SNP Profiles of ICS-1   View Data

 Show/Hide Profiles

 Key

 1234567891011121314
_Input profile
AAAATTACGGAGCCCCTTCTGGCTCCCC
1._NA
AAAATTACGGAGCCCCTTCTGGCTCCCC
2._NA
AAAATTACGGAGCCCCTTCTGGCTCCCC
3._NA
AAAATTACGGAGCCCCTTCTGGCTCCCC
4._NA
AAAATTACGGAGCCCCTTCTGGCTCCCC
5._NA
AAAATTACGGAGCCCCTTCTGGCTCCCC
6._ICS_1
AAAATTAC________TTCTGG__CC__
7._ICS_1
AAAATTAC________TTCTGG__CC__
8._ICS_1
AAAATTAC________TTCTGG__CC__
9._ICS_1
AAAATTAC________TTCTGG__CC__
10._ICS_1
AAAATTAC________TTCTGG__CC__
11._ICS_1
AAAATTAC________TTCTGG__CC__
12._ICS_1
AAAATTAC________TTCTGG__CC__
13._RUQ_847
AAAATTAC________TTCTGG__CC__
14._RUQ_847
____TTAA____CT__TT____CTCC__
15._RUQ_847
AAAACTAC________TTCTGG__CC__
16._RUQ_847
______AC________TT______CC__
17._RUQ_847B
______AC____CT______________
18._RUQ_847
______AC____CT______________
19._ICS_1
AAACCTCC________CCCCGG__CC__
20._ICS1
______CC________CC______CT__
21._RUQ_847
AAAA__ACGGAG__GGAA__GGAGGGGG
22._MITC-000297
AAAA__ACGGAG__GGAA__GGAGGGGG
23._ICS_1_Fld#_73_Plt#_2
AAAA__ACGGAG__GGAA__GGAGGGGG
 1516171819202122232425262728
_Input profile
ATCCAAAAGGCGGGCTAGTTAGATATCG
1._NA
ATCCAAAAGGCGGGCTAGTTAGATATCG
2._NA
ATCCAAAAGGCGGGCTAGTTAGATATCG
3._NA
ATCCAAAAGGCGGGCTAGTTAGATATCG
4._NA
ATCCAAAAGGCGGGCTAGTTAGATATCG
5._NA
ATCCAAAAGGCGGGCTAGTTAGATATCG
6._ICS_1
______AA____GG________ATAT__
7._ICS_1
______AA____GG________ATAT__
8._ICS_1
______AA____GG________ATAT__
9._ICS_1
______AA____GG________ATAT__
10._ICS_1
______AA____GG________ATAT__
11._ICS_1
______AA____GG________ATAT__
12._ICS_1
______AA____GG________ATAT__
13._RUQ_847
______AA____GG________ATAT__
14._RUQ_847
__________CG________AG__ATCG
15._RUQ_847
______AA____GG________ATAT__
16._RUQ_847
____AG____CG__CT____AG__ATCG
17._RUQ_847B
______AATT__________________
18._RUQ_847
______AATT__________________
19._ICS_1
______GG____CG________ATAA__
20._ICS1
____AG____GG__CT____AG__TTGG
21._RUQ_847
ATCCAGAACC__GGAGAGAAAGATATCG
22._MITC-000297
ATCCAGAACC__GGAGAGAAAGATATCG
23._ICS_1_Fld#_73_Plt#_2
ATCCAGAACC__GGAGAGAAAGATATCG
 2930313233343536373839404142
_Input profile
CGAACTGGAACCAAAGGTGGGTAACTAA
1._NA
CGAACTGGAACCAAAGGTGGGTAACTAA
2._NA
CGAACTGGAACCAAAGGTGGGTAACTAA
3._NA
CGAACTGGAACCAAAGGTGGGTAACTAA
4._NA
CGAACTGGAACCAAAGGTGGGTAACTAA
5._NA
CGAACTGGAA__AAAGGTGGGTAACTAA
6._ICS_1
CGAA______CC__AGGT____AA____
7._ICS_1
CGAA______CC__AGGT____AA____
8._ICS_1
CGAA______CC__AGGT____AA____
9._ICS_1
CGAA______CC__AGGT____AA____
10._ICS_1
CGAA______CC__AGGT____AA____
11._ICS_1
CGAA__________AGGT____AA____
12._ICS_1
__AA______CC__AGGT____AA____
13._RUQ_847
CGAA______CC__AGGT____AG____
14._RUQ_847
CG______AACCAAAGGT____AACT__
15._RUQ_847
CGAA______CC__AGGT____AG____
16._RUQ_847
CG______AACC________GT__CT__
17._RUQ_847B
CG________CC__AG________CT__
18._RUQ_847
CG________CC__AG________CT__
19._ICS_1
GGAA______CG__AGGT____GG____
20._ICS1
CG______GGCC________GT__CC__
21._RUQ_847
CGAAAGCCAACCAAAGACCCACAAAGAA
22._MITC-000297
CGAAAGCCAACCAAAGACCCACAAAGAA
23._ICS_1_Fld#_73_Plt#_2
CGAAAGCCAACCAAAGACCCACAAAGAA
 4344454647484950515253545556
_Input profile
CCGTAACCGGAGAGTTCCGGGGGTTTCC
1._NA
CCGTAACCGGAGAGTTCCGGGGGTTTCC
2._NA
CCGTAACCGGAGAGTTCCGGGGGTTTCC
3._NA
CCGTAACCGGAGAGTTCCGGGGGTTTCC
4._NA
CCGTAACCGGAGAGTTCCGGGGGTTTCC
5._NA
CCGTAACCGGAGAGTTCCGGGGGTTTCC
6._ICS_1
______CC__________________CC
7._ICS_1
______CC__________________CC
8._ICS_1
______CC__________________CC
9._ICS_1
______CC__________________CC
10._ICS_1
______CC__________________CC
11._ICS_1
______CC__________________CC
12._ICS_1
______CC__________________CC
13._RUQ_847
______CC__________________CC
14._RUQ_847
__GTAA____AG____________CTCC
15._RUQ_847
______CC__________________CC
16._RUQ_847
____AA__GG________________CC
17._RUQ_847B
__________AG________________
18._RUQ_847
__________AG________________
19._ICS_1
______TT__________________CC
20._ICS1
____TT__AG________________CT
21._RUQ_847
GGAC__GG__AGAGAA__GGGGACAGGG
22._MITC-000297
GGAC__GG__AGAGAA__GGGGACAGGG
23._ICS_1_Fld#_73_Plt#_2
GGAC__GG__AGAGAA__GGGGACAGGG
 5758596061626364656667686970
_Input profile
TTGTAACGTTCTAAGGAAAAAGTTGTGG
1._NA
TTGTAACGTTCTAAGGAAAAAGTTGTGG
2._NA
TTGTAACGTTCTAAGGAAAAAGTTGTGG
3._NA
TTGTAACGTTCTAAGGAAAAAGTTGTGG
4._NA
TTGTAACGTTCTAAGGAAAAAGTTGTGG
5._NA
TTGTAACGTTCTAAGGAAAAAGTTGTGG
6._ICS_1
TT____CG__CTAAGG__AAAGTTGT__
7._ICS_1
TT____CG__CTAAGG__AAAGTTGT__
8._ICS_1
TT____CG__CTAAGG__AAAGTTGT__
9._ICS_1
TT____CG__CTAAGG__AAAGTTGT__
10._ICS_1
TT____CG__CTAAGG__AAAGTTGT__
11._ICS_1
TT____CG__CTAAGG__AAAGTTGT__
12._ICS_1
TT____CG__CTAAGG__AAAGTTGT__
13._RUQ_847
TT____CG__CTAAGG__AAAGTTGT__
14._RUQ_847
__GT__CGTTCTAA__AAAAAGTTGTGG
15._RUQ_847
TT____CG__CTAAGG__AAAGTTGT__
16._RUQ_847
______CGTT__AA__AAAAAG______
17._RUQ_847B
____AA____________AAAG__GTGG
18._RUQ_847
____AA____________AAAG__GTGG
19._ICS_1
CT____CC__CTAAGG__ACAAGGGG__
20._ICS1
______CGCT__AC__AGCCAG______
21._RUQ_847
AAACAACGAAAGAAGGAAAAAGAAACGG
22._MITC-000297
AAACAACGAAAGAAGGAAAAAGAAACGG
23._ICS_1_Fld#_73_Plt#_2
AAACAACGAAAGAAGGAAAAAGAAACGG
 7172737475767778798081828384
_Input profile
CTCCGGTTACGGCCAAAACCGGCTAAAC
1._NA
CTCCGGTTACGGCCAAAACCGGCTAAAC
2._NA
CTCCGGTTACGGCCAAAACCGGCTAAAC
3._NA
CTCCGGTTACGGCCAAAACCGGCTAAAC
4._NA
CTCCGGTTACGGCCAAAACCGGCTAAAC
5._NA
CTCCGGTTACGGCCAAAACCGGCTAAAC
6._ICS_1
____GGTT__________CCGG______
7._ICS_1
____GGTT__________CCGG______
8._ICS_1
____GGTT__________CCGG______
9._ICS_1
____GGTT__________CCGG______
10._ICS_1
____GGTT__________CCGG______
11._ICS_1
____GGTT__________CCGG______
12._ICS_1
____GGTT__________CCGG______
13._RUQ_847
____GGTT__________CCGG______
14._RUQ_847
__________________CCGG____AC
15._RUQ_847
____GGTT__________CCGG______
16._RUQ_847
__CC________________CC______
17._RUQ_847B
____GG____________ACGG____AC
18._RUQ_847
____GG____________ACGG____AC
19._ICS_1
____AATT__________AAGG______
20._ICS1
__CC________________CG______
21._RUQ_847
______AAACGGCCAA__CCCCAGAAAC
22._MITC-000297
______AAACGGCCAA__CCCCAGAAAC
23._ICS_1_Fld#_73_Plt#_2
______AAACGGCCAA__CCCCAGAAAC
 8586878889909192939495   
_Input profile
TTTTTTTTAGCTCTTTTTAAGGX_XX_XX_X
1._NA
TTTTTTTTAGCTCTTTTTAAGGX_XX_XX_X
2._NA
TTTTTTTTAGCTCTTTTTAAGGX_XX_XX_X
3._NA
TTTTTTTTAGCTCTTTTTAAGGX_XX_XX_X
4._NA
TTTTTTTTAGCTCTTTTTAAGGX_XX_XX_X
5._NA
TTTTTTTTAGCTCTTTTTAAGGX_XX_XX_X
6._ICS_1
TTTTTT__AG__CTTTTT____X_XX_XX_X
7._ICS_1
TTTTTT__AG__CTTTTT____X_XX_XX_X
8._ICS_1
TTTTTT__AG__CTTTTT____X_XX_XX_X
9._ICS_1
TTTTTT__AG__CTTTTT____X_XX_XX_X
10._ICS_1
TTTTTT__AG__CTTTTT____X_XX_XX_X
11._ICS_1
TTTTTT__AG__CTTTTT____X_XX_XX_X
12._ICS_1
TTTTTT______CTTTTT____X_XX_XX_X
13._RUQ_847
TTTTTT__AG__CTTTTT____X_XX_XX_X
14._RUQ_847
TT______AG__CTTT______X_XX_XX_X
15._RUQ_847
CTTTCT__AG__CTTTTT____X_XX_XX_X
16._RUQ_847
__TT__________________X_XX_XX_X
17._RUQ_847B
____TT____CT__TT______X_XX_XX_X
18._RUQ_847
____TT____CT__TT______X_XX_XX_X
19._ICS_1
TTTTCC__AG__CCTTTT____X_XX_XX_X
20._ICS1
__CT__________________X_XX_XX_X
21._RUQ_847
AAAA__AA____AGAAAATTGGX_XX_XX_X
22._MITC-000297
AAAA__AA____AGAAAATTGGX_XX_XX_X
23._ICS_1_Fld#_73_Plt#_2
AAAA__AA____AGAAAATTGGX_XX_XX_X

Input profile: ICS_1 NA

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

1._ICS_1 NA

identical
95 shared markers

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

2._ICS_1 NA

identical
95 shared markers

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

3._ICS_1 NA

identical
95 shared markers

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

4._ICS_1 NA

identical
95 shared markers

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

5._ICS_1 NA

identical
94 shared markers

Mars Center for Cocoa Science, Brazil
Location: Tree: 7
Notes: 7
 Mars, 2018

6._ICS_1

identical
40 shared markers

Mars Center for Cocoa Science, Brazil
Location: 8903 8
 Dapeng Zhang, 2016

7._ICS_1

identical
40 shared markers

Mars Center for Cocoa Science, Brazil
Location: 8903 6
 Dapeng Zhang, 2016

8._ICS_1

identical
40 shared markers

Mars Center for Cocoa Science, Brazil
Location: 8903 5
 Dapeng Zhang, 2016

9._ICS_1

identical
40 shared markers

Mars Center for Cocoa Science, Brazil
Location: 8903 3
 Dapeng Zhang, 2016

10._ICS_1

identical
40 shared markers

Mars Center for Cocoa Science, Brazil
Location: 8903 1
 Dapeng Zhang, 2016
Population Assignment: 
 Dapeng Zhang, 2016

11._ICS_1

identical
39 shared markers

Mars Center for Cocoa Science, Brazil
Location: 8903 7
 Dapeng Zhang, 2016

12._ICS_1

identical
38 shared markers

International Cocoa Genebank, Trinidad (ICG,T), Trinidad and Tobago
Location: San Juan Block4
 Dapeng Zhang, 2016

13._ICS_1 RUQ_847

98.8 %
40 shared markers

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

14._ICS_1 RUQ_847

96.3 %
41 shared markers

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

15._ICS_1 RUQ_847

95 %
40 shared markers

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

16._ICS_1 RUQ_847

94.2 %
26 shared markers

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

17._ICS_1 RUQ_847B

90.5 %
21 shared markers

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

18._ICS_1 RUQ_847

90.5 %
21 shared markers

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

19._ICS_1

62.5 %
40 shared markers

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

20._ICS_1 ICS1

57.7 %
26 shared markers

Center for Forestry Research and Technology Transfer, Vietnam
Location: CEFORTT
 Jocelyn De Wever et al., 2019

21._ICS_1 RUQ_847

53.7 %
81 shared markers

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

22._ICS_1 MITC-000297

53.7 %
81 shared markers

USDA-SHRS, United States of America
 Mars, 2018

23._ICS_1 ICS_1_Fld#_73_Plt#_2

53.7 %
81 shared markers

USDA-TARS, United States of America
Location: Field: 73, 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