SNP Profiles of PA-175   View Data

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 Key

 1234567891011121314
_Input profile
ACCCAGACAAGGAGCCAAGGGGAAAAAC
1._RUQ_37
ACCCAGACAAGGAGCCAAGGGGAAAAAC
2._MITC-000016
ACCCAGACAAGGAGCCAAGGGGAAAAAC
3._RUQ_37
____________AG______________
4._PA_175_[PER]
__________CCAG__AA__________
5._PA_175_[PER]
__________CCAG__AA__________
6._PA_175_[PER]
__________CCAG__AA__________
7._PA_175_[PER]
__________CCAG__AA__________
8._RUQ_37
__________CCAG__AA__________
9._PA_175_[PER]
__________CCAG__AA__________
10._PA_175_[PER]
__________CCAG__AA__________
11._NA
ACCCAGACTTCCAGGGAACCGGTTTTGT
12._NA
ACCCAGACTTCCAGGGAACCGGTTTTGT
13._NA
ACCCAGACTTCCAGGGAACCGGTTTTGT
14._NA
ACCCAGACTTCCAGGGAACCGGTTTTGT
15._RUQ_37
__________CC__GG____GG______
 1516171819202122232425262728
_Input profile
AAAAGGAGACGGAAAGCCAGCGGGCCGG
1._RUQ_37
AAAAGGAGACGGAAAGCCAGCGGGCCGG
2._MITC-000016
AAAAGGAGACGGAAAGCCAGCGGGCCGG
3._RUQ_37
__TT____________CC__CG______
4._PA_175_[PER]
__TTCC__AC__TT__CCCTCGGGGGCC
5._PA_175_[PER]
__TTCC__AC__TT__CCCTCGGGGGCC
6._PA_175_[PER]
__TTCC__AC__TT__CCCTCGGGGGCC
7._PA_175_[PER]
__TTCC__AC__TT__CCCTCGGGGGCC
8._RUQ_37
__TTCC__AC__TT__CCCTCGGGGGCC
9._PA_175_[PER]
__TTCC__AC__TT__CCCTCGGGGGCC
10._PA_175_[PER]
__TTCC__AC__TT__CCCTCGGGGGCC
11._NA
TTTTCCTTACGGTTCTCCCTCGGGGGCC
12._NA
TTTTCCTTACGGTTCTCCCTCGGGGGCC
13._NA
TTTTCCTTACGGTTCTCCCTCGGGGGCC
14._NA
TTTTCCTTACGGTTCTCCCTCGGGGGCC
15._RUQ_37
__TT__CT______CTCCCTCGGGGGCC
 2930313233343536373839404142
_Input profile
GGTTGGAAGGGGGGGGGGCCTTATGGGG
1._RUQ_37
GGTTGGAAGGGGGGGGGGCCTTATGGGG
2._MITC-000016
GGTTGGAAGGGGGGGGGGCCTTATGGGG
3._RUQ_37
__________GG____________GG__
4._PA_175_[PER]
CC____AACCGG__CCGG____AT____
5._PA_175_[PER]
CC____AACCGG__CCGG____AT____
6._PA_175_[PER]
CC____AACCGG__CCGG____AT____
7._PA_175_[PER]
CC____AACCGG__CCGG____AT____
8._RUQ_37
CC____AACCGG__CCGG____AT____
9._PA_175_[PER]
CC____AACCGG__CCGG____AT____
10._PA_175_[PER]
CC____AACCGG__CCGG____AT____
11._NA
CCAAGGAACCGGGGCCGG__AAATGGGG
12._NA
CCAAGGAACCGGGGCCGGGGAAATGGGG
13._NA
CCAAGGAACCGGGGCCGGGGAAATGGGG
14._NA
CCAAGGAACCGGGGCCGGGGAAATGGGG
15._RUQ_37
____GGAACCGG__CC________GGGG
 4344454647484950515253545556
_Input profile
AAAGGGGGGGATGGGGCCACAGACGGCG
1._RUQ_37
AAAGGGGGGGATGGGGCCACAGACGGCG
2._MITC-000016
AAAGGGGGGGATGGGGCCACAGACGGCG
3._RUQ_37
__________________AA______CG
4._PA_175_[PER]
AA______GG________AC__GT__CG
5._PA_175_[PER]
AA______GG________AC__GT__CG
6._PA_175_[PER]
AA______GG________AC__GT__CG
7._PA_175_[PER]
AA______GG________AC__GT__CG
8._RUQ_37
AA______GG________AC__GT__CG
9._PA_175_[PER]
AA______GG________AC__GT__CG
10._PA_175_[PER]
AA______GG________AC__GT__CG
11._NA
AACTGGGGGGATCC__CCACAGGTGGCG
12._NA
AACTGGGGGGATCC__CCACAGGTGGCG
13._NA
AACTGGGGGGATCC__CCACAGGTGGCG
14._NA
AACTGGGGGGATCC__CCACAGGTGGCG
15._RUQ_37
AA__________CC____AC__GT__CG
 5758596061626364656667686970
_Input profile
ACGGAAAAGGAACCAGAAAACCAAAACG
1._RUQ_37
ACGGAAAAGGAACCAGAAAACCAAAACG
2._MITC-000016
ACGGAAAAGGAACCAGAAAACCAAAACG
3._RUQ_37
AC__TT______GGAG________AATT
4._PA_175_[PER]
AC____TT____GG______________
5._PA_175_[PER]
AC____TT____GG______________
6._PA_175_[PER]
AC____TT____GG______________
7._PA_175_[PER]
AC____TT____GG______________
8._RUQ_37
AC____TT____GG______________
9._PA_175_[PER]
AC____TT____GG______________
10._PA_175_[PER]
AC____TT__________________TT
11._NA
ACCCTTTTAAAAGGAGTTTTGGTTAACG
12._NA
ACCCTTTTAAAAGGAGTTTTGGTTAACG
13._NA
ACCCTTTTAAAAGGAGTTTTGGTTAACG
14._NA
ACCCTTTTAAAAGGAGTTTTGGTTAACG
15._RUQ_37
AC__TTTT____GGAGTT____TTAA__
 717273747576777879808182  
_Input profile
GGCCGGGGAGCCAGCGGGAAAAAAX_XX_X
1._RUQ_37
GGCCGGGGAGCCAGCGGGAAAAAAX_XX_X
2._MITC-000016
GGCCGGGGAGCCAGCGGGAAAAAAX_XX_X
3._RUQ_37
__GG____AG____________AAX_XX_X
4._PA_175_[PER]
__GGCC______CTCG__AATTAAX_XX_X
5._PA_175_[PER]
__GGCC______CTCG__AATTAAX_XX_X
6._PA_175_[PER]
__GGCC______CTCG__AATTAAX_XX_X
7._PA_175_[PER]
__GGCC______CTCG__AATTAAX_XX_X
8._RUQ_37
__GGCC______CTCG__AATTAAX_XX_X
9._PA_175_[PER]
__GGCC______CTCG__AATTAAX_XX_X
10._PA_175_[PER]
__GGCC______CTCG__AATTAAX_XX_X
11._NA
__GGCCCCAGCCCTCGCCAATTAAX_XX_X
12._NA
__GGCCCCAGCCCTCGCCAATTAAX_XX_X
13._NA
__GGCCCCAGCCCTCGCCAATTAAX_XX_X
14._NA
__GGCCCCAGCCCTCGCCAATTAAX_XX_X
15._RUQ_37
__GGCC____CC__________AAX_XX_X

Input profile: PA_175_[PER] -

 
Mars Center for Cocoa Science, Brazil
Location: Field: 8, Block: 1, Rep: 27, Tree: 5
Notes: MCCS_Structure_refs_above_0.9membership
 Mars, 2018

1._PA_175_[PER] RUQ_37

identical
82 shared markers

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

2._PA_175_[PER] MITC-000016

identical
82 shared markers

USDA-SHRS, United States of America
 Mars, 2018

3._PA_175_[PER] RUQ_37

67.6 %
17 shared markers

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

4._PA_175_[PER]

51.4 %
35 shared markers

Mars Center for Cocoa Science, Brazil
Location: 8127 5
 Dapeng Zhang, 2016
Population Assignment: 
 Dapeng Zhang, 2016

5._PA_175_[PER]

51.4 %
35 shared markers

Mars Center for Cocoa Science, Brazil
Location: 8127 8
 Dapeng Zhang, 2016

6._PA_175_[PER]

51.4 %
35 shared markers

Mars Center for Cocoa Science, Brazil
Location: 8127 9
 Dapeng Zhang, 2016

7._PA_175_[PER]

51.4 %
35 shared markers

Mars Center for Cocoa Science, Brazil
Location: 8127 12
 Dapeng Zhang, 2016

8._PA_175_[PER] RUQ_37

51.4 %
35 shared markers

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

9._PA_175_[PER]

51.4 %
35 shared markers

International Cocoa Genebank, Trinidad (ICG,T), Trinidad and Tobago
Location: Marper D 738
 Dapeng Zhang, 2016

10._PA_175_[PER]

51.4 %
35 shared markers

International Cocoa Genebank, Trinidad (ICG,T), Trinidad and Tobago
Location: 5B F473 T6
 Dapeng Zhang, 2014

11._PA_175_[PER] NA

50.6 %
79 shared markers

Mars Center for Cocoa Science, Brazil
Location: Tree: 5
Notes: 5
 Mars, 2018

12._PA_175_[PER] NA

50 %
80 shared markers

Mars Center for Cocoa Science, Brazil
Location: Tree: 8
Notes: 8
 Mars, 2018

13._PA_175_[PER] NA

50 %
80 shared markers

Mars Center for Cocoa Science, Brazil
Location: Tree: 9
Notes: 9
 Mars, 2018

14._PA_175_[PER] NA

50 %
80 shared markers

Mars Center for Cocoa Science, Brazil
Location: Tree: 12
Notes: 12
 Mars, 2018

15._PA_175_[PER] RUQ_37

47.2 %
36 shared markers

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

 


  Key to SNP Markers

1Tcm001s00947643 2Tcm003s01336581 3Tcm003s07402719 4Tcm006s26664133 5TcSNP1034
6TcSNP1060 7TcSNP1062 8TcSNP1063 9TcSNP1075 10TcSNP1096
11TcSNP1111 12TcSNP1149 13TcSNP1156 14TcSNP1175 15TcSNP122
16TcSNP1253 17TcSNP1270 18TcSNP1309 19TcSNP1350 20TcSNP1383
21TcSNP1414 22TcSNP1439 23TcSNP144 24TcSNP1442 25TcSNP1458
26TcSNP1484 27TcSNP150 28TcSNP151 29TcSNP1520 30TcSNP154
31TcSNP174 32TcSNP193 33TcSNP226 34TcSNP230 35TcSNP240
36TcSNP242 37TcSNP25 38TcSNP28 39TcSNP316 40TcSNP32
41TcSNP329 42TcSNP364 43TcSNP372 44TcSNP413 45TcSNP418
46TcSNP42 47TcSNP429 48TcSNP430 49TcSNP448 50TcSNP497
51TcSNP521 52TcSNP529 53TcSNP547 54TcSNP560 55TcSNP561
56TcSNP577 57TcSNP591 58TcSNP60 59TcSNP602 60TcSNP619
61TcSNP653 62TcSNP689 63TcSNP723 64TcSNP731 65TcSNP75
66TcSNP751 67TcSNP776 68TcSNP799 69TcSNP823 70TcSNP836
71TcSNP860 72TcSNP872 73TcSNP891 74TcSNP894 75TcSNP899
76TcSNP90 77TcSNP917 78TcSNP929 79TcSNP944 80TcSNP953
81TcSNP994 82TcSNP998