SNP Profiles of LCT EEN 280 View Data

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	1	2	3	4	5	6	7	8	9	10	11	12	13	14
_Input profile	AA	AA	CC	CC	AA	GG	TT	CC	CC	TT	AA	CC	TT	CT
1._LCT_EEN_280	AA	AA	CC	CC	_	_	_	_	CC	TT	AA	_	TT	_
2._LCT_EEN_280	AA	AA	CC	CC	_	_	_	_	CC	TT	AA	_	TT	_
3._LCT_EEN_280	AA	AA	CC	CC	_	_	_	_	CC	TT	AA	_	TT	_
4._LCT_EEN_280	AA	AA	CC	CC	_	_	_	_	CC	TT	AA	_	TT	_
5._LCT_EEN_280	AA	AA	CC	CC	_	_	_	_	CC	TT	AA	_	TT	_
6._LCT_EEN_280	AA	AA	CC	CC	_	_	_	_	CC	TT	AA	_	TT	_
7._LCT_EEN_280	AA	AA	CC	CC	_	_	_	_	CC	TT	AA	_	TT	_
8._LCT_EEN_280	AA	AA	CC	CC	_	_	_	_	CC	TT	AA	_	TT	_
9._GC-08-070-1-92	AA	AA	CC	CC	AA	GG	TT	CC	CC	TT	AA	CC	TT	CT
10._GC-08-070-1-92	AA	AA	CC	CC	AA	GG	TT	CC	CC	TT	AA	CC	TT	CT
11._GC-08-070-1-92	AA	AA	CC	CC	AA	GG	TT	CC	CC	TT	AA	CC	TT	CT
12._GC-08-070-1-92	AA	AA	CC	CC	AA	GG	TT	CC	CC	TT	AA	CC	TT	CT
13._GC-08-070-1-92	AA	AA	CC	CC	AA	GG	TT	CC	CC	TT	AA	CC	TT	CT
14._GC-08-070-1-92	AA	AA	CC	CC	AA	GG	TT	CC	CC	TT	AA	CC	TT	CT
15._GC-08-070-1-92	AA	AA	CC	CC	AA	_	TT	CC	CC	TT	AA	_	TT	CT
16._LCT_EEN_280	AA	AC	CC	CC	_	_	_	_	CC	TT	AA	_	TT	_

	15	16	17	18	19	20	21	22	23	24	25	26	27	28
_Input profile	TT	AC	GG	CC	GG	CG	CC	AA	TT	AG	AA	TT	CG	CG
1._LCT_EEN_280	_	_	GG	_	_	CG	_	_	_	_	AA	TT	_	CG
2._LCT_EEN_280	_	_	GG	_	_	CG	_	_	_	_	AA	TT	_	CG
3._LCT_EEN_280	_	_	GG	_	_	CG	_	_	_	_	AA	TT	_	CG
4._LCT_EEN_280	_	_	GG	_	_	CG	_	_	_	_	AA	TT	_	CG
5._LCT_EEN_280	_	_	GG	_	_	CG	_	_	_	_	AA	TT	_	CG
6._LCT_EEN_280	_	_	GG	_	_	CG	_	_	_	_	AA	TT	_	CG
7._LCT_EEN_280	_	_	GG	_	_	CG	_	_	_	_	AA	TT	_	CG
8._LCT_EEN_280	_	_	GG	_	_	CG	_	_	_	_	AA	TT	_	CG
9._GC-08-070-1-92	TT	AC	GG	CC	GG	CG	CC	AA	TT	AG	AA	TT	CG	CG
10._GC-08-070-1-92	TT	AC	GG	CC	GG	CG	CC	AA	TT	AG	AA	TT	CG	CG
11._GC-08-070-1-92	TT	AC	GG	CC	GG	CG	CC	AA	TT	AG	AA	TT	CG	CG
12._GC-08-070-1-92	TT	AC	GG	CC	GG	CG	CC	AA	TT	AG	AA	TT	CG	CG
13._GC-08-070-1-92	TT	AC	GG	CC	GG	CG	CC	AA	TT	AG	AA	TT	CG	CG
14._GC-08-070-1-92	TT	AC	GG	CC	GG	CG	CC	AA	TT	AG	AA	TT	CG	CG
15._GC-08-070-1-92	TT	AC	GG	CC	GG	CG	CT	AA	TT	AG	AA	TT	CG	CG
16._LCT_EEN_280	_	_	GG	_	_	CG	_	_	_	_	AA	TT	_	CG

	29	30	31	32	33	34	35	36	37	38	39	40	41	42
_Input profile	AA	TT	TT	AG	GG	CC	AA	GG	GG	GT	GG	CC	GG	CC
1._LCT_EEN_280	AA	_	_	_	GG	_	AA	GG	_	_	GG	_	_	_
2._LCT_EEN_280	AA	_	_	_	GG	_	AA	GG	_	_	GG	_	_	_
3._LCT_EEN_280	AA	_	_	_	GG	_	AA	GG	_	_	GG	_	_	_
4._LCT_EEN_280	AA	_	_	_	GG	_	AA	GG	_	_	GG	_	_	_
5._LCT_EEN_280	AA	_	_	_	GG	_	AA	GG	_	_	GG	_	_	_
6._LCT_EEN_280	AA	_	_	_	GG	_	AA	GG	_	_	GG	_	_	_
7._LCT_EEN_280	AA	_	_	_	GG	_	AA	GG	_	_	GG	_	_	_
8._LCT_EEN_280	AA	_	_	_	GG	_	AA	GG	_	_	GG	_	_	_
9._GC-08-070-1-92	AA	TT	TT	AG	GG	CC	AA	GG	GG	TT	GG	CC	GG	CC
10._GC-08-070-1-92	AA	TT	TT	AG	GG	CC	AA	GG	GG	TT	GG	CC	GG	CC
11._GC-08-070-1-92	AA	TT	TT	AG	GG	CC	AA	GG	GG	TT	GG	CC	GG	CC
12._GC-08-070-1-92	AA	TT	TT	AG	GG	CC	AA	GG	GG	TT	GG	CC	GG	CC
13._GC-08-070-1-92	AA	TT	TT	AG	GG	CC	AA	GG	GG	TT	GG	CC	GG	CC
14._GC-08-070-1-92	AA	TT	TT	AG	GG	CC	AA	GG	GG	TT	GG	CC	GG	CC
15._GC-08-070-1-92	AA	TT	TT	AG	GG	CC	AA	GG	GG	TT	GG	CC	GG	CC
16._LCT_EEN_280	AA	_	_	_	GG	_	AA	GG	_	_	GG	_	_	_

	43	44	45	46	47	48	49	50	51	52	53	54	55	56
_Input profile	GG	TT	TT	AG	AA	AA	CC	AA	GG	GG	TT	TT	TT	CC
1._LCT_EEN_280	_	_	TT	_	_	_	_	_	_	_	_	_	TT	CC
2._LCT_EEN_280	_	_	TT	_	_	_	_	_	_	_	_	_	TT	CC
3._LCT_EEN_280	_	_	TT	_	_	_	_	_	_	_	_	_	TT	CC
4._LCT_EEN_280	_	_	TT	_	_	_	_	_	_	_	_	_	TT	CC
5._LCT_EEN_280	_	_	TT	_	_	_	_	_	_	_	_	_	TT	CC
6._LCT_EEN_280	_	_	TT	_	_	_	_	_	_	_	_	_	TT	CC
7._LCT_EEN_280	_	_	TT	_	_	_	_	_	_	_	_	_	TT	CC
8._LCT_EEN_280	_	_	TT	_	_	_	_	_	_	_	_	_	TT	CC
9._GC-08-070-1-92	GG	TT	TT	AG	AA	AA	CC	AA	GG	GG	TT	TT	TT	CC
10._GC-08-070-1-92	GG	TT	TT	AG	AA	AA	CC	AA	GG	GG	TT	TT	TT	CC
11._GC-08-070-1-92	GG	TT	TT	AG	AA	AA	CC	AA	GG	GG	TT	TT	TT	CC
12._GC-08-070-1-92	GG	TT	TT	AG	AA	AA	CC	AA	GG	GG	TT	TT	TT	CC
13._GC-08-070-1-92	GG	TT	TT	AG	AA	AA	CC	AA	GG	GG	TT	TT	TT	CC
14._GC-08-070-1-92	GG	TT	TT	AG	AA	AA	CC	AA	GG	GG	TT	TT	TT	CC
15._GC-08-070-1-92	GG	TT	TT	AG	AA	AA	CC	AA	GG	GG	TT	TT	TT	CC
16._LCT_EEN_280	_	_	TT	_	_	_	_	_	_	_	_	_	TT	CC

	57	58	59	60	61	62	63	64	65	66	67	68	69	70
_Input profile	TT	GG	CC	CC	TT	CC	GG	AA	AC	AG	GG	GG	AA	CC
1._LCT_EEN_280	_	_	CC	_	TT	CC	GG	_	AC	AG	GG	GG	_	_
2._LCT_EEN_280	_	_	CC	_	TT	CC	GG	_	AC	AG	GG	GG	_	_
3._LCT_EEN_280	_	_	CC	_	TT	CC	GG	_	AC	AG	GG	GG	_	_
4._LCT_EEN_280	_	_	CC	_	TT	CC	GG	_	AC	AG	GG	GG	_	_
5._LCT_EEN_280	_	_	CC	_	TT	CC	GG	_	AC	AG	GG	GG	_	_
6._LCT_EEN_280	_	_	CC	_	TT	CC	GG	_	AC	AG	GG	GG	_	_
7._LCT_EEN_280	_	_	CC	_	TT	CC	GG	_	AC	AG	GG	GG	_	_
8._LCT_EEN_280	_	_	CC	_	TT	CC	GG	_	AC	AG	GG	GG	_	_
9._GC-08-070-1-92	TT	GG	CC	CC	TT	CC	GG	AA	AC	AG	GG	GG	AA	CC
10._GC-08-070-1-92	TT	GG	CC	CC	TT	CC	GG	AA	AC	AG	GG	GG	AA	CC
11._GC-08-070-1-92	TT	GG	CC	CC	TT	CC	GG	AA	AC	AG	GG	GG	AA	CC
12._GC-08-070-1-92	TT	GG	CC	CC	TT	CC	GG	AA	AC	AG	GG	GG	AA	CC
13._GC-08-070-1-92	TT	GG	CC	CC	TT	CC	GG	AA	AC	AG	GG	GG	AA	CC
14._GC-08-070-1-92	TT	GG	CC	CC	TT	CC	GG	AA	AC	AG	GG	GG	AA	CC
15._GC-08-070-1-92	TT	GG	CC	CC	TT	CC	GG	AA	AC	AG	GG	GG	AA	CC
16._LCT_EEN_280	_	_	_	_	TT	CC	GG	_	AC	AG	GG	GG	_	_

	71	72	73	74	75	76	77	78	79	80	81	82	83	84
_Input profile	CC	TT	CC	GG	AA	CC	GG	AA	CC	CC	AA	CC	CT	CT
1._LCT_EEN_280	_	TT	_	_	_	_	_	AA	CC	_	_	_	CT	CT
2._LCT_EEN_280	_	TT	_	_	_	_	_	AA	CC	_	_	_	CT	CT
3._LCT_EEN_280	_	TT	_	_	_	_	_	AA	CC	_	_	_	CT	CT
4._LCT_EEN_280	_	TT	_	_	_	_	_	AA	CC	_	_	_	CT	CT
5._LCT_EEN_280	_	TT	_	_	_	_	_	AA	CC	_	_	_	CT	CT
6._LCT_EEN_280	_	TT	_	_	_	_	_	AA	CC	_	_	_	CT	CT
7._LCT_EEN_280	_	TT	_	_	_	_	_	AA	CC	_	_	_	CT	CT
8._LCT_EEN_280	_	TT	_	_	_	_	_	AA	CC	_	_	_	CT	CT
9._GC-08-070-1-92	CC	TT	CC	GG	AA	CC	GG	AA	CC	CC	AA	CC	CT	CT
10._GC-08-070-1-92	CC	TT	CC	GG	AA	CC	GG	AA	CC	CC	AA	CC	CT	CT
11._GC-08-070-1-92	CC	TT	CC	GG	AA	CC	GG	AA	CC	CC	AA	CC	CT	CT
12._GC-08-070-1-92	CC	TT	CC	GG	AA	CC	GG	AA	CC	CC	AA	CC	CT	CT
13._GC-08-070-1-92	CC	TT	CC	GG	AA	CC	GG	AA	CC	CC	AA	CC	CT	CT
14._GC-08-070-1-92	CC	TT	CC	GG	AA	CC	GG	AA	CC	CC	AA	CC	CT	CT
15._GC-08-070-1-92	CC	TT	CC	GG	AA	CC	GG	AA	CC	CC	AA	CC	CT	CT
16._LCT_EEN_280	_	TT	_	_	_	_	_	AA	CC	_	_	_	CT	CT

	85	86	87	88	89	90	91	92	93
_Input profile	CC	CT	GG	CC	CC	GG	TT	TT	GG	X_X	X_X	X_X	X_X	X_X
1._LCT_EEN_280	CC	_	GG	_	CC	GG	TT	_	_	X_X	X_X	X_X	X_X	X_X
2._LCT_EEN_280	CC	_	GG	_	CC	GG	TT	_	_	X_X	X_X	X_X	X_X	X_X
3._LCT_EEN_280	CC	_	GG	_	CC	GG	TT	_	_	X_X	X_X	X_X	X_X	X_X
4._LCT_EEN_280	CC	_	GG	_	CC	GG	TT	_	_	X_X	X_X	X_X	X_X	X_X
5._LCT_EEN_280	CC	_	GG	_	CC	GG	TT	_	_	X_X	X_X	X_X	X_X	X_X
6._LCT_EEN_280	CC	_	GG	_	CC	GG	TT	_	_	X_X	X_X	X_X	X_X	X_X
7._LCT_EEN_280	CC	_	GG	_	CC	GG	TT	_	_	X_X	X_X	X_X	X_X	X_X
8._LCT_EEN_280	CC	_	GG	_	CC	GG	TT	_	_	X_X	X_X	X_X	X_X	X_X
9._GC-08-070-1-92	CC	CT	GG	CC	CC	GG	TT	TT	GG	X_X	X_X	X_X	X_X	X_X
10._GC-08-070-1-92	CC	CT	GG	CC	CC	GG	TT	TT	GG	X_X	X_X	X_X	X_X	X_X
11._GC-08-070-1-92	CC	CT	GG	CC	CC	GG	TT	TT	GG	X_X	X_X	X_X	X_X	X_X
12._GC-08-070-1-92	CC	CT	GG	CC	CC	GG	TT	TT	GG	X_X	X_X	X_X	X_X	X_X
13._GC-08-070-1-92	CC	CT	GG	CC	CC	GG	TT	TT	GG	X_X	X_X	X_X	X_X	X_X
14._GC-08-070-1-92	CC	CT	GG	CC	CC	GG	TT	TT	GG	X_X	X_X	X_X	X_X	X_X
15._GC-08-070-1-92	CC	CT	GG	CC	CC	GG	TT	TT	GG	X_X	X_X	X_X	X_X	X_X
16._LCT_EEN_280	CC	_	GG	_	CC	GG	TT	_	_	X_X	X_X	X_X	X_X	X_X

Input profile: LCT_EEN_280 GC-08-070-1-92

View View all Clone Any

Mars Center for Cocoa Science, Brazil

Location: Tree: 9

Notes: 9 > FP4

1._LCT_EEN_280

identical
39 shared markers

View View all Clone Any

Mars Center for Cocoa Science, Brazil

Location: 8192 9 > FP

Dapeng Zhang, 2016

2._LCT_EEN_280

identical
39 shared markers

View View all Clone Any

Mars Center for Cocoa Science, Brazil

Location: 8192 6 > FP

Dapeng Zhang, 2016

3._LCT_EEN_280

identical
39 shared markers

View View all Clone Any

Mars Center for Cocoa Science, Brazil

Location: 8192 2 > FP

Dapeng Zhang, 2016

4._LCT_EEN_280

identical
39 shared markers

View View all Clone Any

Mars Center for Cocoa Science, Brazil

Location: 8192 1 > FP

Dapeng Zhang, 2016

5._LCT_EEN_280

identical
39 shared markers

View View all Clone Any

Mars Center for Cocoa Science, Brazil

Location: 8192 11

Dapeng Zhang, 2016

6._LCT_EEN_280

identical
39 shared markers

View View all Clone Any

Mars Center for Cocoa Science, Brazil

Location: 8192 10

Dapeng Zhang, 2016

7._LCT_EEN_280

identical
39 shared markers

View View all Clone Any

Mars Center for Cocoa Science, Brazil

Location: 8192 7

Dapeng Zhang, 2016

8._LCT_EEN_280

identical
39 shared markers

View View all Clone Any

Mars Center for Cocoa Science, Brazil

Location: 8192 5

Dapeng Zhang, 2016

Population Assignment:

Dapeng Zhang, 2016

9._LCT_EEN_280 GC-08-070-1-92

99.5 %
93 shared markers

View View all Clone Any

Mars Center for Cocoa Science, Brazil

Location: Tree: 2

Notes: 2 > FP2

10._LCT_EEN_280 GC-08-070-1-92

99.5 %
93 shared markers

View View all Clone Any

Mars Center for Cocoa Science, Brazil

Location: Tree: 5

Notes: 5

11._LCT_EEN_280 GC-08-070-1-92

99.5 %
93 shared markers

View View all Clone Any

Mars Center for Cocoa Science, Brazil

Location: Tree: 6

Notes: 6 > FP3

12._LCT_EEN_280 GC-08-070-1-92

99.5 %
93 shared markers

View View all Clone Any

Mars Center for Cocoa Science, Brazil

Location: Tree: 7

Notes: 7

13._LCT_EEN_280 GC-08-070-1-92

99.5 %
93 shared markers

View View all Clone Any

Mars Center for Cocoa Science, Brazil

Location: Tree: 10

Notes: 10

14._LCT_EEN_280 GC-08-070-1-92

99.5 %
93 shared markers

View View all Clone Any

Mars Center for Cocoa Science, Brazil

Location: Tree: 11

Notes: 11

15._LCT_EEN_280 GC-08-070-1-92

98.9 %
91 shared markers

View View all Clone Any

Mars Center for Cocoa Science, Brazil

Location: Tree: 1

Notes: 1 > FP1

16._LCT_EEN_280

98.7 %
38 shared markers

View View all Clone Any

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

Location: 4A A144 T1

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	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	TcSNP917	73	Tcm003s01336581	74	Tcm003s07402719	75	Tcm001s00947643
76	Tcm006s26664133	77	Tcm002s20575712	78	TcSNP529	79	TcSNP1458	80	TcSNP60
81	TcSNP430	82	TcSNP823	83	TcSNP619	84	TcSNP994	85	TcSNP1144
86	TcSNP1156	87	TcSNP469	88	TcSNP999	89	TcSNP242	90	TcSNP1253
91	TcSNP1414	92	TcSNP154	93	TcSNP240