SNP Profiles of ICS 39 View Data

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	1	2	3	4	5	6	7	8	9	10	11	12	13	14
_Input profile	AC	AC	AG	AA	AG	AG	AA	AC	AA	GG	AG	AA	AA	AC
1._RUQ_1089	CC	AC	AA	AC	AA	AG	AG	CC	AA	GG	GG	AA	AA	CC
2._RUQ_1089	__	__	__	__	__	__	AG	__	__	__	__	__	__	__
3._ICS_39	__	__	__	__	__	CT	AA	__	AA	__	__	__	__	__
4._ICS_39	__	__	__	__	__	CT	AA	__	AA	__	__	__	__	__
5._ICS_39	__	__	__	__	__	CT	AA	__	AA	__	__	__	__	__
6._ICS_39	__	__	__	__	__	CT	AA	__	AA	__	__	__	__	__
7._ICS_39	__	__	__	__	__	CT	AA	__	AA	__	__	__	__	__
8._ICS_39	__	__	__	__	__	CT	AA	__	AA	__	__	__	__	__
9._GC-01-085-5-02	AC	CC	AG	AA	CT	CT	AA	GT	AA	CC	AG	TT	TT	GT
10._GC-01-085-5-02	AC	CC	AG	AA	CT	CT	AA	GT	AA	CC	AG	TT	TT	GT
11._GC-01-085-5-02	AC	CC	AG	AA	CT	CT	AA	GT	AA	CC	AG	TT	TT	GT
12._ICS_39	__	__	__	__	__	CT	AA	__	AA	__	__	__	__	__
13._ICS_39	__	__	__	__	__	CT	AA	__	AA	__	__	__	__	__
14._GC-01-85-5-02	AC	CC	AG	AA	CT	CT	AA	GT	AA	CC	AG	TT	TT	GT
15._ICS_39	__	__	__	__	__	CT	AA	__	AA	__	__	__	__	__
16._GC-01-85-5-02	AC	CC	AG	AA	CT	CT	AA	GT	AA	CC	AG	TT	TT	GT
17._GC-01-85-5-02	AC	CC	AG	AA	CT	CT	AA	GT	AA	CC	AG	TT	TT	GT
18._GC-01-85-5-02	AC	CC	AG	AA	CT	CT	AA	GT	AA	CC	AG	TT	TT	GT
19._RUQ_1089	__	__	__	__	__	CT	AG	__	AA	__	__	__	__	__

	15	16	17	18	19	20	21	22	23	24	25	26	27	28
_Input profile	AG	AA	GG	AG	AA	GG	AA	AG	AC	AG	CC	AG	AC	AG
1._RUQ_1089	AA	AA	AA	AA	__	GG	AA	GG	AC	AA	GG	AA	CC	AG
2._RUQ_1089	__	TT	__	__	__	__	__	__	AC	__	CC	__	__	__
3._ICS_39	__	GT	CC	__	AA	__	TT	__	AC	CT	CG	AG	GT	CT
4._ICS_39	__	GT	CC	__	AA	__	TT	__	AC	CT	CG	AG	GT	CT
5._ICS_39	__	GT	CC	__	AA	__	TT	__	AC	CT	CG	AG	GT	CT
6._ICS_39	__	GT	CC	__	AA	__	TT	__	AC	CT	CG	AG	GT	CT
7._ICS_39	__	GT	CC	__	AA	__	TT	__	AC	CT	CG	AG	GT	CT
8._ICS_39	__	GT	CC	__	AA	__	TT	__	AC	CT	CG	AG	GT	CT
9._GC-01-085-5-02	CT	GT	CC	TT	AA	GG	TT	CT	AC	CT	CG	AG	GT	CT
10._GC-01-085-5-02	CT	GT	CC	TT	AA	GG	TT	CT	AC	CT	CG	AG	GT	CT
11._GC-01-085-5-02	CT	GT	CC	TT	AA	GG	TT	CT	AC	CT	CG	AG	GT	CT
12._ICS_39	__	GT	CC	__	AA	__	TT	__	AC	CT	CG	AG	GT	CT
13._ICS_39	__	GT	CC	__	AA	__	TT	__	AC	CT	GG	AG	GT	CT
14._GC-01-85-5-02	CT	GT	CC	TT	AA	GG	TT	CT	AC	CT	CG	AG	GT	CT
15._ICS_39	__	GT	CC	__	AA	__	TT	__	AC	CT	GG	AG	GT	CT
16._GC-01-85-5-02	CT	GT	CC	TT	AA	GG	TT	CT	AC	CT	CG	AG	GT	CT
17._GC-01-85-5-02	CT	GT	CC	TT	AA	GG	TT	CT	AC	CT	CG	AG	GT	CT
18._GC-01-85-5-02	CT	GT	CC	TT	AA	GG	TT	CT	AC	CT	CG	AG	GT	CT
19._RUQ_1089	__	TT	TT	__	AC	__	TT	__	AC	TT	CC	AG	GG	CT

	29	30	31	32	33	34	35	36	37	38	39	40	41	42
_Input profile	AG	AT	AG	AC	CG	AG	GG	AG	GG	CC	AT	AT	AG	AG
1._RUQ_1089	GG	AA	GG	AC	GG	AG	GG	AG	GG	CC	TT	TT	GG	GG
2._RUQ_1089	__	__	__	__	__	AG	__	__	__	__	__	__	GG	__
3._ICS_39	CT	__	__	AC	CG	AG	__	CT	GG	__	__	AT	__	__
4._ICS_39	CT	__	__	AC	CG	AG	__	CT	GG	__	__	AT	__	__
5._ICS_39	CT	__	__	AC	CG	AG	__	CT	GG	__	__	AT	__	__
6._ICS_39	CT	__	__	AC	CG	AG	__	CT	GG	__	__	AT	__	__
7._ICS_39	CT	__	__	AC	CG	AG	__	CT	GG	__	__	AT	__	__
8._ICS_39	CT	__	__	AC	CG	AG	__	CT	GG	__	__	AT	__	__
9._GC-01-085-5-02	CT	AT	AG	AC	CG	AG	GG	CT	GG	GG	AT	AT	AG	AG
10._GC-01-085-5-02	CT	AT	AG	AC	CG	AG	GG	CT	GG	GG	AT	AT	AG	AG
11._GC-01-085-5-02	CT	AT	AG	AC	CG	AG	GG	CT	GG	GG	AT	AT	AG	AG
12._ICS_39	CT	__	__	__	CG	AG	__	CT	GG	__	__	AT	__	__
13._ICS_39	CT	__	__	AC	CG	AG	__	CT	GG	__	__	AT	__	__
14._GC-01-85-5-02	CT	CC	AG	AC	CG	AG	CC	CT	GG	GG	AT	AT	AG	AG
15._ICS_39	CT	__	__	AC	GG	AG	__	CT	GG	__	__	AT	__	__
16._GC-01-85-5-02	CT	CC	AG	AC	CG	AG	CC	CT	GG	GG	AT	AT	AG	AG
17._GC-01-85-5-02	CT	CC	AG	__	CG	AG	CC	CT	GG	GG	AT	AT	AG	AG
18._GC-01-85-5-02	CT	CC	AG	AC	CG	AG	CC	CT	GG	GG	AT	AT	AG	AG
19._RUQ_1089	CC	__	__	AC	CC	AG	__	CT	GG	__	__	TT	__	__

	43	44	45	46	47	48	49	50	51	52	53	54	55	56
_Input profile	AT	AG	AG	AG	GG	AT	CG	AG	CC	CC	GG	AC	AA	CG
1._RUQ_1089	AT	AA	GG	GG	GG	AA	GG	AA	AA	CC	AA	AC	GG	GG
2._RUQ_1089	__	__	__	__	__	__	__	__	__	CC	__	__	__	GG
3._ICS_39	AT	__	__	__	GG	__	__	__	__	CC	__	GT	__	CC
4._ICS_39	AT	__	__	__	GG	__	__	__	__	CC	__	GT	__	CC
5._ICS_39	AT	__	__	__	GG	__	__	__	__	CC	__	GT	__	CC
6._ICS_39	AT	__	__	__	GG	__	__	__	__	CC	__	GT	__	CC
7._ICS_39	AT	__	__	__	GG	__	__	__	__	CC	__	GT	__	CC
8._ICS_39	AT	__	__	__	GG	__	__	__	__	CC	__	GT	__	CC
9._GC-01-085-5-02	AT	CT	AG	AG	GG	AT	CG	__	CC	CC	GG	GT	AA	CC
10._GC-01-085-5-02	AT	CT	AG	AG	GG	AT	CG	__	CC	CC	GG	GT	AA	CC
11._GC-01-085-5-02	AT	CT	AG	AG	GG	AT	CG	__	CC	CC	GG	GT	AA	CC
12._ICS_39	AT	__	__	__	GG	__	__	__	__	CC	__	GT	__	CC
13._ICS_39	AT	__	__	__	GG	__	__	__	__	CC	__	GT	__	CC
14._GC-01-85-5-02	AT	CT	AG	AG	GG	AT	CG	CT	CC	CC	GG	GT	AA	CC
15._ICS_39	AT	__	__	__	AG	__	__	__	__	CC	__	GT	__	CC
16._GC-01-85-5-02	AT	CT	AG	AG	GG	AT	CG	CT	CC	CC	GG	GT	AA	CC
17._GC-01-85-5-02	AT	CT	AG	AG	GG	AT	CG	CT	CC	CC	GG	GT	AA	CC
18._GC-01-85-5-02	AT	CT	AG	AG	GG	AT	CG	CT	CC	CC	GG	GT	AA	CC
19._RUQ_1089	AT	__	__	__	GG	__	__	__	__	CC	__	GT	__	GG

	57	58	59	60	61	62	63	64	65	66	67	68	69	70
_Input profile	AC	AG	GG	AG	AA	AG	AA	AG	AG	AC	CC	AC	AC	CC
1._RUQ_1089	AA	GG	GG	GG	AA	AA	CC	GG	AA	AA	AC	AA	AC	CC
2._RUQ_1089	AA	__	CC	__	__	__	GG	GG	__	__	__	__	AC	TT
3._ICS_39	AC	__	__	CT	__	__	GT	__	__	__	__	__	__	__
4._ICS_39	AC	__	__	CT	__	__	GT	__	__	__	__	__	__	__
5._ICS_39	AC	__	__	CT	__	__	GT	__	__	__	__	__	__	__
6._ICS_39	AC	__	__	CT	__	__	GT	__	__	__	__	__	__	__
7._ICS_39	AC	__	__	CT	__	__	GT	__	__	__	__	__	__	__
8._ICS_39	AC	__	__	CT	__	__	GT	__	__	__	__	__	__	__
9._GC-01-085-5-02	AC	CT	CC	CT	AG	AG	GT	AG	CT	GT	GT	GT	CC	GG
10._GC-01-085-5-02	AC	CT	CC	CT	AG	AG	GT	AG	CT	GT	GT	GT	CC	GG
11._GC-01-085-5-02	AC	CT	CC	CT	AG	AG	GT	AG	CT	GT	GT	GT	CC	GG
12._ICS_39	AC	__	__	CT	__	__	GT	__	__	__	__	__	__	__
13._ICS_39	AC	__	__	CT	__	__	GT	__	__	__	__	__	__	__
14._GC-01-85-5-02	AC	CT	CC	CT	AG	AG	GT	AG	CT	GT	GT	GT	CC	GG
15._ICS_39	AC	__	__	CT	__	__	GT	__	__	__	__	__	__	__
16._GC-01-85-5-02	AC	CT	CC	CT	AG	AG	GT	AG	CT	GT	GT	GT	CC	GG
17._GC-01-85-5-02	AC	CT	CC	CT	AG	AG	GT	AG	CT	GT	GT	GT	CC	GG
18._GC-01-85-5-02	AC	CT	CC	CT	AG	__	GT	AG	CT	GT	GT	GT	CC	GG
19._RUQ_1089	AA	__	__	CC	__	__	GG	__	__	__	__	__	__	__

	71	72	73	74	75	76	77	78	79	80	81	82
_Input profile	AG	CG	GG	GG	GG	AC	AA	GG	AG	AA	AG	AA	X_X	X_X
1._RUQ_1089	GG	GG	GG	GG	GG	CC	AG	GG	GG	AT	AA	AG	X_X	X_X
2._RUQ_1089	__	CC	__	__	GG	__	__	__	__	__	__	AG	X_X	X_X
3._ICS_39	__	CG	CC	__	__	__	TT	GG	__	AA	CT	AA	X_X	X_X
4._ICS_39	__	CG	CC	__	__	__	TT	GG	__	AA	CT	AA	X_X	X_X
5._ICS_39	__	CG	CC	__	__	__	TT	GG	__	AA	CT	AA	X_X	X_X
6._ICS_39	__	CG	CC	__	__	__	TT	GG	__	AA	CT	AA	X_X	X_X
7._ICS_39	__	CG	CC	__	__	__	TT	GG	__	AA	CT	AA	X_X	X_X
8._ICS_39	__	CG	CC	__	__	__	TT	GG	__	AA	CT	AA	X_X	X_X
9._GC-01-085-5-02	AA	CG	CC	CC	GG	AC	TT	GG	CT	AA	CT	AA	X_X	X_X
10._GC-01-085-5-02	AA	CG	CC	CC	GG	AC	TT	GG	CT	AA	CT	AA	X_X	X_X
11._GC-01-085-5-02	AA	CG	CC	CC	GG	AC	TT	GG	CT	AA	CT	AA	X_X	X_X
12._ICS_39	__	CG	CC	__	__	__	TT	GG	__	AA	CT	AA	X_X	X_X
13._ICS_39	__	CG	CC	__	__	__	TT	GG	__	AA	CT	AA	X_X	X_X
14._GC-01-85-5-02	AA	CG	CC	CC	GG	AC	TT	GG	__	AA	CT	AA	X_X	X_X
15._ICS_39	__	CG	CC	__	__	__	TT	GG	__	AA	CT	AA	X_X	X_X
16._GC-01-85-5-02	AA	CG	CC	CC	GG	AC	TT	GG	CT	AA	CT	AA	X_X	X_X
17._GC-01-85-5-02	AA	CG	CC	CC	GG	AC	TT	GG	CT	AA	CT	AA	X_X	X_X
18._GC-01-85-5-02	AA	CG	CC	CC	GG	AC	TT	GG	CT	AA	CT	AA	X_X	X_X
19._RUQ_1089	__	CC	CC	__	__	__	CT	GG	__	AT	TT	AG	X_X	X_X

Input profile: ICS_39 ICS_39_Fld#_30_Plt#_2

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USDA-TARS, United States of America

Location: Field: 30, Tree: 2

1._ICS_39 RUQ_1089

64.2 %
81 shared markers

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

Notes: Reading_Collection

2._ICS_39 RUQ_1089

55.9 %
17 shared markers

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

Lambert Motilal, 2023

Population Assignment:

IMC
0.380 LCT
0.051 Nan
0.464

3._ICS_39

54.3 %
35 shared markers

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Mars Center for Cocoa Science, Brazil

Location: 1502 PL5 FP

Dapeng Zhang, 2016

4._ICS_39

54.3 %
35 shared markers

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Mars Center for Cocoa Science, Brazil

Location: 1502 PL15 F

Dapeng Zhang, 2016

5._ICS_39

54.3 %
35 shared markers

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Mars Center for Cocoa Science, Brazil

Location: 1502 PL14 F

Dapeng Zhang, 2016

6._ICS_39

54.3 %
35 shared markers

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Mars Center for Cocoa Science, Brazil

Location: 1502 16

Dapeng Zhang, 2016

7._ICS_39

54.3 %
35 shared markers

View View all Clone Any

Mars Center for Cocoa Science, Brazil

Location: 1502 12

Dapeng Zhang, 2016

8._ICS_39

54.3 %
35 shared markers

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Mars Center for Cocoa Science, Brazil

Location: 1502 9

Dapeng Zhang, 2016

9._ICS_39 GC-01-085-5-02

53.1 %
81 shared markers

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Mars Center for Cocoa Science, Brazil

Location: Tree: 16

Notes: 16

10._ICS_39 GC-01-085-5-02

53.1 %
81 shared markers

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Mars Center for Cocoa Science, Brazil

Location: Tree: 12

Notes: 12

11._ICS_39 GC-01-085-5-02

53.1 %
81 shared markers

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Mars Center for Cocoa Science, Brazil

Location: Tree: 9

Notes: 9

12._ICS_39

52.9 %
34 shared markers

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Mars Center for Cocoa Science, Brazil

Location: 1502 PL8 FP

Dapeng Zhang, 2016

13._ICS_39

52.9 %
35 shared markers

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Malaysian Cocoa Board (MCB), Malaysia

Location: Row 9 C0200 2A

Dapeng Zhang, 2016

14._ICS_39 GC-01-85-5-02

50.6 %
81 shared markers

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Mars Center for Cocoa Science, Brazil

Location: Field: 1, Block: 5, Rep: 2, Tree: PL5

Notes: PL5 FP2

15._ICS_39

50 %
35 shared markers

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

Location: 6B E361 T3

Dapeng Zhang, 2016

16._ICS_39 GC-01-85-5-02

50 %
82 shared markers

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Mars Center for Cocoa Science, Brazil

Location: Field: 1, Block: 5, Rep: 2, Tree: PL15

Notes: PL15 FP4

17._ICS_39 GC-01-85-5-02

49.4 %
81 shared markers

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Mars Center for Cocoa Science, Brazil

Location: Field: 1, Block: 5, Rep: 2, Tree: PL8

Notes: PL8 FP1

18._ICS_39 GC-01-85-5-02

49.4 %
81 shared markers

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Mars Center for Cocoa Science, Brazil

Location: Field: 1, Block: 5, Rep: 2, Tree: PL14

Notes: PL14 FP3

19._ICS_39 RUQ_1089

44.3 %
35 shared markers

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

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