SNP Profiles of ICS-40   View Data

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 Key

 1234567891011121314
_Input profile
AAAACTACAGAGCTCCCTCTGGCTCCCT
1._GC-01-106-6-03
AAAACTACAGAGCTCCCTCTGGCTCCCT
2._GC-01-106-6-03
AAAACTACAGAGCTCCCTCTGGCTCCCT
3._GC-01-106-6-03
AAAACTACAGAGCTCCCTCTGGCTCCCT
4._GC-01-106-6-03
AAAACTACAGAGCTCCCTCTGGCTCCCT
5._GC-01-106-6-03
AAAACTACAGAGCTCCCTCTGGCTCCCT
6._ICS_40
AAAACTAC____CTCTGG_CC_
7._ICS_40
AAAACTAC____CTCTGG_CC_
8._ICS_40
AAAACTAC____CTCTGG_CC_
9._ICS_40
AAAACTAC____CTCTGG_CC_
10._ICS_40
AAAACTAC____CTCTGG_CC_
11._ICS_40
AAAACTAC____CTCTGG_CC_
12._ICS_40
AAAACTAC____CTCTGG_CC_
13._ICS_40
AAAACTAC____CTCTGG_CC_
14._GC-01-106-6-03
AAAACTACAGAGCTCCCTCTGGCTCCCT
15._GC-01-106-6-03
AAAACTACAGAGCTCCCTCTGGCTCCCT
16._RUQ_1432
__CTAA__CT_CT__CTCC_
17._RUQ_1432
AAAACTAC____CTCTGG_CC_
18._ICS_40
AAAACTAC____CTCTGG_CC_
19._ICS_40
AAAACT_____CTCTGG_CC_
20._RUQ_1432
___AC__CT_______
21._GC-01-106-6-03
AAACCCCCAGAGTTTTCCTTAACTTTCT
22._ICS_40
AAACCTCC____CCCCAG_CC_
23._ICS_40
AAACCCCC____CCTTAA_TT_
24._RUQ_1432
AAAA_ACAGAG_GGAG_GGAGGGAG
 1516171819202122232425262728
_Input profile
ATCCAAAAGGCGGGCTAGTTAGATATCG
1._GC-01-106-6-03
ATCCAAAAGGCGGGCTAGTTAGATATCG
2._GC-01-106-6-03
ATCCAAAAGGCGGGCTAGTTAGATATCG
3._GC-01-106-6-03
ATCCAAAAGGCGGGCTAGTTAGATATCG
4._GC-01-106-6-03
ATCCAAAAGGCGGGCTAGTTAGATATCG
5._GC-01-106-6-03
ATCCAAAAGGCGGGCTAGTTAGATATCG
6._ICS_40
___AA__GG____ATAT_
7._ICS_40
___AA__GG____ATAT_
8._ICS_40
___AA__GG____ATAT_
9._ICS_40
___AA__GG____ATAT_
10._ICS_40
___AA__GG____ATAT_
11._ICS_40
___AA__GG____ATAT_
12._ICS_40
___AA__GG____ATAT_
13._ICS_40
___AA__GG____ATAT_
14._GC-01-106-6-03
ATCCAAAAGGCGGGCTAGTTAGATATCG
15._GC-01-106-6-03
ATCCAAAAGGCGGGCTAGTTAGATATCG
16._RUQ_1432
_____CG____AG_ATCG
17._RUQ_1432
___AA__GG____ATAT_
18._ICS_40
___AA__GG____ATAT_
19._ICS_40
___AA__GG____AT__
20._RUQ_1432
___AATT_________
21._GC-01-106-6-03
ATAAAAGGCCCGGGCCAACTAGATATCG
22._ICS_40
___GG__CG____TTAA_
23._ICS_40
___GG__GG____ATAT_
24._RUQ_1432
ATCCAGAACC_GGAGAGAAAGATATCG
 2930313233343536373839404142
_Input profile
CGAACTGTAGCCACAAGTGGGTAGCCAA
1._GC-01-106-6-03
CGAACTGTAGCCACAAGTGGGTAGCCAA
2._GC-01-106-6-03
CGAACTGTAGCCACAAGTGGGTAGCCAA
3._GC-01-106-6-03
CGAACTGTAGCCACAAGTGGGTAGCCAA
4._GC-01-106-6-03
CGAACTGTAGCCACAAGTGGGTAGCCAA
5._GC-01-106-6-03
CGAACTGTAGCCACAAGTGGGTAGCCAA
6._ICS_40
CGAA___CC_AAGT__AG__
7._ICS_40
CGAA___CC_AAGT__AG__
8._ICS_40
CGAA___CC_AAGT__AG__
9._ICS_40
CGAA___CC_AAGT__AG__
10._ICS_40
CGAA___CC_AAGT__AG__
11._ICS_40
CGAA___CC_AAGT__AG__
12._ICS_40
CGAA___CC_AAGT__AG__
13._ICS_40
CGAA___CC_AAGT__AG__
14._GC-01-106-6-03
CGAACTGTAGCCACAAGTGGGTAGCCAA
15._GC-01-106-6-03
CGAACTGTAGCCACAAGTGG_AGCCAA
16._RUQ_1432
CG___AGCCACAAGT__AGCC_
17._RUQ_1432
CGAA___CC_AAGT__AG__
18._ICS_40
CGAA___CC_AAGT__AG__
19._ICS_40
CGAA___CC_AAGT_____
20._RUQ_1432
CG____CC_AA____CC_
21._GC-01-106-6-03
CCATTTGTGGGGCCAAGGGGTTGGCCGG
22._ICS_40
CGAA___CC_AAGT__GG__
23._ICS_40
CCAT___GG_AAGG__GG__
24._RUQ_1432
CGAAAGACAGCCACAAACCCACAGGGAA
 4344454647484950515253545556
_Input profile
CCGTATCCAGAGAGCTCCGGGGGTTTCT
1._GC-01-106-6-03
CCGTATCCAGAGAGCTCCGGGGGTTTCT
2._GC-01-106-6-03
CCGTATCCAGAGAGCTCCGGGGGTTTCT
3._GC-01-106-6-03
CCGTATCCAGAGAGCTCCGGGGGTTTCT
4._GC-01-106-6-03
CCGTATCCAGAGAGCTCCGGGGGTTTCT
5._GC-01-106-6-03
CCGTATCCAGAGAGCTCCGGGGGTTTCT
6._ICS_40
___CC_________CT
7._ICS_40
___CC_________CT
8._ICS_40
___CC_________CT
9._ICS_40
___CC_________CT
10._ICS_40
___CC_________CT
11._ICS_40
___CC_________CT
12._ICS_40
___CC_________CT
13._ICS_40
___CC_________CT
14._GC-01-106-6-03
CCGTATCCAGAGAGCTCCGGGGGTTTCT
15._GC-01-106-6-03
CCGT_CCAGAGAGCTCCGGGGGTTTCT
16._RUQ_1432
_GTAT__AG______CTCT
17._RUQ_1432
___CC_________CT
18._ICS_40
___CC_________CT
19._ICS_40
______________
20._RUQ_1432
_____AG________
21._GC-01-106-6-03
CCGGTTCTAGGGAGCCACGGAGGTTTTT
22._ICS_40
___CT_________CC
23._ICS_40
___CT_________TT
24._RUQ_1432
GGAC_GG_AGAGAG_GGGGACAGAG
 5758596061626364656667686970
_Input profile
CTGTGGCGCTCTACGGAGACAGGTGTAG
1._GC-01-106-6-03
CTGTGGCGCTCTACGGAGACAGGTGTAG
2._GC-01-106-6-03
CTGTGGCGCTCTACGGAGACAGGTGTAG
3._GC-01-106-6-03
CTGTGGCGCTCTACGGAGACAGGTGTAG
4._GC-01-106-6-03
CTGTGGCGCTCTACGGAGACAGGTGTAG
5._GC-01-106-6-03
CTGTGGCGCTCTACGGAGACAGGTGTAG
6._ICS_40
CT__CG_CTACGG_ACAGGTGT_
7._ICS_40
CT__CG_CTACGG_ACAGGTGT_
8._ICS_40
CT__CG_CTACGG_ACAGGTGT_
9._ICS_40
CT__CG_CTACGG_ACAGGTGT_
10._ICS_40
CT__CG_CTACGG_ACAGGTGT_
11._ICS_40
CT__CG_CTACGG_ACAGGTGT_
12._ICS_40
CT__CG_CTACGG_ACAGGTGT_
13._ICS_40
CT__CG_CT_GG_ACAGGTGT_
14._GC-01-106-6-03
CTGTGGCGCTCT_GGAGACAGGTGTAG
15._GC-01-106-6-03
CTGTGGCGCTCTACGGAGACAGGTGTAG
16._RUQ_1432
_GT-CGCTCTAC_AGACAGGTGTAG
17._RUQ_1432
CT__CG_CTACGG_ACAGGTGT_
18._ICS_40
CT__CG_CTACGG_ACAGGTGT_
19._ICS_40
_____CTACGG_ACAGGTGT_
20._RUQ_1432
__GG______ACAG_GTAG
21._GC-01-106-6-03
CCTTGGCCCCTTCCGGGGACAGGGGTAG
22._ICS_40
CC__GG_TTACCG_CCAATTGG_
23._ICS_40
CC__CC_TTCCGG_ACAGGGGT_
24._RUQ_1432
AGACGGCGAGAGACGGAGACAGACACAG
 7172737475767778798081828384
_Input profile
CTCCGGTTCCAGACAAAGCCCGCTATCC
1._GC-01-106-6-03
CTCCGGTTCCAGACAAAGCCCGCTATCC
2._GC-01-106-6-03
CTCCGGTTCCAGACAAAGCCCGCTATCC
3._GC-01-106-6-03
CTCCGGTTCCAGACAAAGCCCGCTATCC
4._GC-01-106-6-03
CTCCGGTTCCAGACAAAGCCCGCTATCC
5._GC-01-106-6-03
CTCCGGTTCCAGACAAAGCCCGCTATCC
6._ICS_40
__GGTT_____CCCG___
7._ICS_40
__GGTT_____CCCG___
8._ICS_40
__GGTT_____CCCG___
9._ICS_40
__GGTT_____CCCG___
10._ICS_40
__GGTT_____CCCG___
11._ICS_40
__GGTT_____CCCG___
12._ICS_40
__GGTT_____CCCG___
13._ICS_40
__GGTT_____CCCG___
14._GC-01-106-6-03
CTCCGGTTCCAGACAAAGCCCGCTATCC
15._GC-01-106-6-03
_CCGGTTCCAGACAAAGCCCGCTATCC
16._RUQ_1432
_________CCCG__CC
17._RUQ_1432
__AGTT_____CCCG___
18._ICS_40
__AGTT_____CCGG___
19._ICS_40
__AGTT_____CCGG___
20._RUQ_1432
__AG______CCCG__CC
21._GC-01-106-6-03
CTCCAACTACAGACCCAAAACCCCAAAC
22._ICS_40
__AACT_____ACGG___
23._ICS_40
__AACT_____AACC___
24._RUQ_1432
___AACCAGACAA_CCCCAGATCC
 8586878889909192939495   
_Input profile
CTCTCTTTAGCTCTGTTTATGGX_XX_XX_X
1._GC-01-106-6-03
CTCTCTTTAGCTCTGTTTATGGX_XX_XX_X
2._GC-01-106-6-03
CTCTCTTTAGCTCTGTTTATGGX_XX_XX_X
3._GC-01-106-6-03
CTCTCTTTAGCTCTGTTTATGGX_XX_XX_X
4._GC-01-106-6-03
CTCTCTTTAGCTCTGTTTATGGX_XX_XX_X
5._GC-01-106-6-03
CTCTCTTTAGCTCT_TTATGGX_XX_XX_X
6._ICS_40
CTCTCT_AG_CTGTTT__X_XX_XX_X
7._ICS_40
CTCTCT_AG_CTGTTT__X_XX_XX_X
8._ICS_40
CTCTCT_AG_CTGTTT__X_XX_XX_X
9._ICS_40
CTCTCT_AG_CTGTTT__X_XX_XX_X
10._ICS_40
CTCTCT_AG_CTGTTT__X_XX_XX_X
11._ICS_40
CTCTCT_AG_CT_TT__X_XX_XX_X
12._ICS_40
CT_CT_AG_CTGTTT__X_XX_XX_X
13._ICS_40
CTCTCT_AG_CTGTTT__X_XX_XX_X
14._GC-01-106-6-03
CTCTCTTTAGCTCTGTTTCCCCX_XX_XX_X
15._GC-01-106-6-03
CT_CTTTAGCTCTGTTTCCCCX_XX_XX_X
16._RUQ_1432
CT___AG-CTGT___X_XX_XX_X
17._RUQ_1432
CTCTCT_AG_CTGTCT__X_XX_XX_X
18._ICS_40
CTCTCT_AG_CTGTTT__X_XX_XX_X
19._ICS_40
CTCTCT_AG_CTGTTT__X_XX_XX_X
20._RUQ_1432
__CT__CT_GT___X_XX_XX_X
21._GC-01-106-6-03
TTCTCCCCAGCCCCGGCTATGGX_XX_XX_X
22._ICS_40
CTCTCC_AA_TTGTCT__X_XX_XX_X
23._ICS_40
TTCTCC_AG_CCGGCT__X_XX_XX_X
24._RUQ_1432
AGAG_AA__AGAAAAATGGX_XX_XX_X

Input profile: ICS_40 GC-01-106-6-03

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

1._ICS_40 GC-01-106-6-03

identical
95 shared markers

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

2._ICS_40 GC-01-106-6-03

identical
95 shared markers

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

3._ICS_40 GC-01-106-6-03

identical
95 shared markers

Mars Center for Cocoa Science, Brazil
Location: Tree: 11
Notes: 11
 Mars, 2018

4._ICS_40 GC-01-106-6-03

identical
95 shared markers

Mars Center for Cocoa Science, Brazil
Location: Tree: 13
Notes: 13
 Mars, 2018

5._ICS_40 GC-01-106-6-03

identical
94 shared markers

Mars Center for Cocoa Science, Brazil
Location: Tree: 16
Notes: 16
 Mars, 2018

6._ICS_40

identical
40 shared markers

Mars Center for Cocoa Science, Brazil
Location: 1603 4
 Dapeng Zhang, 2016

7._ICS_40

identical
40 shared markers

Mars Center for Cocoa Science, Brazil
Location: 1603 1
 Dapeng Zhang, 2016
Population Assignment: 
 Dapeng Zhang, 2016

8._ICS_40

identical
40 shared markers

Mars Center for Cocoa Science, Brazil
Location: 1603 6
 Dapeng Zhang, 2016

9._ICS_40

identical
40 shared markers

Mars Center for Cocoa Science, Brazil
Location: 1603 11
 Dapeng Zhang, 2016

10._ICS_40

identical
40 shared markers

Mars Center for Cocoa Science, Brazil
Location: 1603 13
 Dapeng Zhang, 2016

11._ICS_40

identical
39 shared markers

Mars Center for Cocoa Science, Brazil
Location: 1603 16
 Dapeng Zhang, 2016

12._ICS_40

identical
39 shared markers

Mars Center for Cocoa Science, Brazil
Location: 1603 4 > FP
 Dapeng Zhang, 2016

13._ICS_40

identical
39 shared markers

Mars Center for Cocoa Science, Brazil
Location: 1603 6 > FP
 Dapeng Zhang, 2016

14._ICS_40 GC-01-106-6-03

97.9 %
94 shared markers

Mars Center for Cocoa Science, Brazil
Location: Field: 1, Block: 6, Rep: 3, Tree: PL6
Notes: PL6 FP4
 Mars, 2018

15._ICS_40 GC-01-106-6-03

97.8 %
91 shared markers

Mars Center for Cocoa Science, Brazil
Location: Field: 1, Block: 6, Rep: 3, Tree: PL4
Notes: PL4 FP3
 Mars, 2018

16._ICS_40 RUQ_1432

97.6 %
41 shared markers

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

17._ICS_40 RUQ_1432

97.5 %
40 shared markers

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

18._ICS_40

97.5 %
40 shared markers

Malaysian Cocoa Board (MCB), Malaysia
Location: C0201 2A
 Dapeng Zhang, 2016

19._ICS_40

97 %
33 shared markers

International Cocoa Genebank, Trinidad (ICG,T), Trinidad and Tobago
Location: San Juan Block2
 Dapeng Zhang, 2016

20._ICS_40 RUQ_1432

92.9 %
21 shared markers

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

21._ICS_40 GC-01-106-6-03

63.2 %
95 shared markers

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

22._ICS_40

62.5 %
40 shared markers

International Cocoa Genebank, Trinidad (ICG,T), Trinidad and Tobago
Location: 6B E287 T4
 Dapeng Zhang, 2016

23._ICS_40

56.3 %
40 shared markers

Mars Center for Cocoa Science, Brazil
Location: 1603 9
 Dapeng Zhang, 2016

24._ICS_40 RUQ_1432

55.6 %
81 shared markers

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