                         SEQUENCE LISTING

<110>  Raymond, Christopher
       Kurn, Nurith
       Magnus, Jill
 
<120>  METHODS AND COMPOSITIONS FOR MULTIPLEX SEQUENCING

<130>  25115-741.201

<150>  61/352,801
<151>  2010-06-08

<160>  89   

<170>  PatentIn version 3.5

<210>  1
<211>  25
<212>  DNA
<213>  Artificial Sequence

<220>
<223>  Oligonucleotide

<400>  1
ttatcccgag aattcagaca gtcac                                             25


<210>  2
<211>  25
<212>  DNA
<213>  Artificial Sequence

<220>
<223>  Oligonucleotide

<400>  2
aaccgctaca aggcggggca ccaca                                             25


<210>  3
<211>  40
<212>  DNA
<213>  Artificial Sequence

<220>
<223>  Oligonucleotide

<400>  3
gtgactgtct gaattttatc ccgagaattc agacagtcac                             40


<210>  4
<211>  40
<212>  DNA
<213>  Artificial Sequence

<220>
<223>  Oligonucleotide

<400>  4
tgtggtgccc cgcctaaccg ctacaaggcg gggcaccaca                             40


<210>  5
<211>  37
<212>  DNA
<213>  Artificial Sequence

<220>
<223>  Oligonucleotide

<400>  5
tgtgatcgac ggttatcccg agaattcaga cagtcac                                37


<210>  6
<211>  36
<212>  DNA
<213>  Artificial Sequence

<220>
<223>  Oligonucleotide

<400>  6
atattcatgt gaaccgctac aaggcggggc accaca                                 36


<210>  7
<211>  69
<212>  DNA
<213>  Artificial Sequence

<220>
<223>  Oligonucleotide

<400>  7
gtgactgtct gaattaatga tacggcgacc accgagatct acacttatcc cgagaattca       60

gacagtcac                                                               69


<210>  8
<211>  64
<212>  DNA
<213>  Artificial Sequence

<220>
<223>  Oligonucleotide

<400>  8
tgtggtgccc cgcctcaagc agaagacggc atacgagata accgctacaa ggcggggcac       60

caca                                                                    64


<210>  9
<211>  20
<212>  DNA
<213>  Artificial Sequence

<220>
<223>  Oligonucleotide

<400>  9
aatgatacgg cgaccaccga                                                   20


<210>  10
<211>  20
<212>  DNA
<213>  Artificial Sequence

<220>
<223>  Oligonucleotide

<400>  10
caagcagaag acggcatacg                                                   20


<210>  11
<211>  44
<212>  DNA
<213>  Artificial Sequence

<220>
<223>  Oligonucleotide

<400>  11
ttttgtgact gtctgttatc ccgagaattc agacagtcac aaaa                        44


<210>  12
<211>  44
<212>  DNA
<213>  Artificial Sequence

<220>
<223>  Oligonucleotide

<400>  12
gggtgtgact gtctgttatc ccgagaattc agacagtcac accc                        44


<210>  13
<211>  44
<212>  DNA
<213>  Artificial Sequence

<220>
<223>  Oligonucleotide

<400>  13
ccctgtgact gtctgttatc ccgagaattc agacagtcac aggg                        44


<210>  14
<211>  44
<212>  DNA
<213>  Artificial Sequence

<220>
<223>  Oligonucleotide

<400>  14
aaatgtgact gtctgttatc ccgagaattc agacagtcac attt                        44


<210>  15
<211>  44
<212>  DNA
<213>  Artificial Sequence

<220>
<223>  Oligonucleotide

<400>  15
cgtggtgact gtctgttatc ccgagaattc agacagtcac cacg                        44


<210>  16
<211>  44
<212>  DNA
<213>  Artificial Sequence

<220>
<223>  Oligonucleotide

<400>  16
atgggtgact gtctgttatc ccgagaattc agacagtcac ccat                        44


<210>  17
<211>  44
<212>  DNA
<213>  Artificial Sequence

<220>
<223>  Oligonucleotide

<400>  17
tacggtgact gtctgttatc ccgagaattc agacagtcac cgta                        44


<210>  18
<211>  44
<212>  DNA
<213>  Artificial Sequence

<220>
<223>  Oligonucleotide

<400>  18
gcaggtgact gtctgttatc ccgagaattc agacagtcac ctgc                        44


<210>  19
<211>  44
<212>  DNA
<213>  Artificial Sequence

<220>
<223>  Oligonucleotide

<400>  19
actcgtgact gtctgttatc ccgagaattc agacagtcac gagt                        44


<210>  20
<211>  44
<212>  DNA
<213>  Artificial Sequence

<220>
<223>  Oligonucleotide

<400>  20
cagcgtgact gtctgttatc ccgagaattc agacagtcac gctg                        44


<210>  21
<211>  44
<212>  DNA
<213>  Artificial Sequence

<220>
<223>  Oligonucleotide

<400>  21
gtccgtgact gtctgttatc ccgagaattc agacagtcac ggac                        44


<210>  22
<211>  44
<212>  DNA
<213>  Artificial Sequence

<220>
<223>  Oligonucleotide

<400>  22
tgacgtgact gtctgttatc ccgagaattc agacagtcac gtca                        44


<210>  23
<211>  44
<212>  DNA
<213>  Artificial Sequence

<220>
<223>  Oligonucleotide

<400>  23
gatagtgact gtctgttatc ccgagaattc agacagtcac tatc                        44


<210>  24
<211>  44
<212>  DNA
<213>  Artificial Sequence

<220>
<223>  Oligonucleotide

<400>  24
tcgagtgact gtctgttatc ccgagaattc agacagtcac tcga                        44


<210>  25
<211>  44
<212>  DNA
<213>  Artificial Sequence

<220>
<223>  Oligonucleotide

<400>  25
agcagtgact gtctgttatc ccgagaattc agacagtcac tgct                        44


<210>  26
<211>  44
<212>  DNA
<213>  Artificial Sequence

<220>
<223>  Oligonucleotide

<400>  26
ctaagtgact gtctgttatc ccgagaattc agacagtcac ttag                        44


<210>  27
<211>  43
<212>  DNA
<213>  Artificial Sequence

<220>
<223>  Oligonucleotide


<220>
<221>  misc_feature
<222>  (9)..(10)
<223>  n is RNA base Uracil

<400>  27
agatcggann acactctttc cctacacgac gctcttccga tct                         43


<210>  28
<211>  43
<212>  DNA
<213>  Artificial Sequence

<220>
<223>  Oligonucleotide


<220>
<221>  misc_feature
<222>  (9)..(10)
<223>  n is RNA base Uracil

<400>  28
agatcggann ctcggcattc ctgctgaacc gctcttccga tct                         43


<210>  29
<211>  43
<212>  DNA
<213>  Artificial Sequence

<220>
<223>  Oligonucleotide


<220>
<221>  misc_feature
<222>  (6)..(6)
<223>  n is RNA base g

<220>
<221>  misc_feature
<222>  (7)..(7)
<223>  n is RNA base g


<220>
<221>  misc_feature
<222>  (8)..(8)
<223>  n is RNA base a

<220>
<221>  misc_feature
<222>  (9)..(9)
<223>  n is RNA base a


<220>
<221>  misc_feature
<222>  (10)..(10)
<223>  n is RNA base g


<400>  29
agatcnnnnn acactctttc cctacacgac gctcttccga tct                         43


<210>  30
<211>  43
<212>  DNA
<213>  Artificial Sequence

<220>
<223>  Oligonucleotide

<220>
<221>  misc_feature
<222>  (6)..(6)
<223>  n is RNA base g

<220>
<221>  misc_feature
<222>  (7)..(7)
<223>  n is RNA base g


<220>
<221>  misc_feature
<222>  (8)..(8)
<223>  n is RNA base a

<220>
<221>  misc_feature
<222>  (9)..(9)
<223>  n is RNA base a


<220>
<221>  misc_feature
<222>  (10)..(10)
<223>  n is RNA base g

<400>  30
agatcnnnnn ctcggcattc ctgctgaacc gctcttccga tct                         43


<210>  31
<211>  45
<212>  DNA
<213>  Artificial Sequence

<220>
<223>  Oligonucleotide

<220>
<221>  misc_feature
<222>  (8)..(8)
<223>  n is RNA base a

<220>
<221>  misc_feature
<222>  (9)..(9)
<223>  n is RNA base a


<220>
<221>  misc_feature
<222>  (10)..(10)
<223>  n is RNA base g

<220>
<221>  misc_feature
<222>  (11)..(11)
<223>  n is RNA base a


<220>
<221>  misc_feature
<222>  (12)..(12)
<223>  n is RNA base g


<400>  31
agatcggnnn nnacactctt tccctacacg acgctcttcc gatct                       45


<210>  32
<211>  45
<212>  DNA
<213>  Artificial Sequence

<220>
<223>  Oligonucleotide

<220>
<221>  misc_feature
<222>  (8)..(8)
<223>  n is RNA base a

<220>
<221>  misc_feature
<222>  (9)..(9)
<223>  n is RNA base a

<220>
<221>  misc_feature
<222>  (10)..(10)
<223>  n is RNA base g

<220>
<221>  misc_feature
<222>  (11)..(11)
<223>  n is RNA base a

<220>
<221>  misc_feature
<222>  (12)..(12)
<223>  n is RNA base g

<400>  32
agatcggnnn nnctcggcat tcctgctgaa ccgctcttcc gatct                       45

<210>  33
<211>  42
<212>  DNA
<213>  Artificial Sequence

<220>
<223>  Oligonucleotide

<220>
<221>  misc_feature
<222>  (9)..(9)
<223>  n is RNA base c

<400>  33
agatcggtna cactctttcc ctacacgacg ctcttccgat ct                          42


<210>  34
<211>  42
<212>  DNA
<213>  Artificial Sequence

<220>
<223>  Oligonucleotide


<220>
<221>  misc_feature
<222>  (9)..(9)
<223>  n is RNA base c

<400>  34
agatcggcnc tcggcattcc tgctgaaccg ctcttccgat ct                          42


<210>  35
<211>  47
<212>  DNA
<213>  Artificial Sequence

<220>
<223>  Oligonucleotide

<400>  35
gatcggaaga gcgtacactc tttccctaca cgacgctctt ccgatct                     47


<210>  36
<211>  47
<212>  DNA
<213>  Artificial Sequence

<220>
<223>  Oligonucleotide

<400>  36
gatcggaaga gcggctcggc attcctgctg aaccgctctt ccgatct                     47


<210>  37
<211>  48
<212>  DNA
<213>  Artificial Sequence

<220>
<223>  Oligonucleotide

<400>  37
tcgtgtaggg aaagaacact ctttccctac acgacgctct tccgatct                    48


<210>  38
<211>  48
<212>  DNA
<213>  Artificial Sequence

<220>
<223>  Oligonucleotide

<400>  38
gttcagcagg aatgcctcgg cattcctgct gaaccgctct tccgatct                    48


<210>  39
<211>  14
<212>  DNA
<213>  Artificial Sequence

<220>
<223>  Oligonucleotide

<400>  39
agatcggaag agcg                                                         14


<210>  40
<211>  48
<212>  DNA
<213>  Artificial Sequence

<220>
<223>  Oligonucleotide

<400>  40
agatcggaag agcgtacact ctttccctac acgacgctct tccgatct                    48


<210>  41
<211>  48
<212>  DNA
<213>  Artificial Sequence

<220>
<223>  Oligonucleotide

<400>  41
agatcggaag agcggctcgg cattcctgct gaaccgctct tccgatct                    48


<210>  42
<211>  56
<212>  DNA
<213>  Artificial Sequence

<220>
<223>  Oligonucleotide

<400>  42
aatgatacgg cgaccaccga gatctacact ctttccctac acgacgctct tccgat           56


<210>  43
<211>  58
<212>  DNA
<213>  Artificial Sequence

<220>
<223>  Oligonucleotide

<400>  43
caagcagaag acggcatacg agatcggtct cggcattcct gctgaaccgc tcttccga         58


<210>  44
<211>  56
<212>  DNA
<213>  Artificial Sequence

<220>
<223>  Oligonucleotide

<400>  44
agcgtcgtgt agggaaagaa cactctttcc ctacacgacg ctcttccgat ctaccc           56


<210>  45
<211>  14
<212>  DNA
<213>  Artificial Sequence

<220>
<223>  Oligonucleotide

<400>  45
gggtagatcg gaag                                                         14


<210>  46
<211>  56
<212>  DNA
<213>  Artificial Sequence

<220>
<223>  Oligonucleotide

<400>  46
agcgtcgtgt agggaaagaa cactctttcc ctacacgacg ctcttccgat ctaggg           56


<210>  47
<211>  14
<212>  DNA
<213>  Artificial Sequence

<220>
<223>  Oligonucleotide

<400>  47
ccctagatcg gaag                                                         14


<210>  48
<211>  56
<212>  DNA
<213>  Artificial Sequence

<220>
<223>  Oligonucleotide

<400>  48
agcgtcgtgt agggaaagaa cactctttcc ctacacgacg ctcttccgat ctccat           56


<210>  49
<211>  14
<212>  DNA
<213>  Artificial Sequence

<220>
<223>  Oligonucleotide

<400>  49
atggagatcg gaag                                                         14


<210>  50
<211>  56
<212>  DNA
<213>  Artificial Sequence

<220>
<223>  Oligonucleotide

<400>  50
agcgtcgtgt agggaaagaa cactctttcc ctacacgacg ctcttccgat ctcgta           56


<210>  51
<211>  14
<212>  DNA
<213>  Artificial Sequence

<220>
<223>  Oligonucleotide

<400>  51
tacgagatcg gaag                                                         14


<210>  52
<211>  56
<212>  DNA
<213>  Artificial Sequence

<220>
<223>  Oligonucleotide

<400>  52
agcgtcgtgt agggaaagaa cactctttcc ctacacgacg ctcttccgat ctgagt           56


<210>  53
<211>  14
<212>  DNA
<213>  Artificial Sequence

<220>
<223>  Oligonucleotide

<400>  53
actcagatcg gaag                                                         14


<210>  54
<211>  56
<212>  DNA
<213>  Artificial Sequence

<220>
<223>  Oligonucleotide

<400>  54
agcgtcgtgt agggaaagaa cactctttcc ctacacgacg ctcttccgat ctgtca           56


<210>  55
<211>  14
<212>  DNA
<213>  Artificial Sequence

<220>
<223>  Oligonucleotide

<400>  55
tgacagatcg gaag                                                         14


<210>  56
<211>  56
<212>  DNA
<213>  Artificial Sequence

<220>
<223>  Oligonucleotide

<400>  56
agcgtcgtgt agggaaagaa cactctttcc ctacacgacg ctcttccgat cttatc           56


<210>  57
<211>  14
<212>  DNA
<213>  Artificial Sequence

<220>
<223>  Oligonucleotide

<400>  57
gataagatcg gaag                                                         14


<210>  58
<211>  56
<212>  DNA
<213>  Artificial Sequence

<220>
<223>  Oligonucleotide

<400>  58
agcgtcgtgt agggaaagaa cactctttcc ctacacgacg ctcttccgat ctttag           56


<210>  59
<211>  14
<212>  DNA
<213>  Artificial Sequence

<220>
<223>  Oligonucleotide

<400>  59
ctaaagatcg gaag                                                         14


<210>  60
<211>  56
<212>  DNA
<213>  Artificial Sequence

<220>
<223>  Oligonucleotide

<400>  60
agcgtcgtgt agggaaagaa cactctttcc ctacacgacg ctcttccgat ctaaaa           56


<210>  61
<211>  14
<212>  DNA
<213>  Artificial Sequence

<220>
<223>  Oligonucleotide

<400>  61
ttttagatcg gaag                                                         14


<210>  62
<211>  56
<212>  DNA
<213>  Artificial Sequence

<220>
<223>  Oligonucleotide

<400>  62
agcgtcgtgt agggaaagaa cactctttcc ctacacgacg ctcttccgat ctattt           56


<210>  63
<211>  14
<212>  DNA
<213>  Artificial Sequence

<220>
<223>  Oligonucleotide

<400>  63
aaatagatcg gaag                                                         14


<210>  64
<211>  56
<212>  DNA
<213>  Artificial Sequence

<220>
<223>  Oligonucleotide

<400>  64
agcgtcgtgt agggaaagaa cactctttcc ctacacgacg ctcttccgat ctcacg           56


<210>  65
<211>  14
<212>  DNA
<213>  Artificial Sequence

<220>
<223>  Oligonucleotide

<400>  65
cgtgagatcg gaag                                                         14


<210>  66
<211>  56
<212>  DNA
<213>  Artificial Sequence

<220>
<223>  Oligonucleotide

<400>  66
agcgtcgtgt agggaaagaa cactctttcc ctacacgacg ctcttccgat ctctgc           56


<210>  67
<211>  14
<212>  DNA
<213>  Artificial Sequence

<220>
<223>  Oligonucleotide

<400>  67
gcagagatcg gaag                                                         14


<210>  68
<211>  56
<212>  DNA
<213>  Artificial Sequence

<220>
<223>  Oligonucleotide

<400>  68
agcgtcgtgt agggaaagaa cactctttcc ctacacgacg ctcttccgat ctgctg           56


<210>  69
<211>  14
<212>  DNA
<213>  Artificial Sequence

<220>
<223>  Oligonucleotide

<400>  69
cagcagatcg gaag                                                         14


<210>  70
<211>  56
<212>  DNA
<213>  Artificial Sequence

<220>
<223>  Oligonucleotide

<400>  70
agcgtcgtgt agggaaagaa cactctttcc ctacacgacg ctcttccgat ctggac           56


<210>  71
<211>  14
<212>  DNA
<213>  Artificial Sequence

<220>
<223>  Oligonucleotide

<400>  71
gtccagatcg gaag                                                         14


<210>  72
<211>  56
<212>  DNA
<213>  Artificial Sequence

<220>
<223>  Oligonucleotide

<400>  72
agcgtcgtgt agggaaagaa cactctttcc ctacacgacg ctcttccgat cttcga           56


<210>  73
<211>  14
<212>  DNA
<213>  Artificial Sequence

<220>
<223>  Oligonucleotide

<400>  73
tcgaagatcg gaag                                                         14


<210>  74
<211>  56
<212>  DNA
<213>  Artificial Sequence

<220>
<223>  Oligonucleotide

<400>  74
agcgtcgtgt agggaaagaa cactctttcc ctacacgacg ctcttccgat cttgct           56


<210>  75
<211>  14
<212>  DNA
<213>  Artificial Sequence

<220>
<223>  Oligonucleotide

<400>  75
agcaagatcg gaag                                                         14


<210>  76
<211>  48
<212>  DNA
<213>  Artificial Sequence

<220>
<223>  Oligonucleotide

<400>  76
ggaatagatg aagaccccgt cctagaacga ggtgtcttca tctattcc                    48


<210>  77
<211>  48
<212>  DNA
<213>  Artificial Sequence

<220>
<223>  Oligonucleotide

<400>  77
gagtaccgga tactttcagt ttgaccttct ttgaagtatc cggtactc                    48


<210>  78
<211>  48
<212>  DNA
<213>  Artificial Sequence

<220>
<223>  Oligonucleotide


<220>
<221>  misc_feature
<222>  (7)..(7)
<223>  n is RNA base g

<220>
<221>  misc_feature
<222>  (8)..(8)
<223>  n is RNA base a


<220>
<221>  misc_feature
<222>  (9)..(9)
<223>  n is RNA base u

<220>
<221>  misc_feature
<222>  (10)..(10)
<223>  n is RNA base g

<400>  78
ggaatannnn aagaccccgt cctagaacga ggtgtcttca tctattcc                    48


<210>  79
<211>  48
<212>  DNA
<213>  Artificial Sequence

<220>
<223>  Oligonucleotide

<220>
<221>  misc_feature
<222>  (7)..(7)
<223>  n is RNA base c

<220>
<221>  misc_feature
<222>  (8)..(8)
<223>  n is RNA base g


<220>
<221>  misc_feature
<222>  (9)..(9)
<223>  n is RNA base g

<220>
<221>  misc_feature
<222>  (10)..(10)
<223>  n is RNA base a

<400>  79
gagtacnnnn tactttcagt ttgaccttct ttgaagtatc cggtactc                    48


<210>  80
<211>  48
<212>  DNA
<213>  Artificial Sequence

<220>
<223>  Oligonucleotide

<220>
<221>  misc_feature
<222>  (6)..(6)
<223>  n is RNA base a

<220>
<221>  misc_feature
<222>  (7)..(7)
<223>  n is RNA base g


<220>
<221>  misc_feature
<222>  (8)..(8)
<223>  n is RNA base a

<220>
<221>  misc_feature
<222>  (9)..(9)
<223>  n is RNA base u

<220>
<221>  misc_feature
<222>  (10)..(10)
<223>  n is RNA base g

<220>
<221>  misc_feature
<222>  (11)..(11)
<223>  n is RNA base a


<220>
<221>  misc_feature
<222>  (12)..(12)
<223>  n is RNA base a

<220>
<221>  misc_feature
<222>  (13)..(13)
<223>  n is RNA base g

<220>
<221>  misc_feature
<222>  (14)..(14)
<223>  n is RNA base a

<220>
<221>  misc_feature
<222>  (15)..(15)
<223>  n is RNA base c

<400>  80
ggaatnnnnn nnnnncccgt cctagaacga ggtgtcttca tctattcc                    48


<210>  81
<211>  48
<212>  DNA
<213>  Artificial Sequence

<220>
<223>  Oligonucleotide

<220>
<221>  misc_feature
<222>  (6)..(6)
<223>  n is RNA base c

<220>
<221>  misc_feature
<222>  (7)..(7)
<223>  n is RNA base c


<220>
<221>  misc_feature
<222>  (8)..(8)
<223>  n is RNA base g

<220>
<221>  misc_feature
<222>  (9)..(9)
<223>  n is RNA base g

<220>
<221>  misc_feature
<222>  (10)..(10)
<223>  n is RNA base a

<220>
<221>  misc_feature
<222>  (11)..(11)
<223>  n is RNA base u


<220>
<221>  misc_feature
<222>  (12)..(12)
<223>  n is RNA base a

<220>
<221>  misc_feature
<222>  (13)..(13)
<223>  n is RNA base c

<220>
<221>  misc_feature
<222>  (14)..(14)
<223>  n is RNA base u

<220>
<221>  misc_feature
<222>  (15)..(15)
<223>  n is RNA base u

<400>  81
gagtannnnn nnnnntcagt ttgaccttct ttgaagtatc cggtactc                    48


<210>  82
<211>  33
<212>  DNA
<213>  Artificial Sequence

<220>
<223>  Oligonucleotide

<400>  82
cccgtcctag aacgaggtgt cttcatctat tcc                                    33


<210>  83
<211>  33
<212>  DNA
<213>  Artificial Sequence

<220>
<223>  Oligonucleotide

<400>  83
tcagtttgac cttctttgaa gtatccggta ctc                                    33

<210>  84
<211>  63
<212>  DNA
<213>  Artificial Sequence

<220>
<223>  Oligonucleotide

<400>  84
aatgatacgg cgaccaccga gatctatgtg atcgacggtt atcccgagaa ttcagacagt       60

cac                                                                     63


<210>  85
<211>  60
<212>  DNA
<213>  Artificial Sequence

<220>
<223>  Oligonucleotide

<400>  85
caagcagaag acggcatacg agatatattc atgtgaaccg ctacaaggcg gggcaccaca       60


<210>  86
<211>  41
<212>  DNA
<213>  Artificial Sequence

<220>
<223>  Oligonucleotide

<400>  86
ccgtcgtgat cgacggttat cccgagaatt cagacagtca c                           41


<210>  87
<211>  25
<212>  DNA
<213>  Artificial Sequence

<220>
<223>  Oligonucleotide

<400>  87
gtgactgtct gaattctcgg gataa                                             25


<210>  88
<211>  41
<212>  DNA
<213>  Artificial Sequence

<220>
<223>  Oligonucleotide

<400>  88
cacatgtatt catgtgaacc gctacaaggc ggggcaccac a                           41


<210>  89
<211>  25
<212>  DNA
<213>  Artificial Sequence

<220>
<223>  Oligonucleotide

<400>  89
tgtggtgccc cgccttgtag cggtt                                             25


