SNP Profiles of SCA-3 View Data

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	1	2	3	4	5	6	7	8	9	10	11	12	13	14
_Input profile	AT	CC	CC	CC	AG	AA	TT	TT	CC	TT	AA	TT	TT	TT
1._GC-08-169-4-12	AT	CC	CC	CC	AG	AA	TT	TT	CC	TT	AA	TT	TT	TT
2._GC-08-169-4-12	AT	CC	CC	CC	AG	AA	TT	TT	CC	TT	AA	TT	TT	TT
3._GC-08-169-4-12	AT	CC	CC	CC	AG	AA	TT	TT	CC	TT	AA	TT	TT	TT
4._GC-08-169-4-12	AT	CC	CC	CC	AG	AA	TT	TT	CC	TT	AA	TT	TT	TT
5._GC-08-169-4-12	AT	CC	CC	CC	AG	AA	TT	TT	CC	TT	AA	TT	TT	TT
6._GC-08-169-4-12	AT	CC	CC	CC	AG	AA	TT	TT	CC	TT	AA	TT	TT	TT
7._GC-08-169-4-12	AT	CC	CC	CC	AG	AA	TT	TT	CC	TT	AA	TT	TT	TT
8._GC-08-169-4-12	AT	CC	CC	CC	__	AA	TT	TT	CC	TT	AA	TT	TT	TT
9._SCA_3	AT	CC	CC	CC	__	__	__	__	CC	TT	AA	__	TT	__
10._SCA_3	AT	CC	CC	CC	__	__	__	__	CC	TT	AA	__	TT	__
11._SCA_3	AT	CC	CC	CC	__	__	__	__	CC	TT	AA	__	TT	__
12._SCA_3	AT	CC	CC	CC	__	__	__	__	CC	TT	AA	__	TT	__
13._SCA_3	AT	CC	CC	CC	__	__	__	__	CC	TT	AA	__	TT	__
14._SCA_3	AT	CC	CC	CC	__	__	__	__	CC	TT	AA	__	TT	__
15._SCA_3	AT	CC	CC	CC	__	__	__	__	CC	TT	AA	__	TT	__
16._SCA_3	AT	CC	CC	CC	__	__	__	__	CC	TT	AA	__	TT	__
17._SCA_3	AT	CC	CC	CC	__	__	__	__	CC	TT	AA	__	TT	__
18._SCA_3	AT	CC	CC	CC	__	__	__	__	CC	TT	AA	__	TT	__
19._GC-01-123-6-20	AT	CC	__	CC	AG	AA	__	AA	GG	__	AA	AA	AA	AA

	15	16	17	18	19	20	21	22	23	24	25	26	27	28
_Input profile	TT	AC	AA	GG	CC	GG	CC	CC	AA	CC	GG	AA	AA	GG
1._GC-08-169-4-12	TT	AC	AA	GG	CC	GG	CC	CC	AA	CC	GG	AA	AA	GG
2._GC-08-169-4-12	TT	AC	AA	GG	CC	GG	CC	CC	AA	CC	GG	AA	AA	GG
3._GC-08-169-4-12	TT	AC	AA	GG	CC	GG	CC	CC	AA	CC	GG	AA	AA	GG
4._GC-08-169-4-12	TT	AC	AA	GG	CC	GG	CC	CC	AA	CC	GG	AA	AA	GG
5._GC-08-169-4-12	TT	AC	AA	GG	CC	GG	CC	CC	AA	CC	GG	AA	AA	GG
6._GC-08-169-4-12	TT	AC	AA	GG	CC	GG	CC	CC	AA	CC	GG	AA	AA	GG
7._GC-08-169-4-12	TT	AC	AA	GG	CC	GG	CC	CC	AA	CC	GG	AA	AA	GG
8._GC-08-169-4-12	TT	AC	AA	GG	CC	GG	CC	CC	AA	CC	GG	AA	AA	GG
9._SCA_3	__	__	__	GG	__	__	CC	__	__	__	__	AA	AA	__
10._SCA_3	__	__	__	GG	__	__	CC	__	__	__	__	AA	AA	__
11._SCA_3	__	__	__	GG	__	__	CC	__	__	__	__	AA	AA	__
12._SCA_3	__	__	__	GG	__	__	CC	__	__	__	__	AA	AA	__
13._SCA_3	__	__	__	GG	__	__	CC	__	__	__	__	AA	AA	__
14._SCA_3	__	__	__	GG	__	__	CC	__	__	__	__	AA	AA	__
15._SCA_3	__	__	__	GG	__	__	CC	__	__	__	__	AA	AA	__
16._SCA_3	__	__	__	GG	__	__	CC	__	__	__	__	AA	AA	__
17._SCA_3	__	__	__	GG	__	__	CC	__	__	__	__	AA	AA	__
18._SCA_3	__	__	__	GG	__	__	CC	__	__	__	__	AA	AA	__
19._GC-01-123-6-20	AA	AC	AA	GG	GG	__	CC	GG	AA	GG	GG	AA	AA	CC

	29	30	31	32	33	34	35	36	37	38	39	40	41	42
_Input profile	CC	TT	TT	TT	GG	CC	CC	AA	GG	TT	TT	AA	CC	GG
1._GC-08-169-4-12	CC	TT	TT	TT	GG	CC	CC	AA	GG	TT	TT	AA	CC	GG
2._GC-08-169-4-12	CC	TT	TT	TT	GG	CC	CC	AA	GG	TT	TT	AA	CC	GG
3._GC-08-169-4-12	CC	TT	TT	TT	GG	CC	CC	AA	GG	TT	TT	AA	CC	GG
4._GC-08-169-4-12	CC	TT	TT	TT	GG	CC	CC	AA	GG	TT	TT	AA	CC	GG
5._GC-08-169-4-12	CC	TT	TT	TT	GG	CC	CC	AA	GG	TT	TT	AA	CC	GG
6._GC-08-169-4-12	CC	TT	TT	TT	GG	CC	CC	AA	GG	TT	TT	AA	CC	GG
7._GC-08-169-4-12	CC	TT	TT	TT	__	CC	CC	AA	GG	TT	TT	AA	CC	GG
8._GC-08-169-4-12	CC	TT	TT	TT	GG	CC	CC	AA	GG	TT	TT	AA	CC	GG
9._SCA_3	CC	TT	__	__	__	CC	__	AA	GG	__	__	AA	__	__
10._SCA_3	CC	TT	__	__	__	CC	__	AA	GG	__	__	AA	__	__
11._SCA_3	CC	TT	__	__	__	CC	__	AA	GG	__	__	AA	__	__
12._SCA_3	CC	TT	__	__	__	CC	__	AA	GG	__	__	AA	__	__
13._SCA_3	CC	TT	__	__	__	CC	__	AA	GG	__	__	AA	__	__
14._SCA_3	CC	TT	__	__	__	CC	__	AA	GG	__	__	AA	__	__
15._SCA_3	CC	TT	__	__	__	CC	__	AA	GG	__	__	AA	__	__
16._SCA_3	CC	TT	__	__	__	CC	__	AA	GG	__	__	AA	__	__
17._SCA_3	CC	TT	__	__	__	CC	__	AA	GG	__	__	AA	__	__
18._SCA_3	CC	TT	__	__	__	CC	__	AA	GG	__	__	AA	__	__
19._GC-01-123-6-20	GG	TT	AA	AA	GG	CC	CC	AA	CC	AA	AA	AA	GG	GG

	43	44	45	46	47	48	49	50	51	52	53	54	55	56
_Input profile	CC	GG	TT	TT	GG	AA	AA	CC	AA	AA	AA	GG	TT	CC
1._GC-08-169-4-12	CC	GG	TT	TT	GG	AA	AA	CC	AA	AA	AA	GG	TT	CC
2._GC-08-169-4-12	CC	GG	TT	TT	GG	AA	AA	CC	AA	AA	AA	GG	TT	CC
3._GC-08-169-4-12	CC	GG	TT	TT	GG	AA	AA	CC	AA	AA	AA	GG	TT	CC
4._GC-08-169-4-12	CC	GG	TT	TT	GG	AA	AA	CC	AA	AA	AA	GG	TT	CC
5._GC-08-169-4-12	CC	GG	TT	TT	GG	AA	AA	CC	AA	AA	AA	GG	TT	CC
6._GC-08-169-4-12	CC	GG	TT	TT	GG	AA	AA	CC	AA	AA	AA	GG	TT	CC
7._GC-08-169-4-12	CC	GG	TT	TT	GG	AA	AA	CC	AA	AA	AA	GG	TT	CC
8._GC-08-169-4-12	CC	GG	TT	TT	GG	AA	AA	CC	AA	AA	AA	GG	TT	CC
9._SCA_3	__	__	__	TT	__	__	__	__	__	__	__	__	TT	CC
10._SCA_3	__	__	__	TT	__	__	__	__	__	__	__	__	TT	CC
11._SCA_3	__	__	__	TT	__	__	__	__	__	__	__	__	TT	CC
12._SCA_3	__	__	__	TT	__	__	__	__	__	__	__	__	TT	CC
13._SCA_3	__	__	__	TT	__	__	__	__	__	__	__	__	TT	CC
14._SCA_3	__	__	__	TT	__	__	__	__	__	__	__	__	TT	CC
15._SCA_3	__	__	__	TT	__	__	__	__	__	__	__	__	TT	CC
16._SCA_3	__	__	__	TT	__	__	__	__	__	__	__	__	TT	CC
17._SCA_3	__	__	__	TT	__	__	__	__	__	__	__	__	TT	CC
18._SCA_3	__	__	__	TT	__	__	__	__	__	__	__	__	TT	CC
19._GC-01-123-6-20	GG	CC	__	AA	__	AA	AA	GG	__	AA	AA	CC	AA	GG

	57	58	59	60	61	62	63	64	65	66	67	68	69	70
_Input profile	AG	CG	CC	CT	CC	CG	GG	AC	AA	GG	GG	AA	CC	CC
1._GC-08-169-4-12	AG	CG	CC	CT	CC	CG	GG	AC	AA	GG	GG	AA	CC	CC
2._GC-08-169-4-12	AG	CG	CC	CT	CC	CG	GG	AC	AA	GG	GG	AA	CC	CC
3._GC-08-169-4-12	AG	CG	CC	CT	CC	CG	GG	AC	AA	GG	GG	AA	CC	CC
4._GC-08-169-4-12	AG	CG	CC	CT	CC	CG	GG	AC	AA	GG	GG	AA	CC	CC
5._GC-08-169-4-12	AG	CG	CC	CT	CC	CG	GG	AC	AA	GG	GG	AA	CC	CC
6._GC-08-169-4-12	AG	CG	CC	CT	CC	CG	GG	AC	AA	GG	GG	AA	CC	CC
7._GC-08-169-4-12	AG	CG	CC	CT	CC	CG	GG	AC	AA	GG	GG	AA	CC	CC
8._GC-08-169-4-12	AG	CG	CC	CT	CC	CG	GG	AC	AA	GG	GG	AA	CC	CC
9._SCA_3	__	CG	__	CT	CC	CG	__	AC	AA	GG	GG	__	__	__
10._SCA_3	__	CG	__	CT	CC	CG	__	AC	AA	GG	GG	__	__	__
11._SCA_3	__	CG	__	CT	CC	CG	__	AC	AA	GG	GG	__	__	__
12._SCA_3	__	CG	__	CT	CC	CG	__	AC	AA	GG	GG	__	__	__
13._SCA_3	__	CG	__	CT	CC	CG	__	AC	AA	GG	GG	__	__	__
14._SCA_3	__	CG	__	CT	CC	CG	__	AC	AA	GG	GG	__	__	__
15._SCA_3	__	CG	__	CT	CC	CG	__	AC	AA	GG	GG	__	__	__
16._SCA_3	__	CG	__	CT	CC	CG	__	AC	AA	GG	GG	__	__	__
17._SCA_3	__	CG	__	CT	CC	CG	__	AC	AA	GG	GG	__	__	__
18._SCA_3	__	__	__	CT	CC	CG	__	AC	AA	GG	GG	__	__	__
19._GC-01-123-6-20	AG	CG	GG	AG	CC	CG	GG	AC	AA	CC	CC	AA	__	__

	71	72	73	74	75	76	77	78	79	80	81	82	83	84
_Input profile	AA	CT	CC	GG	CC	CC	AA	AA	CC	CC	AA	CC	TT	CC
1._GC-08-169-4-12	AA	CT	CC	GG	CC	CC	AA	AA	CC	CC	AA	CC	TT	CC
2._GC-08-169-4-12	AA	CT	CC	GG	CC	CC	AA	AA	CC	CC	AA	CC	TT	CC
3._GC-08-169-4-12	AA	CT	CC	GG	CC	CC	AA	AA	CC	CC	AA	CC	TT	CC
4._GC-08-169-4-12	AA	CT	CC	GG	CC	CC	AA	AA	CC	CC	AA	CC	TT	CC
5._GC-08-169-4-12	AA	CT	CC	GG	CC	CC	AA	AA	CC	CC	AA	CC	TT	CC
6._GC-08-169-4-12	AA	CT	CC	GG	CC	CC	AA	AA	CC	CC	AA	CC	TT	CC
7._GC-08-169-4-12	AA	CT	CC	GG	CC	CC	AA	AA	CC	CC	AA	CC	TT	CC
8._GC-08-169-4-12	AA	CT	CC	GG	CC	CC	AA	AA	CC	CC	AA	CC	TT	CC
9._SCA_3	AA	CT	__	__	__	__	__	AA	CC	__	__	__	TT	CC
10._SCA_3	AA	CT	__	__	__	__	__	AA	CC	__	__	__	TT	CC
11._SCA_3	AA	CT	__	__	__	__	__	AA	CC	__	__	__	TT	CC
12._SCA_3	AA	CT	__	__	__	__	__	AA	CC	__	__	__	TT	CC
13._SCA_3	AA	CT	__	__	__	__	__	AA	CC	__	__	__	TT	CC
14._SCA_3	AA	CT	__	__	__	__	__	AA	CC	__	__	__	TT	CC
15._SCA_3	AA	CT	__	__	__	__	__	AA	CC	__	__	__	TT	CC
16._SCA_3	AA	CT	__	__	__	__	__	AA	CC	__	__	__	TT	CC
17._SCA_3	AA	CT	__	__	__	__	__	AA	CC	__	__	__	TT	CC
18._SCA_3	GG	CT	__	__	__	__	__	AA	CC	__	__	__	TT	CC
19._GC-01-123-6-20	__	AG	CC	GG	CC	CC	__	AA	GG	GG	AA	CC	AA	GG

	85	86	87	88	89	90	91	92	93
_Input profile	CC	CC	GG	CC	CT	GT	CC	TT	AG	X_X	X_X	X_X	X_X	X_X
1._GC-08-169-4-12	CC	CC	GG	CC	CT	GT	CC	TT	AG	X_X	X_X	X_X	X_X	X_X
2._GC-08-169-4-12	CC	CC	GG	CC	CT	GT	CC	TT	AG	X_X	X_X	X_X	X_X	X_X
3._GC-08-169-4-12	CC	CC	GG	CC	CT	GT	CC	TT	AG	X_X	X_X	X_X	X_X	X_X
4._GC-08-169-4-12	CC	CC	GG	CC	CT	GT	CC	TT	AG	X_X	X_X	X_X	X_X	X_X
5._GC-08-169-4-12	CC	CC	GG	CC	CT	GT	CC	TT	AG	X_X	X_X	X_X	X_X	X_X
6._GC-08-169-4-12	CC	CC	GG	CC	CT	GT	CC	TT	AG	X_X	X_X	X_X	X_X	X_X
7._GC-08-169-4-12	CC	CC	GG	CC	CT	GT	CC	TT	AG	X_X	X_X	X_X	X_X	X_X
8._GC-08-169-4-12	CC	CC	GG	CC	CT	GT	CC	TT	AG	X_X	X_X	X_X	X_X	X_X
9._SCA_3	CC	__	GG	__	CT	GT	CC	__	__	X_X	X_X	X_X	X_X	X_X
10._SCA_3	CC	__	GG	__	CT	GT	CC	__	__	X_X	X_X	X_X	X_X	X_X
11._SCA_3	CC	__	GG	__	CT	GT	CC	__	__	X_X	X_X	X_X	X_X	X_X
12._SCA_3	CC	__	GG	__	CT	GT	CC	__	__	X_X	X_X	X_X	X_X	X_X
13._SCA_3	CC	__	GG	__	CT	GT	CC	__	__	X_X	X_X	X_X	X_X	X_X
14._SCA_3	CC	__	GG	__	CT	GT	CC	__	__	X_X	X_X	X_X	X_X	X_X
15._SCA_3	CC	__	GG	__	CT	GT	CC	__	__	X_X	X_X	X_X	X_X	X_X
16._SCA_3	CC	__	GG	__	CT	GT	CC	__	__	X_X	X_X	X_X	X_X	X_X
17._SCA_3	CC	__	GG	__	CT	GT	CC	__	__	X_X	X_X	X_X	X_X	X_X
18._SCA_3	CC	__	GG	__	CT	GT	CC	__	__	X_X	X_X	X_X	X_X	X_X
19._GC-01-123-6-20	__	GG	__	__	AG	AC	GG	AA	AG	X_X	X_X	X_X	X_X	X_X

Input profile: SCA_3 GC-08-169-4-12

View View all Clone Any

Mars Center for Cocoa Science, Brazil

Location: Tree: 10

Notes: 10

1._SCA_3 GC-08-169-4-12

identical
93 shared markers

View View all Clone Any

Mars Center for Cocoa Science, Brazil

Location: Tree: 11

Notes: 11

2._SCA_3 GC-08-169-4-12

identical
93 shared markers

View View all Clone Any

Mars Center for Cocoa Science, Brazil

Location: Tree: 9

Notes: 9

3._SCA_3 GC-08-169-4-12

identical
93 shared markers

View View all Clone Any

Mars Center for Cocoa Science, Brazil

Location: Tree: 5

Notes: 5

4._SCA_3 GC-08-169-4-12

identical
93 shared markers

View View all Clone Any

Mars Center for Cocoa Science, Brazil

Location: Tree: 4

Notes: 4

5._SCA_3 GC-08-169-4-12

identical
93 shared markers

View View all Clone Any

Mars Center for Cocoa Science, Brazil

Location: Tree: 3

Notes: 3 > FP3

6._SCA_3 GC-08-169-4-12

identical
93 shared markers

View View all Clone Any

Mars Center for Cocoa Science, Brazil

Location: Tree: 1

Notes: 1 > FP1

7._SCA_3 GC-08-169-4-12

identical
92 shared markers

View View all Clone Any

Mars Center for Cocoa Science, Brazil

Location: Tree: 7

Notes: 7

8._SCA_3 GC-08-169-4-12

identical
92 shared markers

View View all Clone Any

Mars Center for Cocoa Science, Brazil

Location: Tree: 2

Notes: 2 > FP2

9._SCA_3

identical
40 shared markers

View View all Clone Any

Mars Center for Cocoa Science, Brazil

Location: 8412 10

Dapeng Zhang, 2016

10._SCA_3

identical
40 shared markers

View View all Clone Any

Mars Center for Cocoa Science, Brazil

Location: 8412 3 > FP

Dapeng Zhang, 2016

11._SCA_3

identical
40 shared markers

View View all Clone Any

Mars Center for Cocoa Science, Brazil

Location: 8412 2 > FP

Dapeng Zhang, 2016

12._SCA_3

identical
40 shared markers

View View all Clone Any

Mars Center for Cocoa Science, Brazil

Location: 8412 1 > FP

Dapeng Zhang, 2016

13._SCA_3

identical
40 shared markers

View View all Clone Any

Mars Center for Cocoa Science, Brazil

Location: 8412 11

Dapeng Zhang, 2016

14._SCA_3

identical
40 shared markers

View View all Clone Any

Mars Center for Cocoa Science, Brazil

Location: 8412 9

Dapeng Zhang, 2016

15._SCA_3

identical
40 shared markers

View View all Clone Any

Mars Center for Cocoa Science, Brazil

Location: 8412 7

Dapeng Zhang, 2016

16._SCA_3

identical
40 shared markers

View View all Clone Any

Mars Center for Cocoa Science, Brazil

Location: 8412 5

Dapeng Zhang, 2016

17._SCA_3

identical
40 shared markers

View View all Clone Any

Mars Center for Cocoa Science, Brazil

Location: 8412 4

Dapeng Zhang, 2016

18._SCA_3

97.4 %
39 shared markers

View View all Clone Any

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

Location: 6B A26 T8

Dapeng Zhang, 2016

19._SCA_3 GC-01-123-6-20

51.9 %
79 shared markers

View View all Clone Any

Mars Center for Cocoa Science, Brazil

Location: Field: 1, Block: 6, Rep: 20, Tree: 2 > FP1

Notes: MCCS_Structure_refs_above_0.9membership

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	TcSNP860	18	TcSNP1062	19	TcSNP836	20	TcSNP878
21	TcSNP929	22	TcSNP413	23	TcSNP653	24	TcSNP1149	25	TcSNP174
26	TcSNP32	27	TcSNP372	28	TcSNP448	29	TcSNP872	30	TcSNP953
31	TcSNP1034	32	TcSNP1175	33	TcSNP1111	34	TcSNP577	35	TcSNP90
36	TcSNP998	37	TcSNP150	38	TcSNP28	39	TcSNP751	40	TcSNP1484
41	TcSNP602	42	TcSNP561	43	TcSNP894	44	TcSNP1063	45	TcSNP1126
46	TcSNP1270	47	TcSNP606	48	TcSNP329	49	TcSNP689	50	TcSNP944
51	TcSNP1242	52	TcSNP1383	53	TcSNP547	54	TcSNP776	55	TcSNP151
56	TcSNP1520	57	TcSNP899	58	TcSNP226	59	TcSNP1439	60	TcSNP1442
61	TcSNP193	62	TcSNP25	63	TcSNP364	64	TcSNP144	65	TcSNP230
66	TcSNP560	67	TcSNP723	68	TcSNP731	69	TcSNP701	70	TcSNP1041
71	TcSNP645	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