Variant sites (alt >= 25% at informative depth >= 4 in any oyster): 60
  seen in >= 2 oysters: 13
  differ between Qui vs Rio (pooled alt-frequency difference >= 0.5): 14  [CpG-destroying: 2]
    89934048 A>C  Pum=0.667  Qui=0.684  Rio=0.0
    89934050 T>A  Pum=1.0  Qui=0.632  Rio=0.0
    89934137 C>A  Pum=  Qui=0.667  Rio=0.0
    89934143 C>T  Pum=  Qui=0.667  Rio=0.0
    89934148 A>C  Pum=  Qui=0.625  Rio=0.0
    89934257 C>A  Pum=  Qui=0.5  Rio=0.0
    89934266 A>C  Pum=  Qui=0.643  Rio=0.0
    89934268 T>C  Pum=  Qui=0.643  Rio=0.0
    89934269 A>C  Pum=  Qui=0.643  Rio=0.067
    89934270 T>C  Pum=  Qui=0.714  Rio=0.0
    89934315 A>C  Pum=  Qui=0.786  Rio=0.0
    89934333 A>C  Pum=  Qui=0.733  Rio=0.0
    89934681 C>T  Pum=  Qui=0.533  Rio=0.0
    89934753 T>A  Pum=0.875  Qui=0.586  Rio=0.0

18 CpGs in target
sample   pop   meth%  calls CtoT_snp  depth
Pum1     Pum    95.7     23        0    4.1
Qui1     Qui    64.3     14        0    3.9
Qui2     Qui    72.5     40        2    4.7
Qui3     Qui     0.0      5        1    3.7
Qui4     Qui    54.9     51        0    4.0
Rio1     Rio     0.0     37        0    5.1
Rio2     Rio     3.7     27        1    4.1
Rio3     Rio     0.0     22        1    4.5
Rio4     Rio     0.0     42        0    7.0