953	30	TcSNP1034
31	TcSNP1175	32	TcSNP1111	33	TcSNP577	34	TcSNP90	35	TcSNP998
36	TcSNP150	37	TcSNP28	38	TcSNP751	39	TcSNP1484	40	TcSNP602
41	TcSNP561	42	TcSNP894	43	TcSNP1063	44	TcSNP1126	45	TcSNP1270
46	TcSNP606	47	TcSNP329	48	TcSNP689	49	TcSNP944	50	TcSNP1242
51	TcSNP1383	52	TcSNP547	53	TcSNP776	54	TcSNP1309	55	TcSNP151
56	TcSNP1520	57	TcSNP799	58	TcSNP899	59	TcSNP226	60	TcSNP1439
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