                               SEQUENCE LISTING

<110> BERNSTEIN, BRADLEY
      SHAREEF, SARAH

<120> METHYLATION ASSAYS AND USES THEREOF

<130> 167741.022201/PCT

<140> PCT/US2020/060470
<141> 2020-11-13

<150> 62/934,802
<151> 2019-11-13

<160> 61    

<170> PatentIn version 3.5

<210> 1
<211> 20
<212> DNA
<213> Artificial Sequence

<220>
<223> Description of Artificial Sequence: Synthetic
      oligonucleotide

<400> 1
aatgatacgg cgaccaccga                                                   20


<210> 2
<211> 24
<212> DNA
<213> Artificial Sequence

<220>
<223> Description of Artificial Sequence: Synthetic
      oligonucleotide

<400> 2
caagcagaag acggcatacg agat                                              24


<210> 3
<211> 33
<212> DNA
<213> Artificial Sequence

<220>
<223> Description of Artificial Sequence: Synthetic
      oligonucleotide

<400> 3
acactctttc cctacacgac gctcttccga tct                                    33


<210> 4
<211> 34
<212> DNA
<213> Artificial Sequence

<220>
<223> Description of Artificial Sequence: Synthetic
      oligonucleotide

<400> 4
gtgactggag ttcagacgtg tgctcttccg atct                                   34


<210> 5
<211> 34
<212> DNA
<213> Artificial Sequence

<220>
<223> Description of Artificial Sequence: Synthetic
      oligonucleotide

<400> 5
gtctcgtggg ctcggagatg tgtataagag acag                                   34


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

<220>
<223> Description of Artificial Sequence: Synthetic
      oligonucleotide

<400> 6
ggagttcaga cgtgtgctct tccgatcttg gtatag                                 36


<210> 7
<211> 38
<212> DNA
<213> Artificial Sequence

<220>
<223> Description of Artificial Sequence: Synthetic
      oligonucleotide

<400> 7
cgctatacca agatcggaag agcacacgtc tgaactcc                               38


<210> 8
<211> 36
<212> DNA
<213> Artificial Sequence

<220>
<223> Description of Artificial Sequence: Synthetic
      oligonucleotide

<400> 8
ggagttcaga cgtgtgctct tccgatctgg atggtt                                 36


<210> 9
<211> 38
<212> DNA
<213> Artificial Sequence

<220>
<223> Description of Artificial Sequence: Synthetic
      oligonucleotide

<400> 9
cgaaccatcc agatcggaag agcacacgtc tgaactcc                               38


<210> 10
<211> 36
<212> DNA
<213> Artificial Sequence

<220>
<223> Description of Artificial Sequence: Synthetic
      oligonucleotide

<400> 10
ggagttcaga cgtgtgctct tccgatctat agatta                                 36


<210> 11
<211> 38
<212> DNA
<213> Artificial Sequence

<220>
<223> Description of Artificial Sequence: Synthetic
      oligonucleotide

<400> 11
cgtaatctat agatcggaag agcacacgtc tgaactcc                               38


<210> 12
<211> 36
<212> DNA
<213> Artificial Sequence

<220>
<223> Description of Artificial Sequence: Synthetic
      oligonucleotide

<400> 12
ggagttcaga cgtgtgctct tccgatctga agaggt                                 36


<210> 13
<211> 38
<212> DNA
<213> Artificial Sequence

<220>
<223> Description of Artificial Sequence: Synthetic
      oligonucleotide

<400> 13
cgacctcttc agatcggaag agcacacgtc tgaactcc                               38


<210> 14
<211> 36
<212> DNA
<213> Artificial Sequence

<220>
<223> Description of Artificial Sequence: Synthetic
      oligonucleotide

<400> 14
ggagttcaga cgtgtgctct tccgatctga gatttg                                 36


<210> 15
<211> 38
<212> DNA
<213> Artificial Sequence

<220>
<223> Description of Artificial Sequence: Synthetic
      oligonucleotide

<400> 15
cgcaaatctc agatcggaag agcacacgtc tgaactcc                               38


<210> 16
<211> 36
<212> DNA
<213> Artificial Sequence

<220>
<223> Description of Artificial Sequence: Synthetic
      oligonucleotide

<400> 16
ggagttcaga cgtgtgctct tccgatctgg aggttg                                 36


<210> 17
<211> 38
<212> DNA
<213> Artificial Sequence

<220>
<223> Description of Artificial Sequence: Synthetic
      oligonucleotide

<400> 17
cgcaacctcc agatcggaag agcacacgtc tgaactcc                               38


<210> 18
<211> 36
<212> DNA
<213> Artificial Sequence

<220>
<223> Description of Artificial Sequence: Synthetic
      oligonucleotide

<400> 18
ggagttcaga cgtgtgctct tccgatctat taaagg                                 36


<210> 19
<211> 38
<212> DNA
<213> Artificial Sequence

<220>
<223> Description of Artificial Sequence: Synthetic
      oligonucleotide

<400> 19
cgcctttaat agatcggaag agcacacgtc tgaactcc                               38


<210> 20
<211> 36
<212> DNA
<213> Artificial Sequence

<220>
<223> Description of Artificial Sequence: Synthetic
      oligonucleotide

<400> 20
ggagttcaga cgtgtgctct tccgatcttt tggtat                                 36


<210> 21
<211> 38
<212> DNA
<213> Artificial Sequence

<220>
<223> Description of Artificial Sequence: Synthetic
      oligonucleotide

<400> 21
cgataccaaa agatcggaag agcacacgtc tgaactcc                               38


<210> 22
<211> 36
<212> DNA
<213> Artificial Sequence

<220>
<223> Description of Artificial Sequence: Synthetic
      oligonucleotide

<400> 22
ggagttcaga cgtgtgctct tccgatctaa gaggtt                                 36


<210> 23
<211> 38
<212> DNA
<213> Artificial Sequence

<220>
<223> Description of Artificial Sequence: Synthetic
      oligonucleotide

<400> 23
cgaacctctt agatcggaag agcacacgtc tgaactcc                               38


<210> 24
<211> 36
<212> DNA
<213> Artificial Sequence

<220>
<223> Description of Artificial Sequence: Synthetic
      oligonucleotide

<400> 24
ggagttcaga cgtgtgctct tccgatctta taatag                                 36


<210> 25
<211> 38
<212> DNA
<213> Artificial Sequence

<220>
<223> Description of Artificial Sequence: Synthetic
      oligonucleotide

<400> 25
cgctattata agatcggaag agcacacgtc tgaactcc                               38


<210> 26
<211> 36
<212> DNA
<213> Artificial Sequence

<220>
<223> Description of Artificial Sequence: Synthetic
      oligonucleotide

<400> 26
ggagttcaga cgtgtgctct tccgatcttt ggtatt                                 36


<210> 27
<211> 38
<212> DNA
<213> Artificial Sequence

<220>
<223> Description of Artificial Sequence: Synthetic
      oligonucleotide

<400> 27
cgaataccaa agatcggaag agcacacgtc tgaactcc                               38


<210> 28
<211> 36
<212> DNA
<213> Artificial Sequence

<220>
<223> Description of Artificial Sequence: Synthetic
      oligonucleotide

<400> 28
ggagttcaga cgtgtgctct tccgatctaa agtgtt                                 36


<210> 29
<211> 38
<212> DNA
<213> Artificial Sequence

<220>
<223> Description of Artificial Sequence: Synthetic
      oligonucleotide

<400> 29
cgaacacttt agatcggaag agcacacgtc tgaactcc                               38


<210> 30
<211> 36
<212> DNA
<213> Artificial Sequence

<220>
<223> Description of Artificial Sequence: Synthetic
      oligonucleotide

<400> 30
ggagttcaga cgtgtgctct tccgatctga gtgtgt                                 36


<210> 31
<211> 38
<212> DNA
<213> Artificial Sequence

<220>
<223> Description of Artificial Sequence: Synthetic
      oligonucleotide

<400> 31
cgacacactc agatcggaag agcacacgtc tgaactcc                               38


<210> 32
<211> 36
<212> DNA
<213> Artificial Sequence

<220>
<223> Description of Artificial Sequence: Synthetic
      oligonucleotide

<400> 32
ggagttcaga cgtgtgctct tccgatcttg gttaag                                 36


<210> 33
<211> 38
<212> DNA
<213> Artificial Sequence

<220>
<223> Description of Artificial Sequence: Synthetic
      oligonucleotide

<400> 33
cgcttaacca agatcggaag agcacacgtc tgaactcc                               38


<210> 34
<211> 36
<212> DNA
<213> Artificial Sequence

<220>
<223> Description of Artificial Sequence: Synthetic
      oligonucleotide

<400> 34
ggagttcaga cgtgtgctct tccgatctaa ggatta                                 36


<210> 35
<211> 38
<212> DNA
<213> Artificial Sequence

<220>
<223> Description of Artificial Sequence: Synthetic
      oligonucleotide

<400> 35
cgtaatcctt agatcggaag agcacacgtc tgaactcc                               38


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

<220>
<223> Description of Artificial Sequence: Synthetic
      oligonucleotide

<400> 36
ggagttcaga cgtgtgctct tccgatctgt ttagta                                 36


<210> 37
<211> 38
<212> DNA
<213> Artificial Sequence

<220>
<223> Description of Artificial Sequence: Synthetic
      oligonucleotide

<400> 37
cgtactaaac agatcggaag agcacacgtc tgaactcc                               38


<210> 38
<211> 36
<212> DNA
<213> Artificial Sequence

<220>
<223> Description of Artificial Sequence: Synthetic
      oligonucleotide

<400> 38
ggagttcaga cgtgtgctct tccgatctta aatgat                                 36


<210> 39
<211> 38
<212> DNA
<213> Artificial Sequence

<220>
<223> Description of Artificial Sequence: Synthetic
      oligonucleotide

<400> 39
cgatcattta agatcggaag agcacacgtc tgaactcc                               38


<210> 40
<211> 36
<212> DNA
<213> Artificial Sequence

<220>
<223> Description of Artificial Sequence: Synthetic
      oligonucleotide

<400> 40
ggagttcaga cgtgtgctct tccgatctta gatagg                                 36


<210> 41
<211> 38
<212> DNA
<213> Artificial Sequence

<220>
<223> Description of Artificial Sequence: Synthetic
      oligonucleotide

<400> 41
cgcctatcta agatcggaag agcacacgtc tgaactcc                               38


<210> 42
<211> 36
<212> DNA
<213> Artificial Sequence

<220>
<223> Description of Artificial Sequence: Synthetic
      oligonucleotide

<400> 42
ggagttcaga cgtgtgctct tccgatctga tgggtt                                 36


<210> 43
<211> 38
<212> DNA
<213> Artificial Sequence

<220>
<223> Description of Artificial Sequence: Synthetic
      oligonucleotide

<400> 43
cgaacccatc agatcggaag agcacacgtc tgaactcc                               38


<210> 44
<211> 36
<212> DNA
<213> Artificial Sequence

<220>
<223> Description of Artificial Sequence: Synthetic
      oligonucleotide

<400> 44
ggagttcaga cgtgtgctct tccgatctgg tagagt                                 36


<210> 45
<211> 38
<212> DNA
<213> Artificial Sequence

<220>
<223> Description of Artificial Sequence: Synthetic
      oligonucleotide

<400> 45
cgactctacc agatcggaag agcacacgtc tgaactcc                               38


<210> 46
<211> 36
<212> DNA
<213> Artificial Sequence

<220>
<223> Description of Artificial Sequence: Synthetic
      oligonucleotide

<400> 46
ggagttcaga cgtgtgctct tccgatctat gtaata                                 36


<210> 47
<211> 38
<212> DNA
<213> Artificial Sequence

<220>
<223> Description of Artificial Sequence: Synthetic
      oligonucleotide

<400> 47
cgtattacat agatcggaag agcacacgtc tgaactcc                               38


<210> 48
<211> 36
<212> DNA
<213> Artificial Sequence

<220>
<223> Description of Artificial Sequence: Synthetic
      oligonucleotide

<400> 48
ggagttcaga cgtgtgctct tccgatctgg tgtagt                                 36


<210> 49
<211> 38
<212> DNA
<213> Artificial Sequence

<220>
<223> Description of Artificial Sequence: Synthetic
      oligonucleotide

<400> 49
cgactacacc agatcggaag agcacacgtc tgaactcc                               38


<210> 50
<211> 36
<212> DNA
<213> Artificial Sequence

<220>
<223> Description of Artificial Sequence: Synthetic
      oligonucleotide

<400> 50
ggagttcaga cgtgtgctct tccgatctat aaagat                                 36


<210> 51
<211> 38
<212> DNA
<213> Artificial Sequence

<220>
<223> Description of Artificial Sequence: Synthetic
      oligonucleotide

<400> 51
cgatctttat agatcggaag agcacacgtc tgaactcc                               38


<210> 52
<211> 36
<212> DNA
<213> Artificial Sequence

<220>
<223> Description of Artificial Sequence: Synthetic
      oligonucleotide

<400> 52
ggagttcaga cgtgtgctct tccgatcttg ggatat                                 36


<210> 53
<211> 38
<212> DNA
<213> Artificial Sequence

<220>
<223> Description of Artificial Sequence: Synthetic
      oligonucleotide

<400> 53
cgatatccca agatcggaag agcacacgtc tgaactcc                               38


<210> 54
<211> 33
<212> DNA
<213> Artificial Sequence

<220>
<223> Description of Artificial Sequence: Synthetic
      oligonucleotide

<400> 54
ggagttcaga cgtgtgctct tccgatctdd ddd                                    33


<210> 55
<211> 38
<212> DNA
<213> Artificial Sequence

<220>
<223> Description of Artificial Sequence: Synthetic
      oligonucleotide

<400> 55
cghhhhhhhh agatcggaag agcacacgtc tgaactcc                               38


<210> 56
<211> 27
<212> DNA
<213> Artificial Sequence

<220>
<223> Description of Artificial Sequence: Synthetic
      primer


<220>
<221> modified_base
<222> (22)..(27)
<223> a, c, t, g, unknown or other

<400> 56
tacacgacgc tcttccgatc tnnnnnn                                           27


<210> 57
<211> 59
<212> DNA
<213> Artificial Sequence

<220>
<223> Description of Artificial Sequence: Synthetic
      primer


<220>
<221> modified_base
<222> (25)..(32)
<223> This region may encompass one of the following sequences:
      "AGCATGGA" or "AGGATCTA" or "ATTCCTCT" or "CAATAGTC" or 
      "CGCTATGT" or "GATATCCA" or "GGTCCAGA" or "TCGCTAGA" or 
      "TCTGCAAG" or "TTCGCTGA" 

<400> 57
caagcagaag acggcatacg agatnnnnnn nngtgactgg agttcagacg tgtgctctt        59


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

<220>
<223> Description of Artificial Sequence: Synthetic
      primer

<400> 58
aatgatacgg cgaccaccga gatctacact ctttccctac acgacgctct tccgatct         58


<210> 59
<211> 69
<212> DNA
<213> Artificial Sequence

<220>
<223> Description of Artificial Sequence: Synthetic
      primer


<220>
<221> modified_base
<222> (29)..(36)
<223> This region may encompass one of the following sequences:
      "GCCAAGAA" or "GGAGAGTA" or "CAATGCTA" or "TCTGTGAA"

<400> 59
aatgatacgg cgaccaccga gatctcacnn nnnnnnacac tctttcccta cacgacgctc       60

ttccgatct                                                               69


<210> 60
<211> 13
<212> DNA
<213> Artificial Sequence

<220>
<223> Description of Artificial Sequence: Synthetic
      oligonucleotide

<400> 60
gctcttccga tct                                                          13


<210> 61
<211> 42
<212> DNA
<213> Artificial Sequence

<220>
<223> Description of Artificial Sequence: Synthetic
      oligonucleotide


<220>
<221> modified_base
<222> (1)..(8)
<223> This region may encompass one of the following sequences:
      "AGCATGGA" or "AGGATCTA" or "ATTCCTCT" or "CAATAGTC" or 
      "CGCTATGT" or "GATATCCA" or "GGTCCAGA" or "TCGCTAGA" or 
      "TCTGCAAG" or "TTCGCTGA"

<400> 61
nnnnnnnngt ctcgtgggct cggagatgtg tataagagac ag                          42


