SNP Profiles of PA-175 View Data

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	1	2	3	4	5	6	7	8	9	10	11	12	13	14
_Input profile	AA	AC	CT	AC	GG	GG	CC	CC	CC	CC	GG	TT	CC	TT
1._NA	AA	AC	CT	AC	GG	GG	CC	CC	CC	CC	GG	TT	CC	TT
2._NA	AA	AC	CT	AC	GG	GG	CC	CC	CC	CC	GG	TT	CC	TT
3._NA	AA	AC	CT	AC	GG	GG	CC	CC	CC	CC	GG	TT	CC	TT
4._PA_175_[PER]	AA	AC	CT	AC	_	_	_	_	CC	CC	GG	_	CC	_
5._PA_175_[PER]	AA	AC	CT	AC	_	_	_	_	CC	CC	GG	_	CC	_
6._PA_175_[PER]	AA	AC	CT	AC	_	_	_	_	CC	CC	GG	_	CC	_
7._PA_175_[PER]	AA	AC	CT	AC	_	_	_	_	CC	CC	GG	_	CC	_
8._RUQ_37	AA	AC	CT	AC	_	_	_	_	CC	CC	GG	_	CC	_
9._PA_175_[PER]	AA	AC	CT	AC	_	_	_	_	CC	CC	GG	_	CC	_
10._RUQ_37	_	_	CT	AC	_	_	CT	_	CC	_	_	TT	CC	_
11._PA_175_[PER]	AA	AC	CT	AC	_	_	_	_	CC	CC	GG	_	CC	_
12._RUQ_37	_	_	_	AC	_	_	CT	_	_	_	_	_	_	_
13._-	AA	AC	_	AC	GG	GG	_	GG	GG	_	GG	AA	GG	AA
14._RUQ_37	AA	AC	_	AC	GG	GG	_	GG	GG	_	GG	AA	GG	AA
15._MITC-000016	AA	AC	_	AC	GG	GG	_	GG	GG	_	GG	AA	GG	AA

	15	16	17	18	19	20	21	22	23	24	25	26	27	28
_Input profile	AA	CC	AG	CG	CC	CG	CT	AA	TT	GG	AT	AA	CC	GG
1._NA	AA	CC	AG	CG	CC	CG	CT	AA	TT	GG	AT	AA	CC	GG
2._NA	AA	CC	AG	CG	CC	CG	CT	AA	TT	GG	AT	AA	CC	GG
3._NA	AA	CC	AG	CG	CC	CG	CT	AA	TT	GG	AT	AA	CC	GG
4._PA_175_[PER]	_	_	AG	_	_	CG	_	_	_	_	AT	AA	_	GG
5._PA_175_[PER]	_	_	AG	_	_	CG	_	_	_	_	AT	AA	_	GG
6._PA_175_[PER]	_	_	AG	_	_	CG	_	_	_	_	AT	AA	_	GG
7._PA_175_[PER]	_	_	AG	_	_	CG	_	_	_	_	AT	AA	_	GG
8._RUQ_37	_	_	AG	_	_	CG	_	_	_	_	AT	AA	_	GG
9._PA_175_[PER]	_	_	AG	_	_	CG	_	_	_	_	AT	AA	_	GG
10._RUQ_37	_	_	_	_	CC	_	_	_	_	GG	_	AA	CC	GG
11._PA_175_[PER]	_	_	AG	TT	CC	CG	_	_	_	_	AT	AA	_	GG
12._RUQ_37	_	_	AG	TT	_	_	_	_	_	_	_	_	_	GG
13._-	TT	CC	AG	CG	_	CG	AG	GG	AA	GG	AT	AA	GG	CC
14._RUQ_37	TT	CC	AG	CG	_	CG	AG	GG	AA	GG	AT	AA	GG	CC
15._MITC-000016	TT	CC	AG	CG	_	CG	AG	GG	AA	GG	AT	AA	GG	CC

	29	30	31	32	33	34	35	36	37	38	39	40	41	42
_Input profile	AA	TT	GT	GG	CG	CC	AA	GG	GG	TT	GG	TT	GG	CC
1._NA	AA	TT	GT	GG	CG	CC	AA	GG	GG	TT	GG	TT	GG	CC
2._NA	AA	TT	GT	GG	CG	CC	AA	GG	GG	TT	GG	TT	GG	CC
3._NA	AA	TT	GT	GG	CG	CC	AA	GG	_	TT	GG	TT	GG	CC
4._PA_175_[PER]	AA	_	_	_	CG	_	AA	GG	_	_	GG	_	_	_
5._PA_175_[PER]	AA	_	_	_	CG	_	AA	GG	_	_	GG	_	_	_
6._PA_175_[PER]	AA	_	_	_	CG	_	AA	GG	_	_	GG	_	_	_
7._PA_175_[PER]	AA	_	_	_	CG	_	AA	GG	_	_	GG	_	_	_
8._RUQ_37	AA	_	_	_	CG	_	AA	GG	_	_	GG	_	_	_
9._PA_175_[PER]	AA	_	_	_	CG	_	AA	GG	_	_	GG	_	_	_
10._RUQ_37	_	_	_	GG	CG	CC	AA	GG	_	_	GG	TT	_	_
11._PA_175_[PER]	AA	_	_	_	CG	_	AA	GG	_	_	GG	_	_	_
12._RUQ_37	_	_	_	_	CG	_	AA	_	_	_	_	TT	_	_
13._-	AA	AA	AC	GG	CG	CC	AA	CC	CC	AA	GG	AA	GG	GG
14._RUQ_37	AA	AA	AC	GG	CG	CC	AA	CC	CC	AA	GG	AA	GG	GG
15._MITC-000016	AA	AA	AC	GG	CG	CC	AA	CC	CC	AA	GG	AA	GG	GG

	43	44	45	46	47	48	49	50	51	52	53	54	55	56
_Input profile	GG	TT	CC	AA	GG	AA	CC	CC	GG	AG	GG	TT	CC	CC
1._NA	GG	TT	CC	AA	GG	AA	CC	CC	GG	AG	GG	TT	CC	CC
2._NA	GG	TT	CC	AA	GG	AA	CC	CC	GG	AG	GG	TT	CC	CC
3._NA	GG	TT	CC	AA	GG	AA	CC	CC	GG	AG	GG	TT	CC	CC
4._PA_175_[PER]	_	_	CC	_	_	_	_	_	_	_	_	_	CC	CC
5._PA_175_[PER]	_	_	CC	_	_	_	_	_	_	_	_	_	CC	CC
6._PA_175_[PER]	_	_	CC	_	_	_	_	_	_	_	_	_	CC	CC
7._PA_175_[PER]	_	_	CC	_	_	_	_	_	_	_	_	_	CC	CC
8._RUQ_37	_	_	CC	_	_	_	_	_	_	_	_	_	CC	CC
9._PA_175_[PER]	_	_	CC	_	_	_	_	_	_	_	_	_	CC	CC
10._RUQ_37	GG	TT	_	_	GG	_	_	_	_	_	_	CT	CC	_
11._PA_175_[PER]	_	_	CC	_	_	_	_	_	_	_	_	_	CC	CC
12._RUQ_37	_	_	_	_	GG	_	_	_	_	_	_	_	_	_
13._-	CC	_	GG	_	GG	AA	GG	_	GG	AG	CC	AG	GG	GG
14._RUQ_37	CC	_	GG	_	GG	AA	GG	_	GG	AG	CC	AG	GG	GG
15._MITC-000016	CC	_	GG	_	GG	AA	GG	_	GG	AG	CC	AG	GG	GG

	57	58	59	60	61	62	63	64	65	66	67	68	69	70
_Input profile	TT	AG	CC	CT	CT	AA	GG	GG	CC	GG	GT	GG	AG	CT
1._NA	TT	AG	CC	CT	CT	AA	GG	GG	CC	GG	GT	GG	AG	CT
2._NA	TT	AG	CC	CT	CT	AA	GG	GG	CC	GG	GT	GG	AG	CT
3._NA	TT	AG	CC	CT	CT	AA	GG	GG	CC	GG	GT	GG	AG	CT
4._PA_175_[PER]	_	_	CC	_	CT	AA	GG	_	CC	GG	GT	GG	_	_
5._PA_175_[PER]	_	_	CC	_	CT	AA	GG	_	CC	GG	GT	GG	_	_
6._PA_175_[PER]	_	_	CC	_	CT	AA	GG	_	CC	GG	GT	GG	_	_
7._PA_175_[PER]	_	_	CC	_	CT	AA	GG	_	CC	GG	GT	GG	_	_
8._RUQ_37	_	_	CC	_	CT	AA	GG	_	CC	GG	GT	GG	_	_
9._PA_175_[PER]	_	_	CC	_	CT	AA	GG	_	CC	GG	GT	GG	_	_
10._RUQ_37	TT	-	CC	CT	CT	AA	_	GG	CC	GG	GT	GG	AG	_
11._PA_175_[PER]	_	_	CC	_	CT	AA	GG	_	CC	GG	GT	-	_	_
12._RUQ_37	_	AG	_	_	_	_	_	_	CC	GG	_	GG	AG	_
13._-	AA	AG	GG	AG	AG	AA	GG	GG	CC	GG	AC	CC	AG	_
14._RUQ_37	AA	AG	GG	AG	AG	AA	GG	GG	CC	GG	AC	CC	AG	_
15._MITC-000016	AA	AG	GG	AG	AG	AA	GG	GG	CC	GG	AC	CC	AG	_

	71	72	73	74	75	76	77	78	79	80	81	82	83	84
_Input profile	CC	GG	CT	CC	AG	AC	AC	AG	AC	CG	CC	AT	AA	TT
1._NA	CC	GG	CT	CC	AG	AC	AC	AG	AC	CG	CC	AT	AA	TT
2._NA	CC	GG	CT	CC	AG	AC	AC	AG	AC	CG	CC	AT	AA	TT
3._NA	CC	GG	CT	CC	AG	AC	AC	AG	AC	CG	CC	AT	AA	TT
4._PA_175_[PER]	_	GG	CT	_	_	_	_	_	AC	CG	_	_	_	TT
5._PA_175_[PER]	_	GG	CT	_	_	_	_	_	AC	CG	_	_	_	TT
6._PA_175_[PER]	_	GG	CT	_	_	_	_	_	AC	CG	_	_	_	TT
7._PA_175_[PER]	_	GG	CT	_	_	_	_	_	AC	CG	_	_	_	TT
8._RUQ_37	_	AA	CT	_	_	_	_	_	AC	CG	_	_	_	TT
9._PA_175_[PER]	_	AA	CT	_	_	_	_	_	AC	CG	_	_	_	TT
10._RUQ_37	_	_	_	_	_	_	_	_	AC	CG	_	_	AA	TT
11._PA_175_[PER]	_	AA	CT	_	_	_	_	_	AC	CG	_	_	_	TT
12._RUQ_37	_	AA	_	_	_	_	_	_	AA	CG	_	_	AA	_
13._-	_	_	AG	CC	AG	AC	AC	_	AC	CG	GG	AT	AA	AA
14._RUQ_37	_	_	AG	CC	AG	AC	AC	_	AC	CG	GG	AT	AA	AA
15._MITC-000016	_	_	AG	CC	AG	AC	AC	_	AC	CG	GG	AT	AA	AA

	85	86	87	88	89	90	91	92	93	94
_Input profile	TT	CC	TT	AA	CT	CC	TT	TT	AA	GG	X_X	X_X	X_X	X_X
1._NA	TT	CC	TT	AA	CT	CC	TT	TT	AA	GG	X_X	X_X	X_X	X_X
2._NA	TT	CC	TT	AA	CT	CC	TT	TT	AA	GG	X_X	X_X	X_X	X_X
3._NA	TT	CC	TT	AA	CT	CC	TT	TT	AA	GG	X_X	X_X	X_X	X_X
4._PA_175_[PER]	TT	CC	_	AA	_	CC	TT	TT	_	_	X_X	X_X	X_X	X_X
5._PA_175_[PER]	TT	CC	_	AA	_	CC	TT	TT	_	_	X_X	X_X	X_X	X_X
6._PA_175_[PER]	TT	CC	_	AA	_	CC	TT	TT	_	_	X_X	X_X	X_X	X_X
7._PA_175_[PER]	TT	CC	_	AA	_	CC	TT	TT	_	_	X_X	X_X	X_X	X_X
8._RUQ_37	TT	CC	_	AA	_	CC	TT	TT	_	_	X_X	X_X	X_X	X_X
9._PA_175_[PER]	TT	CC	_	AA	_	CC	TT	TT	_	_	X_X	X_X	X_X	X_X
10._RUQ_37	_	_	_	AA	CC	CC	TT	_	_	_	X_X	X_X	X_X	X_X
11._PA_175_[PER]	TT	CC	_	AA	_	CC	TT	TT	_	_	X_X	X_X	X_X	X_X
12._RUQ_37	_	CC	_	_	CT	_	TT	_	_	_	X_X	X_X	X_X	X_X
13._-	AA	_	AA	_	_	GG	AA	AA	TT	GG	X_X	X_X	X_X	X_X
14._RUQ_37	AA	_	AA	_	_	GG	AA	AA	TT	GG	X_X	X_X	X_X	X_X
15._MITC-000016	AA	_	AA	_	_	GG	AA	AA	TT	GG	X_X	X_X	X_X	X_X

Input profile: PA_175_[PER] NA

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Mars Center for Cocoa Science, Brazil

Location: Tree: 9

Notes: 9

1._PA_175_[PER] NA

identical
94 shared markers

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Mars Center for Cocoa Science, Brazil

Location: Tree: 8

Notes: 8

2._PA_175_[PER] NA

identical
94 shared markers

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Mars Center for Cocoa Science, Brazil

Location: Tree: 12

Notes: 12

3._PA_175_[PER] NA

identical
93 shared markers

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Mars Center for Cocoa Science, Brazil

Location: Tree: 5

Notes: 5

4._PA_175_[PER]

identical
40 shared markers

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Mars Center for Cocoa Science, Brazil

Location: 8127 5

Dapeng Zhang, 2016

Population Assignment:

Dapeng Zhang, 2016

5._PA_175_[PER]

identical
40 shared markers

View View all Clone Any

Mars Center for Cocoa Science, Brazil

Location: 8127 8

Dapeng Zhang, 2016

6._PA_175_[PER]

identical
40 shared markers

View View all Clone Any

Mars Center for Cocoa Science, Brazil

Location: 8127 9

Dapeng Zhang, 2016

7._PA_175_[PER]

identical
40 shared markers

View View all Clone Any

Mars Center for Cocoa Science, Brazil

Location: 8127 12

Dapeng Zhang, 2016

8._PA_175_[PER] RUQ_37

97.5 %
40 shared markers

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

Dapeng Zhang, 2016

9._PA_175_[PER]

97.5 %
40 shared markers

View View all Clone Any

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

Location: Marper D 738

Dapeng Zhang, 2016

10._PA_175_[PER] RUQ_37

96.4 %
42 shared markers

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

Dapeng Zhang, 2014

11._PA_175_[PER]

95.1 %
41 shared markers

View View all Clone Any

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

Location: 5B F473 T6

Dapeng Zhang, 2014

12._PA_175_[PER] RUQ_37

85.7 %
21 shared markers

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

Lambert Motilal, 2023

13._PA_175_[PER] -

50 %
80 shared markers

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Mars Center for Cocoa Science, Brazil

Location: Field: 8, Block: 1, Rep: 27, Tree: 5

Notes: MCCS_Structure_refs_above_0.9membership

14._PA_175_[PER] RUQ_37

50 %
80 shared markers

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

Notes: Reading_Collection

15._PA_175_[PER] MITC-000016

50 %
80 shared markers

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USDA-SHRS, United States of America

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	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