SNP Profiles of UF 676   View Data

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 Key

 1234567891011121314
_Input profile
AAAACTACAGAGCTCCCTCTGGCTCCCT
1._GC-08-080-2-03
AAAACTACAGAGCTCCCTCTGGCTCCCT
2._GC-08-080-2-03
AAAACTACAGAGCTCCCTCTGGCTCCCT
3._GC-08-080-2-03
AAAACTACAGAGCTCCCTCTGGCTCCCT
4._UF_676
AAAACTAC________CTCTGG__CC__
5._UF_676
AAAACTAC________CTCTGG__CC__
6._UF_676
AAAACTAC________CTCTGG__CC__
7._UF_676
AAAACTAC________CTCTGG__CC__
8._UF_676
AAAACTAC________CTCTGG__CC__
9._RUQ_56
AAAACTAC________CTCTGG__CC__
10._UF_676
AAAACTAC________CTCTGG__CC__
11._RUQ_56
______AC________CT______CC__
12._UF_676
AAAACTAC________CTCTGG__CC__
13._RUQ_56
____CTAA____CT__CT____CTCC__
14._RUQ_56
______AC____CT______________
15._RUQ_56
AAAA__ACAGAG__GGAG__GGAGGGAG
16._MITC-000064
AAAA__ACAGAG__GGAG__GGAGGGAG
17._UF_676_Fld#_180_Plt#_2
AAAA__ACAGAG__GGAG__GGAGGGAG
 1516171819202122232425262728
_Input profile
ATCCAAAAGGCGGGCTAGTTAGATATCG
1._GC-08-080-2-03
ATCCAAAAGGCGGGCTAGTTAGATATCG
2._GC-08-080-2-03
ATCCAAAAGGCGGGCTAGTTAGATATCG
3._GC-08-080-2-03
ATCCAAAAGGCGGGCTAGTTAGATATCG
4._UF_676
______AA____GG________ATAT__
5._UF_676
______AA____GG________ATAT__
6._UF_676
______AA____GG________ATAT__
7._UF_676
______AA____GG________ATAT__
8._UF_676
______AA____GG________ATAT__
9._RUQ_56
______AA____GG________ATAT__
10._UF_676
______AA____GG________ATAT__
11._RUQ_56
____AG____CG__CT____AG__ATCG
12._UF_676
______AA____GG________ATAT__
13._RUQ_56
__________CG________AG__ATCG
14._RUQ_56
______AATT__________________
15._RUQ_56
ATCCAGAACC__GGAGAGAAAGATATCG
16._MITC-000064
ATCCAGAACC__GGAGAGAAAGATATCG
17._UF_676_Fld#_180_Plt#_2
ATCCAGAACC__GGAGAGAAAGATATCG
 2930313233343536373839404142
_Input profile
CGAACTGTAGCCACAGGTGGGTAGCCAA
1._GC-08-080-2-03
CGAACTGTAGCCACAGGTGGGTAGCCAA
2._GC-08-080-2-03
CGAACTGTAGCCACAGGTGGGTAGCCAA
3._GC-08-080-2-03
CGAACTGTAGCCACAGGTGGGTAGCCAA
4._UF_676
CGAA______CC__AGGT____AG____
5._UF_676
CGAA______CC__AGGT____AG____
6._UF_676
CGAA______CC__AGGT____AG____
7._UF_676
CGAA______CC__AGGT____AG____
8._UF_676
CGAA______CC__AGGT____AG____
9._RUQ_56
CGAA______CC__AGGT____AG____
10._UF_676
CGAA______CC__AGGT____AG____
11._RUQ_56
CG______AGCC________GT__CC__
12._UF_676
CGAA______CC__AGGT____AG____
13._RUQ_56
CG______AGCCACAGGT____AGCC__
14._RUQ_56
CG________CC__AG________CC__
15._RUQ_56
CGAAAGACAGCCACAGACCCACAGGGAA
16._MITC-000064
CGAAAGACAGCCACAGACCCACAGGGAA
17._UF_676_Fld#_180_Plt#_2
CGAAAGACAGCCACAGACCCACAGGGAA
 4344454647484950515253545556
_Input profile
CCGTATCCAGAGAGCTCCGGGGGTTTCT
1._GC-08-080-2-03
CCGTATCCAGAGAGCTCCGGGGGTTTCT
2._GC-08-080-2-03
CCGTATCCAGAGAGCTCCGGGGGTTTCT
3._GC-08-080-2-03
CCGTATCCAGAGAGCTCCGGGGGTTTCT
4._UF_676
______CC__________________CT
5._UF_676
______CC__________________CT
6._UF_676
______CC__________________CT
7._UF_676
______CC__________________CT
8._UF_676
______CC__________________CT
9._RUQ_56
______CC__________________CT
10._UF_676
______CC__________________CT
11._RUQ_56
____AT__AG________________CT
12._UF_676
______CC__________________CT
13._RUQ_56
__GTAT____AG____________CTCT
14._RUQ_56
__________AG________________
15._RUQ_56
GGAC__GG__AGAGAG__GGGGACAGAG
16._MITC-000064
GGAC__GG__AGAGAG__GGGGACAGAG
17._UF_676_Fld#_180_Plt#_2
GGAC__GG__AGAGAG__GGGGACAGAG
 5758596061626364656667686970
_Input profile
CTGTAGCGCTCTACGGAGACAGGTGTAG
1._GC-08-080-2-03
CTGTAGCGCTCTACGGAGACAGGTGTAG
2._GC-08-080-2-03
CTGTAGCGCTCTACGGAGACAGGTGTAG
3._GC-08-080-2-03
CTGTAGCGCTCTACGGAGACAGGTGTAG
4._UF_676
CT____CG__CTACGG__ACAGGTGT__
5._UF_676
CT____CG__CTACGG__ACAGGTGT__
6._UF_676
CT____CG__CTACGG__ACAGGTGT__
7._UF_676
CT____CG__CTACGG__ACAGGTGT__
8._UF_676
CT____CG__CTACGG__ACAGGTGT__
9._RUQ_56
CT____CG__CTACGG__ACAGGTGT__
10._UF_676
CT____CG__CTACGG__ACAGGTGT__
11._RUQ_56
______CGCT__AC__AGACAG______
12._UF_676
CT____CG__CTACGG__ACAGGTGT__
13._RUQ_56
__GT__CGCTCTAC__AGACAGGTGTAG
14._RUQ_56
____AG____________ACAG__GTAG
15._RUQ_56
AGACAGCGAGAGACGGAGACAGACACAG
16._MITC-000064
AGACAGCGAGAGACGGAGACAGACACAG
17._UF_676_Fld#_180_Plt#_2
AGACAGCGAGAGACGGAGACAGACACAG
 7172737475767778798081828384
_Input profile
CTCCGGTTACAGACAAAGCCCGCTATAC
1._GC-08-080-2-03
CTCCGGTTACAGACAAAGCCCGCTATAC
2._GC-08-080-2-03
CTCCGGTTACAGACAAAGCCCGCTATAC
3._GC-08-080-2-03
CTCCGGTTACAGACAA__CCCGCTATAC
4._UF_676
____GGTT__________CCCG______
5._UF_676
____GGTT__________CCCG______
6._UF_676
____GGTT__________CCCG______
7._UF_676
____GGTT__________CCCG______
8._UF_676
____AGTT__________CCCG______
9._RUQ_56
____AGTT__________CCCG______
10._UF_676
____AGTT__________CCCG______
11._RUQ_56
__CC________________CG______
12._UF_676
____AGTT__________CCGG______
13._RUQ_56
__________________CCCG____AC
14._RUQ_56
____AG____________ACCG____AC
15._RUQ_56
______AAACAGACAA__CCCGAGATAC
16._MITC-000064
______AAACAGACAA__CCCGAGATAC
17._UF_676_Fld#_180_Plt#_2
______AAACAGACAA__CCCGAGATAC
 8586878889909192939495   
_Input profile
CTCTCTTTAGCTCTGTTTATGGX_XX_XX_X
1._GC-08-080-2-03
CTCTCTTTAGCTCTGTTTATGGX_XX_XX_X
2._GC-08-080-2-03
CTCTCTTTAGCTCTGTTTATGGX_XX_XX_X
3._GC-08-080-2-03
CTCTCTTTAGCTCTGTTTATGGX_XX_XX_X
4._UF_676
CTCTCT__AG__CTGTTT____X_XX_XX_X
5._UF_676
CTCTCT__AG__CTGTTT____X_XX_XX_X
6._UF_676
CTCTCT__AG__CTGTTT____X_XX_XX_X
7._UF_676
CTCTCT__AG__CTGTTT____X_XX_XX_X
8._UF_676
CTCTCT__AG__CTGTTT____X_XX_XX_X
9._RUQ_56
CTCTCT__AG__CTGTTT____X_XX_XX_X
10._UF_676
CTCTCT__AG__CTGTTT____X_XX_XX_X
11._RUQ_56
__CT__________________X_XX_XX_X
12._UF_676
CTCTCT__AG__CTGTTT____X_XX_XX_X
13._RUQ_56
CT______AGCCCTGT______X_XX_XX_X
14._RUQ_56
____CT____CT__GT______X_XX_XX_X
15._RUQ_56
AGAG__AA____AGAAAAATGGX_XX_XX_X
16._MITC-000064
AGAG__AA____AGAAAAATGGX_XX_XX_X
17._UF_676_Fld#_180_Plt#_2
AGAG__AA____AGAAAAATGGX_XX_XX_X

Input profile: UF_676 GC-08-080-2-03

 
Mars Center for Cocoa Science, Brazil
Location: Tree: 3
Notes: 3 > FP2
 Mars, 2018

1._UF_676 GC-08-080-2-03

identical
95 shared markers

Mars Center for Cocoa Science, Brazil
Location: Tree: 6
Notes: 6 > FP4
 Mars, 2018

2._UF_676 GC-08-080-2-03

identical
95 shared markers

Mars Center for Cocoa Science, Brazil
Location: Tree: 2
Notes: 2 > FP1
 Mars, 2018

3._UF_676 GC-08-080-2-03

identical
94 shared markers

Mars Center for Cocoa Science, Brazil
Location: Tree: 4
Notes: 4 > FP3
 Mars, 2018

4._UF_676

identical
40 shared markers

Mars Center for Cocoa Science, Brazil
Location: 8203 3 > FP
 Dapeng Zhang, 2016
Population Assignment: 
 Dapeng Zhang, 2016

5._UF_676

identical
40 shared markers

Mars Center for Cocoa Science, Brazil
Location: 8203 4 > FP
 Dapeng Zhang, 2016

6._UF_676

identical
40 shared markers

Mars Center for Cocoa Science, Brazil
Location: 8203 5 > FP
 Dapeng Zhang, 2016

7._UF_676

identical
40 shared markers

Mars Center for Cocoa Science, Brazil
Location: 8203 7 > FP
 Dapeng Zhang, 2016

8._UF_676

98.8 %
40 shared markers

Centro Agronómico Tropical de Investigación y Enseñanza (CATIE), Costa Rica
Location: Cabiria
 Dapeng Zhang, 2016

9._UF_676 RUQ_56

98.8 %
40 shared markers

International Cocoa Quarantine Centre, Reading (ICQC,R), United Kingdom
 Dapeng Zhang, 2016

10._UF_676

98.8 %
40 shared markers

Malaysian Cocoa Board (MCB), Malaysia
Location: C0245
 Dapeng Zhang, 2016

11._UF_676 RUQ_56

98.1 %
26 shared markers

International Cocoa Quarantine Centre, Reading (ICQC,R), United Kingdom
Location: GBR207
 Jocelyn De Wever et al., 2019

12._UF_676

97.5 %
40 shared markers

Indonesian Coffee and Cocoa Research Institute (ICCRI), Indonesia
Location: KW 293 I-043
 Dapeng Zhang, 2016

13._UF_676 RUQ_56

96.4 %
42 shared markers

International Cocoa Quarantine Centre, Reading (ICQC,R), United Kingdom
 Dapeng Zhang, 2014

14._UF_676 RUQ_56

90.5 %
21 shared markers

International Cocoa Quarantine Centre, Reading (ICQC,R), United Kingdom
 Lambert Motilal, 2023

15._UF_676 RUQ_56

56.2 %
81 shared markers

International Cocoa Quarantine Centre, Reading (ICQC,R), United Kingdom
Notes: Reading_Collection
 Mars, 2018

16._UF_676 MITC-000064

56.2 %
81 shared markers

USDA-SHRS, United States of America
 Mars, 2018

17._UF_676 UF_676_Fld#_180_Plt#_2

56.2 %
81 shared markers

USDA-TARS, United States of America
Location: Field: 180, Tree: 2
 Mars, 2018

 


  Key to SNP Markers

1TcSNP1075 2TcSNP1350 3TcSNP534 4TcSNP591 5TcSNP42
6TcSNP418 7TcSNP702 8TcSNP1096 9TcSNP1060 10TcSNP1165
11TcSNP429 12TcSNP75 13TcSNP891 14TcSNP122 15TcSNP316
16TcSNP521 17TcSNP860 18TcSNP1062 19TcSNP836 20TcSNP878
21TcSNP929 22TcSNP413 23TcSNP653 24TcSNP1149 25TcSNP174
26TcSNP32 27TcSNP372 28TcSNP448 29TcSNP872 30TcSNP953
31TcSNP1034 32TcSNP1175 33TcSNP1111 34TcSNP577 35TcSNP90
36TcSNP998 37TcSNP150 38TcSNP28 39TcSNP751 40TcSNP1484
41TcSNP602 42TcSNP561 43TcSNP894 44TcSNP1063 45TcSNP1126
46TcSNP1270 47TcSNP606 48TcSNP329 49TcSNP689 50TcSNP944
51TcSNP1242 52TcSNP1383 53TcSNP547 54TcSNP776 55TcSNP1309
56TcSNP151 57TcSNP1520 58TcSNP799 59TcSNP899 60TcSNP226
61TcSNP1439 62TcSNP1442 63TcSNP193 64TcSNP25 65TcSNP364
66TcSNP144 67TcSNP230 68TcSNP560 69TcSNP723 70TcSNP731
71TcSNP701 72TcSNP1041 73TcSNP645 74TcSNP917 75Tcm003s01336581
76Tcm003s07402719 77Tcm001s00947643 78Tcm006s26664133 79Tcm002s20575712 80TcSNP529
81TcSNP1458 82TcSNP60 83TcSNP430 84TcSNP823 85TcSNP619
86TcSNP994 87TcSNP1144 88TcSNP1156 89TcSNP469 90TcSNP999
91TcSNP242 92TcSNP1253 93TcSNP1414 94TcSNP154 95TcSNP240