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._RUQ_1531
AACCCCCC____CCCCGG_CC_
9._PA_156_[PER]
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._RUQ_1531
__GG__CG____ATAA_GG
9._PA_156_[PER]
__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._RUQ_1531
AA___CG_AGGG__AG___
9._PA_156_[PER]
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
GGTTTTAAGGAACCCCGGAGGGTTCCCC
1._GC-05-137-3-39
GGTTTTAAGGAACCCCGGAGGGTTCCCC
2._GC-05-137-3-39
GGTTTTAAGGAACCCCGGAGGGTT_CC
3._GC-05-137-3-39
GGTTTTAAGGAACCCCGGAGGGTTCCCC
4._PA_156_[PER]
__TT_________CCCC
5._PA_156_[PER]
__TT_________CCCC
6._PA_156_[PER]
__TT_________CCCC
7._PA_156_[PER]
__TT_________CCCC
8._RUQ_1531
__TT_________CCCC
9._PA_156_[PER]
__TT_________CCCC
10._PA_156_[PER]
__TT__________CC
11._PA_156_[PER]
__TT_________CCCC
12._GC-05-137-3-39
GGTTTTAAGGAACCCCGGAGGGTTCCCC
13._RUQ_1531
GGTT__GG______TTCC_
14._PA_186_[PER]
__TT_________CCCC
15._EET_400_[ECU]
__TT_________CTCC
16._RUQ_1569
GGTT__GG______CTCC_
17._RUQ_1564
GGTT__GG______CTCC_
 5758596061626364656667686970
_Input profile
TTAGCCCTCTAAGGGGACAATTGGGGCT
1._GC-05-137-3-39
TTAGCCCTCTAAGGGGACAATTGGGGCT
2._GC-05-137-3-39
TTAGCCCTCTAAGGGGACAATTGGGGCT
3._GC-05-137-3-39
TTAGCCCTCTAAGGGGACAATTGGGGCT
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._RUQ_1531
__CC_CTAAGG_ACAATTGG__
9._PA_156_[PER]
__CC_CTAAGG_ACAATTGG__
10._PA_156_[PER]
__CC_CTAAGG_ACAATTGG__
11._PA_156_[PER]
____CTAAGG_ACAATTGG__
12._GC-05-137-3-39
TTAGCCCTCTAAGGGGACAATTGGGGCT
13._RUQ_1531
TTGGCCCTCTAA_GGACAATTGGGG_
14._PA_186_[PER]
__CC_CTAAGG_ACAATT-__
15._EET_400_[ECU]
__CC_CCACGG_ACAATTGG__
16._RUQ_1569
TT-CCCTCCAA_GGACAGGTGGGG_
17._RUQ_1564
TT-CCCTCCAA_GGACAGGTGGGG_
 7172737475767778798081828384
_Input profile
CCAATTCCAGAAAAAGACGGCCATACTT
1._GC-05-137-3-39
CCAATTCCAGAAAAAGACGGCCATACTT
2._GC-05-137-3-39
CCAATTCCAGAAAAAGACGGCCATACTT
3._GC-05-137-3-39
CCAATTCCAGAAAAAGACGGCCATACTT
4._PA_156_[PER]
_AATT_____ACGG___TT
5._PA_156_[PER]
_AATT_____ACGG___TT
6._PA_156_[PER]
_AATT_____ACGG___TT
7._PA_156_[PER]
_AATT_____ACGG___TT
8._RUQ_1531
_AATT_____ACGG___TT
9._PA_156_[PER]
_AATT_____ACGG___TT
10._PA_156_[PER]
_AATT_____ACGG___TT
11._PA_156_[PER]
_AATT_____ACGG___TT
12._GC-05-137-3-39
CCAATTCCAGAAAAAGACGGCCATACTT
13._RUQ_1531
________ACGG__ACTT
14._PA_186_[PER]
_AATT_____ACGG___TT
15._EET_400_[ECU]
_AATT_____ACGG___TT
16._RUQ_1569
________ACCG__AATT
17._RUQ_1564
________ACCG__AATT
 85868788899091929394    
_Input profile
CCCCCTAACTCCTTTTAAGGX_XX_XX_XX_X
1._GC-05-137-3-39
CCCCCTAACTCCTTTTAAGGX_XX_XX_XX_X
2._GC-05-137-3-39
CCCCCTAACTCCTTTTAAGGX_XX_XX_XX_X
3._GC-05-137-3-39
CCCCCTAACTCCTTTTAAGGX_XX_XX_XX_X
4._PA_156_[PER]
CCCC_AA_CCTTTT__X_XX_XX_XX_X
5._PA_156_[PER]
CCCC_AA_CCTTTT__X_XX_XX_XX_X
6._PA_156_[PER]
CCCC_AA_CCTTTT__X_XX_XX_XX_X
7._PA_156_[PER]
CCCC_AA_CCTTTT__X_XX_XX_XX_X
8._RUQ_1531
CCCC_AA_CCTTTT__X_XX_XX_XX_X
9._PA_156_[PER]
CCCC_AA_CCTTTT__X_XX_XX_XX_X
10._PA_156_[PER]
CCCC_AA_CCTTTT__X_XX_XX_XX_X
11._PA_156_[PER]
CC__AA_CCTTTT__X_XX_XX_XX_X
12._GC-05-137-3-39
CCCCCTAACTCCTTTTAAGGX_XX_XX_XX_X
13._RUQ_1531
___AA-CCTT___X_XX_XX_XX_X
14._PA_186_[PER]
CCCC_AA_CCTTTT__X_XX_XX_XX_X
15._EET_400_[ECU]
CTCC_AA_CCTTTT__X_XX_XX_XX_X
16._RUQ_1569
___AACCCCTT___X_XX_XX_XX_X
17._RUQ_1564
___AACCCCTT___X_XX_XX_XX_X

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

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

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

identical
94 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: 1
Notes: 1
 Mars, 2018

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

identical
93 shared markers

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

4._PA_156_[PER]

identical
40 shared markers

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

5._PA_156_[PER]

identical
40 shared markers

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

6._PA_156_[PER]

identical
40 shared markers

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

7._PA_156_[PER]

identical
40 shared markers

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

8._PA_156_[PER] RUQ_1531

identical
40 shared markers

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

9._PA_156_[PER]

identical
40 shared markers

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

10._PA_156_[PER]

identical
39 shared markers

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

11._PA_156_[PER]

identical
38 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 %
94 shared markers

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

13._PA_156_[PER] RUQ_1531

98.8 %
42 shared markers

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

14._PA_186_[PER]

97.6 %
41 shared markers

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

15._EET_400_[ECU]

93.8 %
40 shared markers

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

16._CRUZ_7_/14 RUQ_1569

90.5 %
42 shared markers

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

17._PA_71_[PER] RUQ_1564

90.5 %
42 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 55TcSNP151
56TcSNP1520 57TcSNP799 58TcSNP899 59TcSNP226 60TcSNP1439
61TcSNP1442 62TcSNP193 63TcSNP25 64TcSNP364 65TcSNP144
66TcSNP230 67TcSNP560 68TcSNP723 69TcSNP731 70TcSNP701
71TcSNP1041 72TcSNP645 73TcSNP917 74Tcm003s01336581 75Tcm003s07402719
76Tcm001s00947643 77Tcm006s26664133 78Tcm002s20575712 79TcSNP529 80TcSNP1458
81TcSNP60 82TcSNP430 83TcSNP823 84TcSNP619 85TcSNP994
86TcSNP1144 87TcSNP1156 88TcSNP469 89TcSNP999 90TcSNP242
91TcSNP1253 92TcSNP1414 93TcSNP154 94TcSNP240