SNP Profiles of LF 1 View Data

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	1	2	3	4	5	6	7	8	9	10	11	12	13	14
_Input profile	AA	AC	AG	AA	GG	AG	AA	AA	AA	GG	AG	AA	AA	AA
1._LF_1___	__	__	__	__	__	__	AA	__	__	__	__	__	__	__
2._LF_1___	__	__	__	__	__	CT	AA	__	AA	__	__	__	__	__
3._LF_1___	__	__	__	__	__	CT	AA	__	AA	__	__	__	__	__
4._LF_1___	__	__	__	__	__	CT	AA	__	AA	__	__	__	__	__
5._LF_1___	__	__	__	__	__	CT	AA	__	AA	__	__	__	__	__
6._LF_1___	__	__	__	__	__	CT	AA	__	AA	__	__	__	__	__
7._LF_1___	AA	AC	AG	AA	CC	CT	AA	TT	AA	CC	AG	TT	TT	TT
8._LF_1___	AA	AC	AG	AA	CC	CT	AA	TT	AA	CC	AG	TT	TT	TT
9._LF_1___	AA	AC	AG	AA	CC	CT	AA	TT	AA	CC	AG	TT	TT	TT
10._LF_1___	AA	AC	AG	AA	CC	CT	AA	TT	AA	CC	AG	TT	TT	TT
11._LF_1___	__	__	__	__	__	CT	__	TT	__	__	AG	__	__	__

	15	16	17	18	19	20	21	22	23	24	25	26	27	28
_Input profile	AG	GG	AG	AA	GG	AA	GG	AA	AA	GG	AC	AG	GG	AA
1._LF_1___	__	__	__	__	__	__	__	AA	__	__	__	__	__	__
2._LF_1___	__	CC	__	AA	__	TT	__	AA	TT	GG	GT	CT	CC	__
3._LF_1___	__	CC	__	AA	__	TT	__	AA	TT	GG	GT	CT	CC	__
4._LF_1___	__	CC	__	AA	__	TT	__	AA	TT	GG	GT	CT	CC	__
5._LF_1___	__	CC	__	AA	__	TT	__	AA	TT	GG	GT	CT	CC	__
6._LF_1___	__	CC	__	AA	__	TT	__	AA	TT	GG	GT	CT	CC	__
7._LF_1___	CT	CC	TT	AA	GG	TT	CC	AA	TT	GG	GT	CT	CC	TT
8._LF_1___	CT	CC	TT	AA	GG	TT	CC	AA	TT	GG	GT	CT	CC	TT
9._LF_1___	CT	CC	TT	AA	GG	TT	CC	AA	TT	GG	GT	CT	CC	TT
10._LF_1___	CT	CC	TT	AA	GG	TT	CC	AA	TT	GG	GT	CT	CC	TT
11._LF_1___	__	__	CT	__	__	__	CC	AA	TT	GG	GT	CT	__	__

	29	30	31	32	33	34	35	36	37	38	39	40	41	42
_Input profile	AG	CC	CC	GG	GG	AA	GG	CC	AT	AA	AA	AG	TT	AG
1._LF_1___	__	__	__	GG	__	__	__	__	__	__	AA	__	__	__
2._LF_1___	__	CC	GG	GG	__	TT	GG	__	__	AA	__	__	TT	__
3._LF_1___	__	CC	GG	GG	__	TT	GG	__	__	AA	__	__	TT	__
4._LF_1___	__	CC	GG	GG	__	TT	GG	__	__	AA	__	__	TT	__
5._LF_1___	__	CC	GG	GG	__	TT	GG	__	__	AA	__	__	TT	__
6._LF_1___	__	CC	GG	GG	__	TT	GG	__	__	AA	__	__	TT	__
7._LF_1___	AG	CC	GG	GG	GG	TT	GG	GG	AT	AA	AA	AG	TT	CT
8._LF_1___	AG	CC	GG	GG	GG	TT	GG	GG	AT	AA	AA	AG	TT	CT
9._LF_1___	AG	CC	GG	GG	GG	TT	GG	GG	AT	AA	AA	AG	TT	CT
10._LF_1___	AG	CC	GG	GG	GG	TT	GG	GG	AT	AA	AA	AG	TT	CT
11._LF_1___	AG	CC	GG	GG	__	TT	__	__	__	__	AA	AG	TT	__

	43	44	45	46	47	48	49	50	51	52	53	54	55	56
_Input profile	AG	AA	GG	AT	CC	GG	CC	CC	GG	CC	AA	CC	CC	AA
1._LF_1___	__	__	__	__	__	__	__	AC	__	__	__	CC	CC	__
2._LF_1___	__	__	GG	__	__	__	__	CC	__	GG	__	CC	CC	__
3._LF_1___	__	__	GG	__	__	__	__	CC	__	GG	__	CC	CC	__
4._LF_1___	__	__	GG	__	__	__	__	CC	__	GG	__	CC	CC	__
5._LF_1___	__	__	GG	__	__	__	__	CC	__	GG	__	CC	CC	__
6._LF_1___	__	__	GG	__	__	__	__	CC	__	GG	__	CC	CC	__
7._LF_1___	AG	AA	GG	AT	GG	__	CC	CC	GG	GG	AA	CC	CC	TT
8._LF_1___	AG	AA	GG	AT	GG	__	CC	CC	GG	GG	AA	CC	CC	TT
9._LF_1___	AG	AA	GG	AT	GG	__	CC	CC	GG	GG	AA	CC	CC	TT
10._LF_1___	AG	AA	GG	AT	GG	__	CC	CC	GG	GG	AA	CC	CC	TT
11._LF_1___	__	__	__	__	GG	__	__	CC	__	GG	__	__	CC	__

	57	58	59	60	61	62	63	64	65	66	67	68	69	70
_Input profile	GG	AG	AA	AG	AA	AA	AG	AC	CC	AC	AC	CC	AA	GG
1._LF_1___	CC	__	__	__	TT	AA	__	__	__	__	AC	TT	__	CC
2._LF_1___	__	CT	__	__	TT	__	__	__	__	__	__	__	__	CC
3._LF_1___	__	CT	__	__	TT	__	__	__	__	__	__	__	__	CC
4._LF_1___	__	CT	__	__	TT	__	__	__	__	__	__	__	__	CC
5._LF_1___	__	CT	__	__	TT	__	__	__	__	__	__	__	__	CC
6._LF_1___	__	CT	__	__	TT	__	__	__	__	__	__	__	__	CC
7._LF_1___	CC	CT	AG	GG	TT	AA	CT	GT	GG	GT	AC	GG	AA	CC
8._LF_1___	CC	CT	AG	GG	TT	AA	CT	GT	GG	GT	AC	GG	AA	CC
9._LF_1___	CC	CT	AG	GG	TT	AA	CT	GT	GG	GT	AC	GG	AA	CC
10._LF_1___	CC	CT	AG	GG	TT	AA	CT	GT	GG	GT	AC	GG	AA	CC
11._LF_1___	__	CT	__	__	TT	AA	CT	__	__	GT	AC	__	__	CC

	71	72	73	74	75	76	77	78	79	80
_Input profile	GG	GG	AG	AC	AA	GG	AA	AA	AG	AG	X_X	X_X	X_X	X_X
1._LF_1___	__	__	AG	__	__	__	__	__	__	AG	X_X	X_X	X_X	X_X
2._LF_1___	CC	__	__	__	TT	GG	__	AA	CT	AG	X_X	X_X	X_X	X_X
3._LF_1___	CC	__	__	__	TT	GG	__	AA	CT	AG	X_X	X_X	X_X	X_X
4._LF_1___	CC	__	__	__	TT	GG	__	AA	CT	AG	X_X	X_X	X_X	X_X
5._LF_1___	CC	__	__	__	TT	GG	__	AA	CT	AG	X_X	X_X	X_X	X_X
6._LF_1___	CC	__	__	__	TT	GG	__	AA	CT	AG	X_X	X_X	X_X	X_X
7._LF_1___	CC	CC	AG	AC	TT	GG	TT	AA	CT	AG	X_X	X_X	X_X	X_X
8._LF_1___	CC	CC	AG	AC	TT	GG	TT	AA	CT	AG	X_X	X_X	X_X	X_X
9._LF_1___	CC	CC	AG	AC	TT	GG	TT	AA	CT	AG	X_X	X_X	X_X	X_X
10._LF_1___	CC	CC	AG	AC	TT	GG	TT	AA	CT	AG	X_X	X_X	X_X	X_X
11._LF_1___	__	__	__	AC	__	__	__	__	__	AG	X_X	X_X	X_X	X_X

Input profile: LF_1 RUQ_17

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

Notes: Reading_Collection

1._LF_1 RUQ_17

70 %
15 shared markers

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

Lambert Motilal, 2023

Population Assignment:

Ame
0.254 Cri
0.739

2._LF_1

51.5 %
33 shared markers

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Mars Center for Cocoa Science, Brazil

Location: 8857 8

Dapeng Zhang, 2016

3._LF_1

51.5 %
33 shared markers

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Mars Center for Cocoa Science, Brazil

Location: 8857 7

Dapeng Zhang, 2016

4._LF_1

51.5 %
33 shared markers

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Mars Center for Cocoa Science, Brazil

Location: 8857 4

Dapeng Zhang, 2016

5._LF_1

51.5 %
33 shared markers

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Mars Center for Cocoa Science, Brazil

Location: 8857 2

Dapeng Zhang, 2016

6._LF_1

51.5 %
33 shared markers

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Malaysian Cocoa Board (MCB), Malaysia

Location: C0298

Dapeng Zhang, 2016

7._LF_1 GC-08-285-8-57

50.6 %
79 shared markers

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Mars Center for Cocoa Science, Brazil

Location: Tree: 2

Notes: 2

8._LF_1 GC-08-285-8-57

50.6 %
79 shared markers

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Mars Center for Cocoa Science, Brazil

Location: Tree: 4

Notes: 4

9._LF_1 GC-08-285-8-57

50.6 %
79 shared markers

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Mars Center for Cocoa Science, Brazil

Location: Tree: 7

Notes: 7

10._LF_1 GC-08-285-8-57

50.6 %
79 shared markers

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Mars Center for Cocoa Science, Brazil

Location: Tree: 8

Notes: 8

11._LF_1 RUQ_17

48.4 %
31 shared markers

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

Dapeng Zhang, 2014

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	TcSNP1270	17	TcSNP1309	18	TcSNP1350	19	TcSNP1383	20	TcSNP1414
21	TcSNP1439	22	TcSNP144	23	TcSNP1442	24	TcSNP1484	25	TcSNP150
26	TcSNP151	27	TcSNP1520	28	TcSNP154	29	TcSNP174	30	TcSNP193
31	TcSNP226	32	TcSNP230	33	TcSNP240	34	TcSNP242	35	TcSNP25
36	TcSNP28	37	TcSNP316	38	TcSNP32	39	TcSNP329	40	TcSNP364
41	TcSNP372	42	TcSNP413	43	TcSNP418	44	TcSNP42	45	TcSNP429
46	TcSNP430	47	TcSNP448	48	TcSNP497	49	TcSNP521	50	TcSNP529
51	TcSNP547	52	TcSNP560	53	TcSNP561	54	TcSNP577	55	TcSNP591
56	TcSNP60	57	TcSNP602	58	TcSNP619	59	TcSNP653	60	TcSNP689
61	TcSNP723	62	TcSNP731	63	TcSNP75	64	TcSNP751	65	TcSNP776
66	TcSNP799	67	TcSNP823	68	TcSNP836	69	TcSNP860	70	TcSNP872
71	TcSNP891	72	TcSNP894	73	TcSNP899	74	TcSNP90	75	TcSNP917
76	TcSNP929	77	TcSNP944	78	TcSNP953	79	TcSNP994	80	TcSNP998