SNP Profiles of "LF 1" View Data

Key

	1	2	3	4	5	6	7	8	9	10	11	12	13	14
1. _GC-08-285-8-57	___	___	GG	GG	AA	___	AA	___	___	TT	CT	AC	CT	___
2. _GC-08-285-8-57	___	___	GG	GG	AA	___	AA	___	___	TT	CT	AC	CT	___
3. _GC-08-285-8-57	___	___	GG	GG	AA	___	AA	___	___	TT	CT	AC	CT	___
4. _GC-08-285-8-57	___	___	GG	GG	AA	___	AA	___	___	TT	CT	AC	CT	___
5. _8857_2	___	___	GG	___	AA	___	___	___	___	___	___	___	___	___
6. _8857_4	___	___	GG	___	AA	___	___	___	___	___	___	___	___	___
7. _8857_7	___	___	GG	___	AA	___	___	___	___	___	___	___	___	___
8. _8857_8	___	___	GG	___	AA	___	___	___	___	___	___	___	___	___
9. _RUQ_17	TT	AC	___	___	___	CT	___	CC	GG	___	___	___	___	GG
10. _RUQ_17	___	___	GG	CC	AA	___	AA	___	___	AA	AG	AC	AG	___
11. _RUQ_17	___	___	___	___	___	___	___	___	___	___	CT	AC	___	___
12. _C0298	___	___	GG	___	AA	___	___	___	___	___	___	___	___	___

	15	16	17	18	19	20	21	22	23	24	25	26	27	28
1. _GC-08-285-8-57	___	AA	GT	CT	TT	AG	___	___	CC	___	GG	GG	GG	TT
2. _GC-08-285-8-57	___	AA	GT	CT	TT	AG	___	___	CC	___	GG	GG	GG	TT
3. _GC-08-285-8-57	___	AA	GT	CT	TT	AG	___	___	CC	___	GG	GG	GG	TT
4. _GC-08-285-8-57	___	AA	GT	CT	TT	AG	___	___	CC	___	GG	GG	GG	TT
5. _8857_2	___	AA	GT	CT	___	___	___	___	CC	___	GG	GG	___	TT
6. _8857_4	___	AA	GT	CT	___	___	___	___	CC	___	GG	GG	___	TT
7. _8857_7	___	AA	GT	CT	___	___	___	___	CC	___	GG	GG	___	TT
8. _8857_8	___	AA	GT	CT	___	___	___	___	CC	___	GG	GG	___	TT
9. _RUQ_17	AT	AA	___	___	___	___	CT	AA	___	GG	___	GG	___	___
10. _RUQ_17	___	AA	AC	AG	AA	AG	___	___	CC	___	CC	GG	GG	AA
11. _RUQ_17	___	AA	GT	CT	___	AG	___	___	CC	___	GG	GG	___	TT
12. _C0298	___	AA	GT	CT	___	___	___	___	CC	___	GG	GG	___	TT

	29	30	31	32	33	34	35	36	37	38	39	40	41	42
1. _GC-08-285-8-57	___	___	AT	AA	___	AG	TT	CT	AG	___	GG	AT	GG	GG
2. _GC-08-285-8-57	___	___	AT	AA	___	AG	TT	CT	AG	___	GG	AT	GG	GG
3. _GC-08-285-8-57	___	___	AT	AA	___	AG	TT	CT	AG	___	GG	AT	GG	GG
4. _GC-08-285-8-57	___	___	AT	AA	___	AG	TT	CT	AG	___	GG	AT	GG	GG
5. _8857_2	___	___	___	___	___	___	TT	___	___	___	GG	___	___	GG
6. _8857_4	___	___	___	___	___	___	TT	___	___	___	GG	___	___	GG
7. _8857_7	___	___	___	___	___	___	TT	___	___	___	GG	___	___	GG
8. _8857_8	___	___	___	___	___	___	TT	___	___	___	GG	___	___	GG
9. _RUQ_17	TT	AC	___	AA	AC	___	___	___	___	CC	___	___	___	___
10. _RUQ_17	___	___	AT	AA	___	AG	TT	AG	AG	___	GG	AT	CC	___
11. _RUQ_17	___	___	___	AA	___	AG	TT	___	___	___	___	___	GG	GG
12. _C0298	___	___	___	___	___	___	TT	___	___	___	GG	___	___	GG

	43	44	45	46	47	48	49	50	51	52	53	54	55	56
1. _GC-08-285-8-57	___	___	CC	___	CC	CC	___	GG	GG	AA	CC	___	CC	CC
2. _GC-08-285-8-57	___	___	CC	___	CC	CC	___	GG	GG	AA	CC	___	CC	CC
3. _GC-08-285-8-57	___	___	CC	___	CC	CC	___	GG	GG	AA	CC	___	CC	CC
4. _GC-08-285-8-57	___	___	CC	___	CC	CC	___	GG	GG	AA	CC	___	CC	CC
5. _8857_2	___	___	___	___	CC	CC	___	___	GG	___	CC	___	CC	___
6. _8857_4	___	___	___	___	CC	CC	___	___	GG	___	CC	___	CC	___
7. _8857_7	___	___	___	___	CC	CC	___	___	GG	___	CC	___	CC	___
8. _8857_8	___	___	___	___	CC	CC	___	___	GG	___	CC	___	CC	___
9. _RUQ_17	___	AC	___	CT	AC	___	AA	___	___	___	CC	AA	CC	CC
10. _RUQ_17	GG	___	CC	___	CC	___	___	GG	CC	AA	CC	___	CC	GG
11. _RUQ_17	___	___	___	___	CC	CC	___	___	GG	___	-	___	CC	-
12. _C0298	___	___	___	___	CC	CC	___	___	GG	___	CC	___	CC	___

	57	58	59	60	61	62	63	64	65	66	67	68	69	70
1. _GC-08-285-8-57	GG	CT	___	___	___	___	AG	___	GG	CC	CT	TT	AA	___
2. _GC-08-285-8-57	GG	CT	___	___	___	___	AG	___	GG	CC	CT	TT	AA	___
3. _GC-08-285-8-57	GG	CT	___	___	___	___	AG	___	GG	CC	CT	TT	AA	___
4. _GC-08-285-8-57	GG	CT	___	___	___	___	AG	___	GG	CC	CT	TT	AA	___
5. _8857_2	___	CT	___	___	___	___	___	___	___	___	___	TT	___	___
6. _8857_4	___	CT	___	___	___	___	___	___	___	___	___	TT	___	___
7. _8857_7	___	CT	___	___	___	___	___	___	___	___	___	TT	___	___
8. _8857_8	___	CT	___	___	___	___	___	___	___	___	___	TT	___	___
9. _RUQ_17	___	___	TT	AG	CG	AG	___	CG	___	___	CC	TT	AA	CT
10. _RUQ_17	___	AG	___	___	___	___	AA	___	AG	___	___	AA	AA	___
11. _RUQ_17	___	CT	___	___	___	___	___	___	___	___	CC	TT	AA	___
12. _C0298	___	CT	___	___	___	AG	___	___	___	___	___	TT	___	___

	71	72	73	74	75	76	77	78	79	80	81	82	83	84
1. _GC-08-285-8-57	GT	GG	GT	___	AC	___	GG	AA	CC	CG	CC	CC	AG	TT
2. _GC-08-285-8-57	GT	GG	GT	___	AC	___	GG	AA	CC	CG	CC	CC	AG	TT
3. _GC-08-285-8-57	GT	GG	GT	___	AC	___	GG	AA	CC	CG	CC	CC	AG	TT
4. _GC-08-285-8-57	GT	GG	GT	___	AC	___	GG	AA	CC	CG	CC	CC	AG	TT
5. _8857_2	___	___	___	___	___	___	___	___	CC	___	CC	___	___	TT
6. _8857_4	___	___	___	___	___	___	___	___	CC	___	CC	___	___	TT
7. _8857_7	___	___	___	___	___	___	___	___	CC	___	CC	___	___	TT
8. _8857_8	___	___	___	___	___	___	___	___	CC	___	CC	___	___	TT
9. _RUQ_17	___	___	___	CT	AC	AA	TT	___	CC	___	___	___	AG	___
10. _RUQ_17	AC	CC	AC	___	AC	___	CC	AA	GG	___	GG	GG	AG	AA
11. _RUQ_17	___	___	GT	___	AC	___	___	___	CC	CG	-	___	-	___
12. _C0298	___	___	___	___	___	___	___	___	CC	___	CC	___	___	TT

	85	86	87	88	89	90	91	92	93	94	95	96	97	98
1. _GC-08-285-8-57	GG	TT	___	AA	CT	AG	CC	___	___	CC	CC	___	CT	AA
2. _GC-08-285-8-57	GG	TT	___	AA	CT	AG	CC	___	___	CC	CC	___	CT	AA
3. _GC-08-285-8-57	GG	TT	___	AA	CT	AG	CC	___	___	CC	CC	___	CT	AA
4. _GC-08-285-8-57	GG	TT	___	AA	CT	AG	CC	___	___	CC	CC	___	CT	AA
5. _8857_2	GG	___	___	AA	CT	AG	___	___	___	___	___	___	CT	AA
6. _8857_4	GG	___	___	AA	CT	AG	___	___	___	___	___	___	CT	AA
7. _8857_7	GG	___	___	AA	CT	AG	___	___	___	___	___	___	CT	AA
8. _8857_8	GG	___	___	AA	CT	AG	___	___	___	___	___	___	CT	AA
9. _RUQ_17	___	___	CG	___	___	AG	CC	TT	AT	___	___	CC	___	AA
10. _RUQ_17	GG	AA	___	AA	AG	AG	___	___	___	GG	___	___	AG	AA
11. _RUQ_17	___	___	___	___	___	AG	CC	___	___	___	___	___	CT	___
12. _C0298	GG	___	___	AA	CT	AG	___	___	___	___	___	___	CT	AA

	99	100	101	102	103	104	105	106	107	108	109	110	111	112
1. _GC-08-285-8-57	TT	AA	CC	AG	___	AA	CC	TT	TT	CT	TT	___	___	___
2. _GC-08-285-8-57	TT	AA	CC	AG	___	AA	CC	TT	TT	CT	TT	___	___	___
3. _GC-08-285-8-57	TT	AA	CC	AG	___	AA	CC	TT	TT	CT	TT	___	___	___
4. _GC-08-285-8-57	TT	AA	CC	AG	___	AA	CC	TT	TT	CT	TT	___	___	___
5. _8857_2	___	AA	___	___	___	___	CC	___	___	CT	___	___	___	___
6. _8857_4	___	AA	___	___	___	___	CC	___	___	CT	___	___	___	___
7. _8857_7	___	AA	___	___	___	___	CC	___	___	CT	___	___	___	___
8. _8857_8	___	AA	___	___	___	___	CC	___	___	CT	___	___	___	___
9. _RUQ_17	___	___	___	___	TT	___	CC	___	___	___	___	GG	AC	CC
10. _RUQ_17	AA	AA	GG	AG	___	___	___	AA	AA	___	AA	___	___	___
11. _RUQ_17	TT	___	___	AG	___	AA	___	___	___	___	___	___	___	___
12. _C0298	___	AA	___	___	___	___	CC	___	___	CT	___	___	___	___

	113	114	115	116	117	118	119	120	121	122	123	124	125	126
1. _GC-08-285-8-57	CC	GG	CC	___	___	TT	AA	GG	___	___	TT	CC	TT	CC
2. _GC-08-285-8-57	CC	GG	CC	___	___	TT	AA	GG	___	___	TT	CC	TT	CC
3. _GC-08-285-8-57	CC	GG	CC	___	___	TT	AA	GG	___	___	TT	CC	TT	CC
4. _GC-08-285-8-57	CC	GG	CC	___	___	TT	AA	GG	___	___	TT	CC	TT	CC
5. _8857_2	___	GG	CC	___	___	___	AA	___	___	___	TT	___	TT	CC
6. _8857_4	___	GG	CC	___	___	___	AA	___	___	___	TT	___	TT	CC
7. _8857_7	___	GG	CC	___	___	___	AA	___	___	___	TT	___	TT	CC
8. _8857_8	___	GG	CC	___	___	___	AA	___	___	___	TT	___	TT	CC
9. _RUQ_17	___	GG	___	GG	TT	___	___	___	GG	GG	___	___	___	CC
10. _RUQ_17	___	___	GG	___	___	AG	AA	GG	___	___	AA	GG	AA	___
11. _RUQ_17	___	-	___	___	___	CT	___	___	___	___	___	CC	TT	CC
12. _C0298	___	GG	CC	___	___	___	AA	___	___	___	TT	___	TT	CC

	127	128	129	130	131	132	133	134	135
1. _GC-08-285-8-57	GG	CC	___	___	AA	GG	AC	AG	AA	X_X	X_X	X_X	X_X	X_X
2. _GC-08-285-8-57	GG	CC	___	___	AA	GG	AC	AG	AA	X_X	X_X	X_X	X_X	X_X
3. _GC-08-285-8-57	GG	CC	___	___	AA	GG	AC	AG	AA	X_X	X_X	X_X	X_X	X_X
4. _GC-08-285-8-57	GG	CC	___	___	AA	GG	AC	AG	AA	X_X	X_X	X_X	X_X	X_X
5. _8857_2	GG	CC	___	___	___	___	___	___	___	X_X	X_X	X_X	X_X	X_X
6. _8857_4	GG	CC	___	___	___	___	___	___	___	X_X	X_X	X_X	X_X	X_X
7. _8857_7	GG	CC	___	___	___	___	___	___	___	X_X	X_X	X_X	X_X	X_X
8. _8857_8	GG	CC	___	___	___	___	___	___	___	X_X	X_X	X_X	X_X	X_X
9. _RUQ_17	___	___	CT	AA	___	___	___	___	___	X_X	X_X	X_X	X_X	X_X
10. _RUQ_17	GG	GG	___	___	AA	___	AC	AG	AA	X_X	X_X	X_X	X_X	X_X
11. _RUQ_17	GG	___	___	___	___	___	___	___	___	X_X	X_X	X_X	X_X	X_X
12. _C0298	GG	CC	___	___	___	___	___	___	___	X_X	X_X	X_X	X_X	X_X

Key

Mars Center for Cocoa Science Brazil

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

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Location: Tree: 2

Notes: 2

Mars, 2018

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

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Location: Tree: 4

Notes: 4

Mars, 2018

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

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Location: Tree: 7

Notes: 7

Mars, 2018

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

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Location: Tree: 8

Notes: 8

Mars, 2018

5._LF_1

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Location: 8857 2

Dapeng Zhang, 2016

Population Assignment:

6._LF_1

Location: 8857 4

7._LF_1

Location: 8857 7

8._LF_1

Location: 8857 8

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

9._LF_1 RUQ 17

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Lambert Motilal, 2023

10._LF_1 RUQ 17

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Notes: Reading_Collection

Mars, 2018

11._LF_1 RUQ 17

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Dapeng Zhang, 2014

Malaysian Cocoa Board (MCB) Malaysia

12._LF_1

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Location: C0298

Dapeng Zhang, 2016

Key to SNP Markers

1	TcSNP13	2	TcSNP19	3	TcSNP25	4	TcSNP28	5	TcSNP32
6	TcSNP33	7	TcSNP42	8	TcSNP49	9	TcSNP52	10	TcSNP60
11	TcSNP75	12	TcSNP90	13	TcSNP122	14	TcSNP131	15	TcSNP143
16	TcSNP144	17	TcSNP150	18	TcSNP151	19	TcSNP154	20	TcSNP174
21	TcSNP176	22	TcSNP189	23	TcSNP193	24	TcSNP194	25	TcSNP226
26	TcSNP230	27	TcSNP240	28	TcSNP242	29	TcSNP290	30	TcSNP305
31	TcSNP316	32	TcSNP329	33	TcSNP363	34	TcSNP364	35	TcSNP372
36	TcSNP413	37	TcSNP418	38	TcSNP421	39	TcSNP429	40	TcSNP430
41	TcSNP448	42	TcSNP469	43	TcSNP497	44	TcSNP519	45	TcSNP521
46	TcSNP522	47	TcSNP529	48	TcSNP534	49	TcSNP546	50	TcSNP547
51	TcSNP560	52	TcSNP561	53	TcSNP577	54	TcSNP589	55	TcSNP591
56	TcSNP602	57	TcSNP606	58	TcSNP619	59	TcSNP640	60	TcSNP642
61	TcSNP644	62	TcSNP645	63	TcSNP653	64	TcSNP660	65	TcSNP689
66	TcSNP701	67	TcSNP702	68	TcSNP723	69	TcSNP731	70	TcSNP739
71	TcSNP751	72	TcSNP776	73	TcSNP799	74	TcSNP800	75	TcSNP823
76	TcSNP835	77	TcSNP836	78	TcSNP860	79	TcSNP872	80	TcSNP878
81	TcSNP891	82	TcSNP894	83	TcSNP899	84	TcSNP917	85	TcSNP929
86	TcSNP944	87	TcSNP945	88	TcSNP953	89	TcSNP994	90	TcSNP998
91	TcSNP999	92	TcSNP1010	93	TcSNP1019	94	TcSNP1034	95	TcSNP1041
96	TcSNP1053	97	TcSNP1060	98	TcSNP1062	99	TcSNP1063	100	TcSNP1075
101	TcSNP1096	102	TcSNP1111	103	TcSNP1112	104	TcSNP1126	105	TcSNP1144
106	TcSNP1149	107	TcSNP1156	108	TcSNP1165	109	TcSNP1175	110	TcSNP1205
111	TcSNP1230	112	TcSNP1237	113	TcSNP1242	114	TcSNP1253	115	TcSNP1270
116	TcSNP1275	117	TcSNP1293	118	TcSNP1309	119	TcSNP1350	120	TcSNP1383
121	TcSNP1401	122	TcSNP1404	123	TcSNP1414	124	TcSNP1439	125	TcSNP1442
126	TcSNP1458	127	TcSNP1484	128	TcSNP1520	129	TcSNP1524	130	TcSNP1527
131	Tcm001s00947643	132	Tcm002s20575712	133	Tcm003s01336581	134	Tcm003s07402719	135	Tcm006s26664133