                         SEQUENCE LISTING

<110>  Takeda Vaccines, Inc.
 
<120>  Qualitative and quantitative determination of single virus 
       haplotypes in complex samples

<130>  T08285WO

<150>  EP20169080.7
<151>  2020-04-09

<160>  31    

<170>  PatentIn version 3.5

<210>  1
<211>  24
<212>  DNA
<213>  artificial

<220>
<223>  artificial

<400>  1
aagacagatt ctttgaggga gcta                                              24


<210>  2
<211>  20
<212>  DNA
<213>  artificial

<220>
<223>  artificial

<400>  2
ggtctgtgaa atgggcttcg                                                   20


<210>  3
<211>  23
<212>  DNA
<213>  artificial

<220>
<223>  artificial

<400>  3
gacagattct ttgagggagc taa                                               23


<210>  4
<211>  20
<212>  DNA
<213>  artificial

<220>
<223>  artificial

<400>  4
gggtctgtga aatgggcttc                                                   20


<210>  5
<211>  23
<212>  DNA
<213>  artificial

<220>
<223>  artificial

<400>  5
acagattctt tgagggagct aag                                               23


<210>  6
<211>  21
<212>  DNA
<213>  artificial

<220>
<223>  artificial

<400>  6
gtctgtgaaa tgggcttcgt c                                                 21


<210>  7
<211>  25
<212>  DNA
<213>  artificial

<220>
<223>  artificial

<400>  7
agacagattc tttgagggag ctaag                                             25


<210>  8
<211>  20
<212>  DNA
<213>  artificial

<220>
<223>  artificial

<400>  8
gtctgtgaaa tgggcttcgt                                                   20


<210>  9
<211>  24
<212>  DNA
<213>  artificial

<220>
<223>  artificial

<400>  9
gacagattct ttgagggagc taag                                              24


<210>  10
<211>  21
<212>  DNA
<213>  artificial

<220>
<223>  artificial

<400>  10
cttgctgggt ctgtgaaatg g                                                 21


<210>  11
<211>  25
<212>  DNA
<213>  artificial

<220>
<223>  artificial

<400>  11
aagacagatt ctttgaggga gctaa                                             25


<210>  12
<211>  21
<212>  DNA
<213>  artificial

<220>
<223>  artificial

<400>  12
tgggtctgtg aaatgggctt c                                                 21


<210>  13
<211>  24
<212>  DNA
<213>  artitificial

<400>  13
agttgttagt ctacgtggac cgac                                              24


<210>  14
<211>  30
<212>  DNA
<213>  artificial

<220>
<223>  artificial

<400>  14
gtgacactgt atttgggagt catggtgcag                                        30


<210>  15
<211>  25
<212>  DNA
<213>  artificial

<220>
<223>  artificial

<400>  15
ggtaatggtg ttgttacaag gagtg                                             25


<210>  16
<211>  24
<212>  DNA
<213>  artificial

<220>
<223>  artificial

<400>  16
aagcccttag aggacttcca ataa                                              24


<210>  17
<211>  24
<212>  DNA
<213>  artificial

<220>
<223>  artificial

<400>  17
tcagcatcct tccaatctct ttcc                                              24


<210>  18
<211>  24
<212>  DNA
<213>  artificial

<220>
<223>  artificial

<400>  18
ccgcagagat cgttttcctg cctg                                              24


<210>  19
<211>  25
<212>  DNA
<213>  artificial

<220>
<223>  artificial

<400>  19
ctaactggtg atagcagcct catgg                                             25


<210>  20
<211>  28
<212>  DNA
<213>  artificial

<220>
<223>  artificial

<400>  20
gaaatgggct tcgtccatga taatcagg                                          28


<210>  21
<211>  25
<212>  DNA
<213>  artificial

<220>
<223>  artificial

<400>  21
aagcagtggt atcaacgcag agtac                                             25


<210>  22
<211>  62
<212>  DNA
<213>  artificial

<220>
<223>  artificial


<220>
<221>  misc_feature
<222>  (26)..(41)
<223>  n is a, c, g, or t

<400>  22
aagcagtggt atcaacgcag agtacnnnnn nnnnnnnnnn ngtctgtgaa atgggcttcg       60

tc                                                                      62


<210>  23
<211>  10723
<212>  DNA
<213>  dengue serotype 2 (MVS)

<400>  23
agttgttagt ctacgtggac cgacaaagac agattctttg agggagctaa gctcaatgta       60

gttctaacag ttttttaatt agagagcaga tctctgatga ataaccaacg gaaaaaggcg      120

aaaaacacgc ctttcaatat gctgaaacgc gagagaaacc gcgtgtcgac tgtgcaacag      180

ctgacaaaga gattctcact tggaatgctg cagggacgag gaccattaaa actgttcatg      240

gccctggtgg cgttccttcg tttcctaaca atcccaccaa cagcagggat attgaagaga      300

tggggaacaa ttaaaaaatc aaaagctatt aatgttttga gagggttcag gaaagagatt      360

ggaaggatgc tgaacatctt gaataggaga cgcagatctg caggcatgat cattatgctg      420

attccaacag tgatggcgtt ccatttaacc acacgtaacg gagaaccaca catgatcgtc      480

agcagacaag agaaagggaa aagtcttctg tttaaaacag aggttggcgt gaacatgtgt      540

accctcatgg ccatggacct tggtgaattg tgtgaagaca caatcacgta cgagtgtccc      600

cttctcaggc agaatgagcc agaagacata gactgttggt gcaactctac gtccacgtgg      660

gtaacttatg ggacgtgtac caccatggga gaacatagaa gagaaaaaag atcagtggca      720

ctcgttccac atgtgggaat gggactggag acacgaactg aaacatggat gtcatcagaa      780

ggggcctgga aacatgtcca gagaattgaa acttggatct tgagacatcc aggcttcacc      840

atgatggcag caatcctggc atacaccata ggaacgacac atttccaaag agccctgatc      900

ttcatcttac tgacagctgt cactccttca atgacaatgc gttgcatagg aatgtcaaat      960

agagactttg tggaaggggt ttcaggagga agctgggttg acatagtctt agaacatgga     1020

agctgtgtga cgacgatggc aaaaaacaaa ccaacattgg attttgaact gataaaaaca     1080

gaagccaaac agcctgccac cctaaggaag tactgtatag aggcaaagct aaccaacaca     1140

acaacagaat ctcgctgccc aacacaaggg gaacccagcc taaatgaaga gcaggacaaa     1200

aggttcgtct gcaaacactc catggtagac agaggatggg gaaatggatg tggactattt     1260

ggaaagggag gcattgtgac ctgtgctatg ttcagatgca aaaagaacat ggaaggaaaa     1320

gttgtgcaac cagaaaactt ggaatacacc attgtgataa cacctcactc aggggaagag     1380

catgcagtcg gaaatgacac aggaaaacat ggcaaggaaa tcaaaataac accacagagt     1440

tccatcacag aagcagaatt gacaggttat ggcactgtca caatggagtg ctctccaaga     1500

acgggcctcg acttcaatga gatggtgttg ctgcagatgg aaaataaagc ttggctggtg     1560

cacaggcaat ggttcctaga cctgccgtta ccatggttgc ccggagcgga cacacaaggg     1620

tcaaattgga tacagaaaga gacattggtc actttcaaaa atccccatgc gaagaaacag     1680

gatgttgttg ttttaggatc ccaagaaggg gccatgcaca cagcacttac aggggccaca     1740

gaaatccaaa tgtcatcagg aaacttactc ttcacaggac atctcaagtg caggctgaga     1800

atggacaagc tacagctcaa aggaatgtca tactctatgt gcacaggaaa gtttaaagtt     1860

gtgaaggaaa tagcagaaac acaacatgga acaatagtta tcagagtgca atatgaaggg     1920

gacggctctc catgcaagat cccttttgag ataatggatt tggaaaaaag acatgtctta     1980

ggtcgcctga ttacagtcaa cccaattgtg acagaaaaag atagcccagt caacatagaa     2040

gcagaacctc catttggaga cagctacatc atcataggag tagagccggg acaactgaag     2100

ctcaactggt ttaagaaagg aagttctatc ggccaaatgt ttgagacaac aatgaggggg     2160

gcgaagagaa tggccatttt aggtgacaca gcctgggatt ttggatcctt gggaggagtg     2220

tttacatcta taggaaaggc tctccaccaa gtctttggag caatctatgg agctgccttc     2280

agtggggttt catggactat gaaaatcctc ataggagtca ttatcacatg gataggaatg     2340

aattcacgca gcacctcact gtctgtgaca ctagtattgg tgggaattgt gacactgtat     2400

ttgggagtca tggtgcaggc cgatagtggt tgcgttgtga gctggaaaaa caaagaactg     2460

aaatgtggca gtgggatttt catcacagac aacgtgcaca catggacaga acaatacaag     2520

ttccaaccag aatccccttc aaaactagct tcagctatcc agaaagccca tgaagaggac     2580

atttgtggaa tccgctcagt aacaagactg gagaatctga tgtggaaaca aataacacca     2640

gaattgaatc acattctatc agaaaatgag gtgaagttaa ctattatgac aggagacatc     2700

aaaggaatca tgcaggcagg aaaacgatct ctgcggcctc agcccactga gctgaagtat     2760

tcatggaaaa catggggcaa agcaaaaatg ctctctacag agtctcataa ccagaccttt     2820

ctcattgatg gccccgaaac agcagaatgc cccaacacaa atagagcttg gaattcgttg     2880

gaagttgaag actatggctt tggagtattc accaccaata tatggctaaa attgaaagaa     2940

aaacaggatg tattctgcga ctcaaaactc atgtcagcgg ccataaaaga caacagagcc     3000

gtccatgccg atatgggtta ttggatagaa agtgcactca atgacacatg gaagatagag     3060

aaagcctctt tcattgaagt taaaaactgc cactggccaa aatcacacac cctctggagc     3120

aatggagtgc tagaaagtga gatgataatt ccaaagaatc tcgctggacc agtgtctcaa     3180

cacaactata gaccaggcta ccatacacaa ataacaggac catggcatct aggtaagctt     3240

gagatggact ttgatttctg tgatggaaca acagtggtag tgactgagga ctgcggaaat     3300

agaggaccct ctttgagaac aaccactgcc tctggaaaac tcataacaga atggtgctgc     3360

cgatcttgca cattaccacc gctaagatac agaggtgagg atgggtgctg gtacgggatg     3420

gaaatcagac cattgaagga gaaagaagag aatttggtca actccttggt cacagctgga     3480

catgggcagg tcgacaactt ttcactagga gtcttgggaa tggcattgtt cctggaggaa     3540

atgcttagga cccgagtagg aacgaaacat gcaatactac tagttgcagt ttcttttgtg     3600

acattgatca cagggaacat gtcctttaga gacctgggaa gagtgatggt tatggtaggc     3660

gccactatga cggatgacat aggtatgggc gtgacttatc ttgccctact agcagccttc     3720

aaagtcagac caacttttgc agctggacta ctcttgagaa agctgacctc caaggaattg     3780

atgatgacta ctataggaat tgtactcctc tcccagagca ccataccaga gaccattctt     3840

gagttgactg atgcgttagc cttaggcatg atggtcctca aaatggtgag aaatatggaa     3900

aagtatcaat tggcagtgac tatcatggct atcttgtgcg tcccaaacgc agtgatatta     3960

caaaacgcat ggaaagtgag ttgcacaata ttggcagtgg tgtccgtttc cccactgttc     4020

ttaacatcct cacagcaaaa aacagattgg ataccattag cattgacgat caaaggtctc     4080

aatccaacag ctatttttct aacaaccctc tcaagaacca gcaagaaaag gagctggcca     4140

ttaaatgagg ctatcatggc agtcgggatg gtgagcattt tagccagttc tctcctaaaa     4200

aatgatattc ccatgacagg accattagtg gctggagggc tcctcactgt gtgctacgtg     4260

ctcactggac gatcggccga tttggaactg gagagagcag ccgatgtcaa atgggaagac     4320

caggcagaga tatcaggaag cagtccaatc ctgtcaataa caatatcaga agatggtagc     4380

atgtcgataa aaaatgaaga ggaagaacaa acactgacca tactcattag aacaggattg     4440

ctggtgatct caggactttt tcctgtatca ataccaatca cggcagcagc atggtacctg     4500

tgggaagtga agaaacaacg ggccggagta ttgtgggatg ttccttcacc cccacccatg     4560

ggaaaggctg aactggaaga tggagcctat agaattaagc aaaaagggat tcttggatat     4620

tcccagatcg gagccggagt ttacaaagaa ggaacattcc atacaatgtg gcatgtcaca     4680

cgtggcgctg ttctaatgca taaaggaaag aggattgaac catcatgggc ggacgtcaag     4740

aaagacctaa tatcatatgg aggaggctgg aagttagaag gagaatggaa ggaaggagaa     4800

gaagtccagg tattggcact ggagcctgga aaaaatccaa gagccgtcca aacgaaacct     4860

ggtcttttca aaaccaacgc cggaacaata ggtgctgtat ctctggactt ttctcctgga     4920

acgtcaggat ctccaattat cgacaaaaaa ggaaaagttg tgggtcttta tggtaatggt     4980

gttgttacaa ggagtggagc atatgtgagt gctatagccc agactgaaaa aagcattgaa     5040

gacaacccag agatcgaaga tgacattttc cgaaagagaa gactgaccat catggacctc     5100

cacccaggag cgggaaagac gaagagatac cttccggcca tagtcagaga agctataaaa     5160

cggggtttga gaacattaat cttggccccc actagagttg tggcagctga aatggaggaa     5220

gcccttagag gacttccaat aagataccag accccagcca tcagagctgt gcacaccggg     5280

cgggagattg tggacctaat gtgtcatgcc acatttacca tgaggctgct atcaccagtt     5340

agagtgccaa actacaacct gattatcatg gacgaagccc atttcacaga cccagcaagt     5400

atagcagcta gaggatacat ctcaactcga gtggagatgg gtgaggcagc tgggattttt     5460

atgacagcca ctcccccggg aagcagagac ccatttcctc agagcaatgc accaatcata     5520

gatgaagaaa gagaaatccc tgaacgctcg tggaattccg gacatgaatg ggtcacggat     5580

tttaaaggga agactgtttg gttcgttcca agtataaaag caggaaatga tatagcagct     5640

tgcctgagga aaaatggaaa gaaagtgata caactcagta ggaagacctt tgattctgag     5700

tatgtcaaga ctagaaccaa tgattgggac ttcgtggtta caactgacat ttcagaaatg     5760

ggtgccaatt tcaaggctga gagggttata gaccccagac gctgcatgaa accagtcata     5820

ctaacagatg gtgaagagcg ggtgattctg gcaggaccta tgccagtgac ccactctagt     5880

gcagcacaaa gaagagggag aataggaaga aatccaaaaa atgagaatga ccagtacata     5940

tacatggggg aacctctgga aaatgatgaa gactgtgcac actggaaaga agctaaaatg     6000

ctcctagata acatcaacac gccagaagga atcattccta gcatgttcga accagagcgt     6060

gaaaaggtgg atgccattga tggcgaatac cgcttgagag gagaagcaag gaaaaccttt     6120

gtagacttaa tgagaagagg agacctacca gtctggttgg cctacagagt ggcagctgaa     6180

ggcatcaact acgcagacag aaggtggtgt tttgatggag tcaagaacaa ccaaatccta     6240

gaagaaaacg tggaagttga aatctggaca aaagaagggg aaaggaagaa attgaaaccc     6300

agatggttgg atgctaggat ctattctgac ccactggcgc taaaagaatt taaggaattt     6360

gcagccggaa gaaagtctct gaccctgaac ctaatcacag aaatgggtag gctcccaacc     6420

ttcatgactc agaaggcaag agacgcactg gacaacttag cagtgctgca cacggctgag     6480

gcaggtggaa gggcgtacaa ccatgctctc agtgaactgc cggagaccct ggagacattg     6540

cttttactga cacttctggc tacagtcacg ggagggatct ttttattctt gatgagcgca     6600

aggggcatag ggaagatgac cctgggaatg tgctgcataa tcacggctag catcctccta     6660

tggtacgcac aaatacagcc acactggata gcagcttcaa taatactgga gttttttctc     6720

atagttttgc ttattccaga acctgaaaaa cagagaacac cccaagacaa ccaactgacc     6780

tacgttgtca tagccatcct cacagtggtg gccgcaacca tggcaaacga gatgggtttc     6840

ctagaaaaaa cgaagaaaga tctcggattg ggaagcattg caacccagca acccgagagc     6900

aacatcctgg acatagatct acgtcctgca tcagcatgga cgctgtatgc cgtggccaca     6960

acatttgtta caccaatgtt gagacatagc attgaaaatt cctcagtgaa tgtgtcccta     7020

acagctatag ccaaccaagc cacagtgtta atgggtctcg ggaaaggatg gccattgtca     7080

aagatggaca tcggagttcc ccttctcgcc attggatgct actcacaagt caaccccata     7140

actctcacag cagctctttt cttattggta gcacattatg ccatcatagg gccaggactc     7200

caagcaaaag caaccagaga agctcagaaa agagcagcgg cgggcatcat gaaaaaccca     7260

actgtcgatg gaataacagt gattgaccta gatccaatac cttatgatcc aaagtttgaa     7320

aagcagttgg gacaagtaat gctcctagtc ctctgcgtga ctcaagtatt gatgatgagg     7380

actacatggg ctctgtgtga ggctttaacc ttagctaccg ggcccatctc cacattgtgg     7440

gaaggaaatc cagggaggtt ttggaacact accattgcgg tgtcaatggc taacattttt     7500

agagggagtt acttggccgg agctggactt ctcttttcta ttatgaagaa cacaaccaac     7560

acaagaaggg gaactggcaa cataggagag acgcttggag agaaatggaa aagccgattg     7620

aacgcattgg gaaaaagtga attccagatc tacaagaaaa gtggaatcca ggaagtggat     7680

agaaccttag caaaagaagg cattaaaaga ggagaaacgg accatcacgc tgtgtcgcga     7740

ggctcagcaa aactgagatg gttcgttgag agaaacatgg tcacaccaga agggaaagta     7800

gtggacctcg gttgtggcag aggaggctgg tcatactatt gtggaggact aaagaatgta     7860

agagaagtca aaggcctaac aaaaggagga ccaggacacg aagaacccat ccccatgtca     7920

acatatgggt ggaatctagt gcgtcttcaa agtggagttg acgttttctt catcccgcca     7980

gaaaagtgtg acacattatt gtgtgacata ggggagtcat caccaaatcc cacagtggaa     8040

gcaggacgaa cactcagagt ccttaactta gtagaaaatt ggttgaacaa caacactcaa     8100

ttttgcataa aggttctcaa cccatatatg ccctcagtca tagaaaaaat ggaagcacta     8160

caaaggaaat atggaggagc cttagtgagg aatccactct cacgaaactc cacacatgag     8220

atgtactggg tatccaatgc ttccgggaac atagtgtcat cagtgaacat gatttcaagg     8280

atgttgatca acagatttac aatgagatac aagaaagcca cttacgagcc ggatgttgac     8340

ctcggaagcg gaacccgtaa catcgggatt gaaagtgaga taccaaacct agatataatt     8400

gggaaaagaa tagaaaaaat aaagcaagag catgaaacat catggcacta tgaccaagac     8460

cacccataca aaacgtgggc ataccatggt agctatgaaa caaaacagac tggatcagca     8520

tcatccatgg tcaacggagt ggtcaggctg ctgacaaaac cttgggacgt cgtccccatg     8580

gtgacacaga tggcaatgac agacacgact ccatttggac aacagcgcgt ttttaaagag     8640

aaagtggaca cgagaaccca agaaccgaaa gaaggcacga agaaactaat gaaaataaca     8700

gcagagtggc tttggaaaga attagggaag aaaaagacac ccaggatgtg caccagagaa     8760

gaattcacaa gaaaggtgag aagcaatgca gccttggggg ccgtattcac tgatgagaac     8820

aagtggaagt cggcacgtga ggctgttgaa gatagtaggt tttgggagct ggttgacaag     8880

gaaaggaatc tccatcttga aggaaagtgt gaaacatgtg tgtacaacat gatgggaaaa     8940

agagagaaga agctagggga attcggcaag gcaaaaggca gcagagccat atggtacatg     9000

tggcttggag cacgcttctt agagtttgaa gccctaggat tcttaaatga agatcactgg     9060

ttctccagag agaactccct gagtggagtg gaaggagaag ggctgcacaa gctaggttac     9120

attctaagag acgtgagcaa gaaagaggga ggagcaatgt atgccgatga caccgcagga     9180

tgggatacaa gaatcacact agaagaccta aaaaatgaag aaatggtaac aaaccacatg     9240

gaaggagaac acaagaaact agccgaggcc attttcaaac taacgtacca aaacaaggtg     9300

gtgcgtgtgc aaagaccaac accaagaggc acagtaatgg acatcatatc gagaagagac     9360

caaagaggta gtggacaagt tggcacctat ggactcaata ctttcaccaa tatggaagcc     9420

caactaatca gacagatgga gggagaagga gtctttaaaa gcattcagca cctaacaatc     9480

acagaagaaa tcgctgtgca aaactggtta gcaagagtgg ggcgcgaaag gttatcaaga     9540

atggccatca gtggagatga ttgtgttgtg aaacctttag atgacaggtt cgcaagcgct     9600

ttaacagctc taaatgacat gggaaagatt aggaaagaca tacaacaatg ggaaccttca     9660

agaggatgga atgattggac acaagtgccc ttctgttcac accatttcca tgagttaatc     9720

atgaaagacg gtcgcgtact cgttgttcca tgtagaaacc aagatgaact gattggcaga     9780

gcccgaatct cccaaggagc agggtggtct ttgcgggaga cggcctgttt ggggaagtct     9840

tacgcccaaa tgtggagctt gatgtacttc cacagacgcg acctcaggct ggcggcaaat     9900

gctatttgct cggcagtacc atcacattgg gttccaacaa gtcgaacaac ctggtccata     9960

catgctaaac atgaatggat gacaacggaa gacatgctga cagtctggaa cagggtgtgg    10020

attcaagaaa acccatggat ggaagacaaa actccagtgg aatcatggga ggaaatccca    10080

tacttgggga aaagagaaga ccaatggtgc ggctcattga ttgggttaac aagcagggcc    10140

acctgggcaa agaacatcca agcagcaata aatcaagtta gatcccttat aggcaatgaa    10200

gaatacacag attacatgcc atccatgaaa agattcagaa gagaagagga agaagcagga    10260

gttctgtggt agaaagcaaa actaacatga aacaaggcta gaagtcaggt cggattaagc    10320

catagtacgg aaaaaactat gctacctgtg agccccgtcc aaggacgtta aaagaagtca    10380

ggccatcata aatgccatag cttgagtaaa ctatgcagcc tgtagctcca cctgagaagg    10440

tgtaaaaaat ccgggaggcc acaaaccatg gaagctgtac gcatggcgta gtggactagc    10500

ggttagagga gacccctccc ttacaaatcg cagcaacaat gggggcccaa ggcgagatga    10560

agctgtagtc tcgctggaag gactagaggt tagaggagac ccccccgaaa caaaaaacag    10620

catattgacg ctgggaaaga ccagagatcc tgctgtctcc tcagcatcat tccaggcaca    10680

gaacgccaga aaatggaatg gtgctgttga atcaacaggt tct                      10723


<210>  24
<211>  20
<212>  DNA
<213>  artificial

<220>
<223>  artificial

<400>  24
ccgactacgg aacccttaca                                                   20


<210>  25
<211>  23
<212>  DNA
<213>  artificial

<220>
<223>  artificial

<400>  25
ggtctcagcc acttctttct cta                                               23
 
<210>  26
<211>  22
<212>  DNA
<213>  artificial

<220>
<223>  artificial

<400>  
gccatgcaca cacagcactt ac                                                22


<210>  27
<211>  20
<212>  DNA
<213>  artificial

<220>
<223>  artificial

<400>  27
cttcagttgt cccggctcta                                                   20

<210>  28
<211>  19
<212>  DNA
<213>  artificial

<220>
<223>  artificial

<400>  28
aagcccacgc tggacatag			                                19  


<210>  29
<211>  20
<212>  DNA
<213>  artificial

<220>
<223>  artificial

<400>  29
aagtgccccg caaagatact                                                   20

<210>  30
<211>  21
<212>  DNA
<213>  artificial

<220>
<223>  artificial

<400>  30
gccggagaga tgtggtagac                             		        21


<210>  31
<211>  21
<212>  DNA
<213>  artificial

<220>
<223>  artificial

<400>  31
ctgggagtta tcgtggctgta                                                  21


