SNP Profiles matching PA-156

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 Key

 1234567891011121314
_Input profile
AACCCCCCGGAGCTCCCCCCGGTTCCTT
1._GC-05-137-3-39
AACCCCCCGGAGCTCCCCCCGGTTCCTT
2._GC-05-137-3-39
AACCCCCCGGAGCTCCCCCCGGTTCCTT
3._GC-05-137-3-39
AACCCCCCGGAGCTCCCCCCGGTTCCTT
4._PA_156_[PER]
AACCCCCC____CCCCGG_CC_
5._PA_156_[PER]
AACCCCCC____CCCCGG_CC_
6._PA_156_[PER]
AACCCCCC____CCCCGG_CC_
7._PA_156_[PER]
AACCCCCC____CCCCGG_CC_
8._PA_156_[PER]
AACCCCCC____CCCCGG_CC_
9._RUQ_1531
AACCCCCC____CCCCGG_CC_
10._PA_156_[PER]
AACCCCCC____CCCCGG_CC_
11._PA_156_[PER]
AACCCCCC____CCCCGG_CC_
12._GC-05-137-3-39
AACCCCCCGGAGCTCCCCCCGGTTCCTT
13._RUQ_1531
__CCCC__CT_CC__TTCC_
14._PA_186_[PER]
AACCCCCC____CCCCGG_CC_
15._EET_400_[ECU]
AACCCCCC____CCCCGG_CC_
16._RUQ_1569
__CTCC__CT_CC__TTCC_
17._RUQ_1564
__CTCC__CT_CC__TTCC_
 1516171819202122232425262728
_Input profile
AACCGGCCCCCGTTAATTGGATAACCGG
1._GC-05-137-3-39
AACCGGCCCCCGTTAATTGGATAACCGG
2._GC-05-137-3-39
AACCGGCCCCCGTTAATTGGATAACCGG
3._GC-05-137-3-39
AACCGG_CCCGTTAATTGGATAACCGG
4._PA_156_[PER]
__GG__CG____ATAA_GG
5._PA_156_[PER]
__GG__CG____ATAA_GG
6._PA_156_[PER]
__GG__CG____ATAA_GG
7._PA_156_[PER]
__GG__CG____ATAA_GG
8._PA_156_[PER]
__GG__CG____ATAA_GG
9._RUQ_1531
__GG__CG____ATAA_GG
10._PA_156_[PER]
__GG__CG____ATAA_GG
11._PA_156_[PER]
__GG__CG____ATAA_GG
12._GC-05-137-3-39
AACCGGCCCCCGTTAATTGGATAACCGG
13._RUQ_1531
____CC____GG_AACCGG
14._PA_186_[PER]
__GGTTCCCG____ATAA_GG
15._EET_400_[ECU]
__GG__CG____ATAA_GG
16._RUQ_1569
____CC____GG_AACCGG
17._RUQ_1564
____CC____GG_AACCGG
 2930313233343536373839404142
_Input profile
AATTGTGGCGCCAGGGGGTTAGTTGGCC
1._GC-05-137-3-39
AATTGTGGCGCCAGGGGGTTAGTTGGCC
2._GC-05-137-3-39
AATTGTGGCGCCAGGGGGTTAGTTGGCC
3._GC-05-137-3-39
AATTGTGGCGCCAGGGGGTTAGTTGGCC
4._PA_156_[PER]
AA___CG_AGGG__AG___
5._PA_156_[PER]
AA___CG_AGGG__AG___
6._PA_156_[PER]
AA___CG_AGGG__AG___
7._PA_156_[PER]
AA___CG_AGGG__AG___
8._PA_156_[PER]
AA___CG_AGGG__AG___
9._RUQ_1531
AA___CG_AGGG__AG___
10._PA_156_[PER]
AA___CG_AGGG__AG___
11._PA_156_[PER]
AA___CG_AGGG__AG___
12._GC-05-137-3-39
AATTGTGGCGCCAGGGGGTTAGTTAGCC
13._RUQ_1531
___GGCGCCAGGG__AGTT__
14._PA_186_[PER]
AA___CG_AGGG__AG___
15._EET_400_[ECU]
AA___GG_AGGG__AG___
16._RUQ_1569
___GGCGCCAGGG__AGTT__
17._RUQ_1564
___GGCGCCAGGG__AGTT__
 4344454647484950515253545556
_Input profile
GGTTTTAAGGAACCCCGGAGGGTTCCTT
1._GC-05-137-3-39
GGTTTTAAGGAACCCCGGAGGGTTCCTT
2._GC-05-137-3-39
GGTTTTAAGGAACCCCGGAGGGTTCCTT
3._GC-05-137-3-39
GGTTTTAAGGAACCCCGGAGGGTTCCTT
4._PA_156_[PER]
__TT_________CC_
5._PA_156_[PER]
__TT_________CC_
6._PA_156_[PER]
__TT_________CC_
7._PA_156_[PER]
__TT_________CC_
8._PA_156_[PER]
__TT_________CC_
9._RUQ_1531
__TT_________CC_
10._PA_156_[PER]
__TT_________CC_
11._PA_156_[PER]
__TT_________CC_
12._GC-05-137-3-39
GGTTTTAAGGAACCCCGGAGGGTTCCTT
13._RUQ_1531
GGTT__GG______TT_TT
14._PA_186_[PER]
__TT_________CC_
15._EET_400_[ECU]
__TT_________CC_
16._RUQ_1569
GGTT__GG______CT_TT
17._RUQ_1564
GGTT__GG______CT_TT
 5758596061626364656667686970
_Input profile
AGCCCTCTAAGGGGACAATTGGGGCTCC
1._GC-05-137-3-39
AGCCCTCTAAGGGGACAATTGGGGCTCC
2._GC-05-137-3-39
AGCCCTCTAAGGGGACAATTGGGGCTCC
3._GC-05-137-3-39
AGCCCTCTAAGGGGACAATTGGGGCTCC
4._PA_156_[PER]
_CC_CTAAGG_ACAATTGG___
5._PA_156_[PER]
_CC_CTAAGG_ACAATTGG___
6._PA_156_[PER]
_CC_CTAAGG_ACAATTGG___
7._PA_156_[PER]
_CC_CTAAGG_ACAATTGG___
8._PA_156_[PER]
_CC_CTAAGG_ACAATTGG___
9._RUQ_1531
_CC_CTAAGG_ACAATTGG___
10._PA_156_[PER]
_CC_CTAAGG_ACAATTGG___
11._PA_156_[PER]
___CTAAGG_ACAATTGG___
12._GC-05-137-3-39
AGCCCTCTAAGGGGACAATTGGGGCTCC
13._RUQ_1531
GGCCCTCTAA_GGACAATTGGGG__
14._PA_186_[PER]
_CC_CTAAGG_ACAATT-___
15._EET_400_[ECU]
_CC_CCACGG_ACAATTGG___
16._RUQ_1569
-CCCTCCAA_GGACAGGTGGGG__
17._RUQ_1564
-CCCTCCAA_GGACAGGTGGGG__
 7172737475767778798081828384
_Input profile
AATTCCAGAAAAAGACGGCCATACTTCC
1._GC-05-137-3-39
AATTCCAGAAAAAGACGGCCATACTTCC
2._GC-05-137-3-39
AATTCCAGAAAAAGACGGCCATACTTCC
3._GC-05-137-3-39
AATTCCAGAAAAAGACGGCCATACTTCC
4._PA_156_[PER]
AATT_____ACGG___TTCC
5._PA_156_[PER]
AATT_____ACGG___TTCC
6._PA_156_[PER]
AATT_____ACGG___TTCC
7._PA_156_[PER]
AATT_____ACGG___TTCC
8._PA_156_[PER]
AATT_____ACGG___TTCC
9._RUQ_1531
AATT_____ACGG___TTCC
10._PA_156_[PER]
AATT_____ACGG___TTCC
11._PA_156_[PER]
AATT_____ACGG___TTCC
12._GC-05-137-3-39
AATTCCAGAAAAAGACGGCCATACTTCC
13._RUQ_1531
_______ACGG__ACTT_
14._PA_186_[PER]
AATT_____ACGG___TTCC
15._EET_400_[ECU]
AATT_____ACGG___TTCT
16._RUQ_1569
_______ACCG__AATT_
17._RUQ_1564
_______ACCG__AATT_
 858687888990919293     
_Input profile
CCCTAACTCCTTTTAAGGX_XX_XX_XX_XX_X
1._GC-05-137-3-39
CCCTAACTCCTTTTAAGGX_XX_XX_XX_XX_X
2._GC-05-137-3-39
CCCTAACTCCTTTTAAGGX_XX_XX_XX_XX_X
3._GC-05-137-3-39
CCCTAACTCCTTTTAAGGX_XX_XX_XX_XX_X
4._PA_156_[PER]
CC_AA_CCTTTT__X_XX_XX_XX_XX_X
5._PA_156_[PER]
CC_AA_CCTTTT__X_XX_XX_XX_XX_X
6._PA_156_[PER]
CC_AA_CCTTTT__X_XX_XX_XX_XX_X
7._PA_156_[PER]
CC_AA_CCTTTT__X_XX_XX_XX_XX_X
8._PA_156_[PER]
CC_AA_CCTTTT__X_XX_XX_XX_XX_X
9._RUQ_1531
CC_AA_CCTTTT__X_XX_XX_XX_XX_X
10._PA_156_[PER]
CC_AA_CCTTTT__X_XX_XX_XX_XX_X
11._PA_156_[PER]
__AA_CCTTTT__X_XX_XX_XX_XX_X
12._GC-05-137-3-39
CCCTAACTCCTTTTAAGGX_XX_XX_XX_XX_X
13._RUQ_1531
__AA-CCTT___X_XX_XX_XX_XX_X
14._PA_186_[PER]
CC_AA_CCTTTT__X_XX_XX_XX_XX_X
15._EET_400_[ECU]
CC_AA_CCTTTT__X_XX_XX_XX_XX_X
16._RUQ_1569
__AACCCCTT___X_XX_XX_XX_XX_X
17._RUQ_1564
__AACCCCTT___X_XX_XX_XX_XX_X

Input profile: PA_156_[PER] GC-05-137-3-39

 
Mars Center for Cocoa Science, Brazil
Location: Tree: 1
Notes: 1
 Mars, 2018

1._PA_156_[PER] GC-05-137-3-39

identical
93 shared markers

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

2._PA_156_[PER] GC-05-137-3-39

identical
93 shared markers

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

3._PA_156_[PER] GC-05-137-3-39

identical
92 shared markers

Mars Center for Cocoa Science, Brazil
Location: Tree: 5
Notes: 5 > FP4
 Mars, 2018

4._PA_156_[PER]

identical
39 shared markers

Mars Center for Cocoa Science, Brazil
Location: 5339 5 > FP
 Dapeng Zhang, 2016

5._PA_156_[PER]

identical
39 shared markers

Mars Center for Cocoa Science, Brazil
Location: 5339 4 > FP
 Dapeng Zhang, 2016

6._PA_156_[PER]

identical
39 shared markers

Mars Center for Cocoa Science, Brazil
Location: 5339 3 > FP
 Dapeng Zhang, 2016

7._PA_156_[PER]

identical
39 shared markers

Mars Center for Cocoa Science, Brazil
Location: 5339 2
 Dapeng Zhang, 2016

8._PA_156_[PER]

identical
39 shared markers

Mars Center for Cocoa Science, Brazil
Location: 5339 1
 Dapeng Zhang, 2016
Population Assignment: 
 Dapeng Zhang, 2016

9._PA_156_[PER] RUQ_1531

identical
39 shared markers

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

10._PA_156_[PER]

identical
39 shared markers

Malaysian Cocoa Board (MCB), Malaysia
Location: Plot 1 - Row1 C0184 28
 Dapeng Zhang, 2016

11._PA_156_[PER]

identical
37 shared markers

International Cocoa Genebank, Trinidad (ICG,T), Trinidad and Tobago
Location: 5A D295 T1
 Dapeng Zhang, 2016

12._PA_156_[PER] GC-05-137-3-39

99.5 %
93 shared markers

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

13._PA_156_[PER] RUQ_1531

98.8 %
41 shared markers

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

14._PA_186_[PER]

97.5 %
40 shared markers

International Cocoa Genebank, Trinidad (ICG,T), Trinidad and Tobago
Location: MARPER D 446
 Dapeng Zhang, 2014

15._EET_400_[ECU]

94.9 %
39 shared markers

Malaysian Cocoa Board (MCB), Malaysia
Location: Plot85/Trial II 2B
 Dapeng Zhang, 2016

16._CRUZ_7_/14 RUQ_1569

90.2 %
41 shared markers

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

17._PA_71_[PER] RUQ_1564

90.2 %
41 shared markers

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

 


  Key to SNP Markers

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