SNP Profiles of ICS 1 View Data

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	1	2	3	4	5	6	7	8	9	10	11	12	13	14
_Input profile	CC	AC	GG	AA	AG	AA	AA	AC	AA	GG	AA	AA	AA	CC
1._RUQ_847	CC	AC	GG	AA	AG	AA	AA	AC	AA	GG	AA	AA	AA	CC
2._ICS_1_Fld#_73_Plt#_2	CC	AC	GG	AA	AG	AA	AA	AC	AA	GG	AA	AA	AA	CC
3._RUQ_847	__	__	__	__	__	__	AA	__	__	__	__	__	__	__
4._RUQ_847B	__	__	__	__	__	__	AA	__	__	__	__	__	__	__
5._RUQ_847	__	__	__	__	__	TT	__	__	__	__	AA	__	__	__
6._ICS_1	__	__	__	__	__	TT	AA	__	AA	__	__	__	__	__
7._ICS_1	__	__	__	__	__	TT	AA	__	AA	__	__	__	__	__
8._ICS_1	__	__	__	__	__	TT	AA	__	AA	__	__	__	__	__
9._ICS_1	__	__	__	__	__	TT	AA	__	AA	__	__	__	__	__
10._ICS_1	__	__	__	__	__	TT	AA	__	AA	__	__	__	__	__
11._NA	CC	AC	GG	AA	CT	TT	AA	GT	AA	CC	AA	TT	TT	GG
12._NA	CC	AC	GG	AA	CT	TT	AA	GT	AA	CC	AA	TT	TT	GG
13._NA	CC	AC	GG	AA	CT	TT	AA	GT	AA	CC	AA	TT	TT	GG
14._NA	CC	AC	GG	AA	CT	TT	AA	GT	AA	CC	AA	TT	TT	GG
15._NA	CC	AC	GG	AA	CT	TT	AA	GT	AA	CC	AA	TT	TT	GG
16._NA	CC	AC	GG	AA	CT	TT	AA	GT	AA	CC	AA	TT	TT	GG
17._ICS_1	__	__	__	__	__	TT	AA	__	AA	__	__	__	__	__
18._ICS_1	__	__	__	__	__	TT	AA	__	AA	__	__	__	__	__
19._RUQ_847	__	__	__	__	__	TT	AA	__	AA	__	__	__	__	__
20._RUQ_847	__	__	__	__	__	TT	AA	__	AA	__	__	__	__	__
21._RUQ_847	__	__	__	__	__	TT	__	GT	__	__	AA	__	__	__
22._ICS1	__	__	__	__	__	CC	__	__	__	__	GG	__	__	__
23._ICS_1	__	__	__	__	__	CC	GG	__	AA	__	__	__	__	__

	15	16	17	18	19	20	21	22	23	24	25	26	27	28
_Input profile	GG	AA	GG	AG	AA	GG	AA	AA	AA	AG	CC	AA	AC	GG
1._RUQ_847	GG	AA	GG	AG	AA	GG	AA	AA	AA	AG	CC	AA	AC	GG
2._ICS_1_Fld#_73_Plt#_2	GG	AA	GG	AG	AA	GG	AA	AA	AA	AG	CC	AA	AC	GG
3._RUQ_847	__	TT	__	__	__	__	__	__	AA	__	GG	__	__	__
4._RUQ_847B	__	TT	__	__	__	__	__	__	AA	__	GG	__	__	__
5._RUQ_847	__	__	__	__	__	__	__	TT	AA	__	CC	__	__	CC
6._ICS_1	__	TT	CC	__	AA	__	TT	__	AA	CT	GG	AA	GT	CC
7._ICS_1	__	TT	CC	__	AA	__	TT	__	AA	CT	GG	AA	GT	CC
8._ICS_1	__	TT	CC	__	AA	__	TT	__	AA	CT	GG	AA	GT	CC
9._ICS_1	__	TT	CC	__	AA	__	TT	__	AA	CT	GG	AA	GT	CC
10._ICS_1	__	TT	CC	__	AA	__	TT	__	AA	CT	GG	AA	GT	CC
11._NA	CC	TT	CC	TT	AA	GG	TT	TT	AA	CT	GG	AA	GT	CC
12._NA	CC	TT	CC	TT	AA	GG	TT	TT	AA	CT	GG	AA	GT	CC
13._NA	CC	TT	CC	TT	AA	GG	TT	TT	AA	CT	GG	AA	GT	CC
14._NA	CC	TT	CC	TT	AA	GG	TT	TT	AA	CT	GG	AA	GT	CC
15._NA	CC	TT	CC	TT	AA	GG	TT	TT	AA	CT	GG	AA	GT	CC
16._NA	CC	TT	CC	TT	AA	GG	TT	TT	AA	CT	GG	AA	GT	CC
17._ICS_1	__	TT	CC	__	AA	__	TT	__	AA	CT	GG	AA	GT	CC
18._ICS_1	__	TT	CC	__	AA	__	TT	__	AA	CT	GG	AA	GT	CC
19._RUQ_847	__	TT	CC	__	AA	__	TT	__	AA	CT	GG	AG	GT	CC
20._RUQ_847	__	TT	CC	__	AA	__	TT	__	AA	CT	GG	AG	GT	CC
21._RUQ_847	__	TT	__	CT	__	__	__	TT	AA	CT	GG	AA	GT	CC
22._ICS1	__	__	__	__	__	__	__	CT	CC	__	CG	__	__	CT
23._ICS_1	__	TT	TT	__	AC	__	TT	__	AC	CT	GG	GG	GT	CC

	29	30	31	32	33	34	35	36	37	38	39	40	41	42
_Input profile	AA	TT	AG	AA	CG	AG	GG	AG	GG	CC	AT	AT	AG	AA
1._RUQ_847	AA	TT	AG	AA	CG	AG	GG	AG	GG	CC	AT	AT	AG	AA
2._ICS_1_Fld#_73_Plt#_2	AA	TT	AG	AA	CG	AG	GG	AG	GG	CC	AT	AT	AG	AA
3._RUQ_847	__	__	__	__	__	AG	__	__	__	__	__	__	AG	__
4._RUQ_847B	__	__	__	__	__	AG	__	__	__	__	__	__	AG	__
5._RUQ_847	__	__	AG	AA	CG	AG	__	__	__	__	__	__	__	AA
6._ICS_1	TT	__	__	AA	CG	AG	__	CT	GG	__	__	AT	__	__
7._ICS_1	TT	__	__	AA	CG	AG	__	CT	GG	__	__	AT	__	__
8._ICS_1	TT	__	__	AA	CG	AG	__	CT	GG	__	__	AT	__	__
9._ICS_1	TT	__	__	AA	CG	AG	__	CT	GG	__	__	AT	__	__
10._ICS_1	TT	__	__	AA	CG	AG	__	CT	GG	__	__	AT	__	__
11._NA	TT	AA	AG	AA	CG	AG	GG	CT	GG	GG	AT	AT	AG	AA
12._NA	TT	AA	AG	AA	CG	AG	GG	CT	GG	GG	AT	AT	AG	AA
13._NA	TT	AA	AG	AA	CG	AG	GG	CT	GG	GG	AT	AT	AG	AA
14._NA	TT	AA	AG	AA	CG	AG	GG	CT	GG	GG	AT	AT	AG	AA
15._NA	TT	AA	AG	AA	CG	AG	GG	CT	GG	GG	AT	AT	AG	AA
16._NA	TT	AA	AG	AA	CG	AG	GG	CT	GG	GG	AT	AT	AG	AA
17._ICS_1	TT	__	__	AA	CG	AG	__	CT	GG	__	__	AT	__	__
18._ICS_1	TT	__	__	AA	CG	AG	__	CT	GG	__	__	AT	__	__
19._RUQ_847	TT	__	__	AA	CG	AG	__	CT	GG	__	__	AT	__	__
20._RUQ_847	TT	__	__	AA	CG	AG	__	CT	GG	__	__	AT	__	__
21._RUQ_847	__	__	AG	AA	CG	AG	__	CT	__	__	__	__	AG	AA
22._ICS1	__	__	AG	AC	CG	AG	__	__	__	__	__	__	__	AG
23._ICS_1	CT	__	__	AA	CC	AA	__	CC	GG	__	__	AT	__	__

	43	44	45	46	47	48	49	50	51	52	53	54	55	56
_Input profile	AT	AG	AG	GG	GG	AA	CG	AA	CC	CC	GG	AA	AA	CC
1._RUQ_847	AT	AG	AG	GG	GG	AA	CG	AA	CC	CC	GG	AA	AA	CC
2._ICS_1_Fld#_73_Plt#_2	AT	AG	AG	GG	GG	AA	CG	AA	CC	CC	GG	AA	AA	CC
3._RUQ_847	__	__	__	__	__	__	__	__	__	AC	__	__	__	CC
4._RUQ_847B	__	__	__	__	__	__	__	__	__	AC	__	__	__	CC
5._RUQ_847	AT	CT	__	__	__	__	CG	__	__	__	__	__	__	CC
6._ICS_1	AT	__	__	__	GG	__	__	__	__	CC	__	TT	__	CC
7._ICS_1	AT	__	__	__	GG	__	__	__	__	CC	__	TT	__	CC
8._ICS_1	AT	__	__	__	GG	__	__	__	__	CC	__	TT	__	CC
9._ICS_1	AT	__	__	__	GG	__	__	__	__	CC	__	TT	__	CC
10._ICS_1	AT	__	__	__	GG	__	__	__	__	CC	__	TT	__	CC
11._NA	AT	CT	AG	GG	GG	AA	CG	__	CC	CC	GG	TT	AA	CC
12._NA	AT	CT	AG	GG	GG	AA	CG	__	CC	CC	GG	TT	AA	CC
13._NA	AT	CT	AG	GG	GG	AA	CG	__	CC	CC	GG	TT	AA	CC
14._NA	AT	CT	AG	GG	GG	AA	CG	__	CC	CC	GG	TT	AA	CC
15._NA	AT	CT	AG	GG	GG	AA	CG	__	CC	CC	GG	TT	AA	CC
16._NA	AT	CT	AG	GG	GG	AA	CG	__	CC	CC	GG	TT	AA	__
17._ICS_1	AT	__	__	__	GG	__	__	__	__	CC	__	TT	__	__
18._ICS_1	AT	__	__	__	GG	__	__	__	__	CC	__	TT	__	CC
19._RUQ_847	AT	__	__	__	GG	__	__	__	__	CC	__	TT	__	CC
20._RUQ_847	AT	__	__	__	GG	__	__	__	__	CC	__	TT	__	CC
21._RUQ_847	AT	__	__	__	__	__	CG	__	__	CC	__	TT	__	CC
22._ICS1	TT	CT	__	__	__	__	GG	__	__	__	__	__	__	CC
23._ICS_1	AA	__	__	__	GG	__	__	__	__	AA	__	GG	__	CG

	57	58	59	60	61	62	63	64	65	66	67	68	69	70
_Input profile	AC	AG	AG	AA	AG	AG	AC	GG	AG	AC	AC	AC	AC	CC
1._RUQ_847	AC	AG	AG	AA	AG	AG	AC	GG	AG	AC	AC	AC	AC	CC
2._ICS_1_Fld#_73_Plt#_2	AC	AG	AG	AA	AG	AG	AC	GG	AG	AC	AC	AC	AC	CC
3._RUQ_847	AC	__	CT	__	__	__	GT	GG	__	__	__	__	AC	TT
4._RUQ_847B	AC	__	CT	__	__	__	GT	GG	__	__	__	__	AC	TT
5._RUQ_847	AC	__	CT	__	__	__	__	__	__	GT	__	__	__	__
6._ICS_1	AC	__	__	TT	__	__	GT	__	__	__	__	__	__	__
7._ICS_1	AC	__	__	TT	__	__	GT	__	__	__	__	__	__	__
8._ICS_1	AC	__	__	TT	__	__	GT	__	__	__	__	__	__	__
9._ICS_1	AC	__	__	TT	__	__	GT	__	__	__	__	__	__	__
10._ICS_1	AC	__	__	TT	__	__	GT	__	__	__	__	__	__	__
11._NA	AC	CT	CT	TT	AG	AG	GT	GG	CT	GT	GT	GT	AC	GG
12._NA	AC	CT	CT	TT	AG	AG	GT	GG	CT	GT	GT	GT	AC	GG
13._NA	AC	CT	CT	TT	AG	AG	GT	GG	CT	GT	GT	GT	AC	GG
14._NA	AC	CT	CT	TT	AG	AG	GT	GG	CT	GT	GT	GT	AC	GG
15._NA	AC	CT	CT	TT	AG	AG	GT	GG	CT	GT	GT	GT	AC	GG
16._NA	AC	CT	CT	TT	AG	AG	GT	GG	CT	GT	GT	GT	AC	GG
17._ICS_1	AC	__	__	TT	__	__	GT	__	__	__	__	__	__	__
18._ICS_1	AC	__	__	TT	__	__	GT	__	__	__	__	__	__	__
19._RUQ_847	AC	__	__	TT	__	__	GT	__	__	__	__	__	__	__
20._RUQ_847	AC	__	__	CT	__	__	GT	__	__	__	__	__	__	__
21._RUQ_847	AA	__	CT	TT	__	__	GT	GG	CT	__	__	GT	AC	__
22._ICS1	CC	__	CC	__	__	__	__	__	__	GT	__	__	__	__
23._ICS_1	CC	__	__	TT	__	__	GG	__	__	__	__	__	__	__

	71	72	73	74	75	76	77	78	79	80	81	82
_Input profile	AG	CG	GG	GG	AA	AA	AA	GG	AA	AA	AA	AG	X_X	X_X
1._RUQ_847	AG	CG	GG	GG	AA	AA	AA	GG	AA	AA	AA	AG	X_X	X_X
2._ICS_1_Fld#_73_Plt#_2	AG	CG	GG	GG	AA	AA	AA	GG	AA	AA	AA	AG	X_X	X_X
3._RUQ_847	__	CG	__	__	AA	__	__	__	__	__	__	AG	X_X	X_X
4._RUQ_847B	__	CG	__	__	AA	__	__	__	__	__	__	AG	X_X	X_X
5._RUQ_847	AG	CG	CC	__	__	__	__	__	__	__	TT	__	X_X	X_X
6._ICS_1	__	CG	CC	__	__	__	TT	GG	__	AA	TT	AG	X_X	X_X
7._ICS_1	__	CG	CC	__	__	__	TT	GG	__	AA	TT	AG	X_X	X_X
8._ICS_1	__	CG	CC	__	__	__	TT	GG	__	AA	TT	AG	X_X	X_X
9._ICS_1	__	CG	CC	__	__	__	TT	GG	__	AA	TT	AG	X_X	X_X
10._ICS_1	__	CG	CC	__	__	__	TT	GG	__	AA	TT	AG	X_X	X_X
11._NA	AA	CG	CC	CC	AA	AA	TT	GG	TT	AA	TT	AG	X_X	X_X
12._NA	AA	CG	CC	CC	AA	AA	TT	GG	TT	AA	TT	AG	X_X	X_X
13._NA	AA	CG	CC	CC	AA	AA	TT	GG	TT	AA	TT	AG	X_X	X_X
14._NA	AA	CG	CC	CC	AA	AA	TT	GG	TT	AA	TT	AG	X_X	X_X
15._NA	AA	CG	CC	CC	AA	AA	TT	GG	TT	AA	TT	AG	X_X	X_X
16._NA	AA	CG	CC	CC	AA	AA	TT	GG	TT	AA	TT	AG	X_X	X_X
17._ICS_1	__	CG	CC	__	__	__	TT	GG	__	AA	TT	AG	X_X	X_X
18._ICS_1	__	__	CC	__	__	__	TT	GG	__	AA	TT	AG	X_X	X_X
19._RUQ_847	__	CG	CC	__	__	__	TT	GG	__	AA	TT	AG	X_X	X_X
20._RUQ_847	__	CG	CC	__	__	__	TT	GG	__	AA	TT	AG	X_X	X_X
21._RUQ_847	__	CG	CC	__	__	AA	__	__	__	__	__	AG	X_X	X_X
22._ICS1	AG	CG	CT	__	__	__	__	__	__	__	CT	__	X_X	X_X
23._ICS_1	__	GG	CC	__	__	__	TT	CG	__	AA	TT	AG	X_X	X_X

Input profile: ICS_1 MITC-000297

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USDA-SHRS, United States of America

1._ICS_1 RUQ_847

identical
82 shared markers

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

Notes: Reading_Collection

2._ICS_1 ICS_1_Fld#_73_Plt#_2

identical
82 shared markers

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USDA-TARS, United States of America

Location: Field: 73, Tree: 2

3._ICS_1 RUQ_847

67.6 %
17 shared markers

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

Lambert Motilal, 2023

4._ICS_1 RUQ_847B

67.6 %
17 shared markers

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

Lambert Motilal, 2023

5._ICS_1 RUQ_847

63.6 %
22 shared markers

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

Location: GBR207

Jocelyn De Wever et al., 2019

6._ICS_1

54.3 %
35 shared markers

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Mars Center for Cocoa Science, Brazil

Location: 8903 3

Dapeng Zhang, 2016

7._ICS_1

54.3 %
35 shared markers

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Mars Center for Cocoa Science, Brazil

Location: 8903 1

Dapeng Zhang, 2016

Population Assignment:

Dapeng Zhang, 2016

8._ICS_1

54.3 %
35 shared markers

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Mars Center for Cocoa Science, Brazil

Location: 8903 5

Dapeng Zhang, 2016

9._ICS_1

54.3 %
35 shared markers

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Mars Center for Cocoa Science, Brazil

Location: 8903 6

Dapeng Zhang, 2016

10._ICS_1

54.3 %
35 shared markers

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Mars Center for Cocoa Science, Brazil

Location: 8903 8

Dapeng Zhang, 2016

11._ICS_1 NA

53.7 %
81 shared markers

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Mars Center for Cocoa Science, Brazil

Location: Tree: 3

Notes: 3

12._ICS_1 NA

53.7 %
81 shared markers

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Mars Center for Cocoa Science, Brazil

Location: Tree: 1

Notes: 1

13._ICS_1 NA

53.7 %
81 shared markers

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Mars Center for Cocoa Science, Brazil

Location: Tree: 5

Notes: 5

14._ICS_1 NA

53.7 %
81 shared markers

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Mars Center for Cocoa Science, Brazil

Location: Tree: 6

Notes: 6

15._ICS_1 NA

53.7 %
81 shared markers

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Mars Center for Cocoa Science, Brazil

Location: Tree: 8

Notes: 8

16._ICS_1 NA

53.1 %
80 shared markers

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Mars Center for Cocoa Science, Brazil

Location: Tree: 7

Notes: 7

17._ICS_1

52.9 %
34 shared markers

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Mars Center for Cocoa Science, Brazil

Location: 8903 7

Dapeng Zhang, 2016

18._ICS_1

52.9 %
34 shared markers

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

Location: San Juan Block4

Dapeng Zhang, 2016

19._ICS_1 RUQ_847

52.9 %
35 shared markers

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

Dapeng Zhang, 2016

20._ICS_1 RUQ_847

52.9 %
35 shared markers

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

Dapeng Zhang, 2016

21._ICS_1 RUQ_847

51.4 %
36 shared markers

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

Dapeng Zhang, 2014

22._ICS_1 ICS1

40.9 %
22 shared markers

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Center for Forestry Research and Technology Transfer, Vietnam

Location: CEFORTT

Jocelyn De Wever et al., 2019

23._ICS_1

32.9 %
35 shared markers

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Centro Agronómico Tropical de Investigación y Enseñanza (CATIE), Costa Rica

Location: Cabiria

Dapeng Zhang, 2016

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	TcSNP1253	17	TcSNP1270	18	TcSNP1309	19	TcSNP1350	20	TcSNP1383
21	TcSNP1414	22	TcSNP1439	23	TcSNP144	24	TcSNP1442	25	TcSNP1458
26	TcSNP1484	27	TcSNP150	28	TcSNP151	29	TcSNP1520	30	TcSNP154
31	TcSNP174	32	TcSNP193	33	TcSNP226	34	TcSNP230	35	TcSNP240
36	TcSNP242	37	TcSNP25	38	TcSNP28	39	TcSNP316	40	TcSNP32
41	TcSNP329	42	TcSNP364	43	TcSNP372	44	TcSNP413	45	TcSNP418
46	TcSNP42	47	TcSNP429	48	TcSNP430	49	TcSNP448	50	TcSNP497
51	TcSNP521	52	TcSNP529	53	TcSNP547	54	TcSNP560	55	TcSNP561
56	TcSNP577	57	TcSNP591	58	TcSNP60	59	TcSNP602	60	TcSNP619
61	TcSNP653	62	TcSNP689	63	TcSNP723	64	TcSNP731	65	TcSNP75
66	TcSNP751	67	TcSNP776	68	TcSNP799	69	TcSNP823	70	TcSNP836
71	TcSNP860	72	TcSNP872	73	TcSNP891	74	TcSNP894	75	TcSNP899
76	TcSNP90	77	TcSNP917	78	TcSNP929	79	TcSNP944	80	TcSNP953
81	TcSNP994	82	TcSNP998