Variant sites (alt >= 25% at informative depth >= 4 in any oyster): 75
  seen in >= 2 oysters: 16
  differ between Qui vs Rio (pooled alt-frequency difference >= 0.5): 14  [CpG-destroying: 2]
    89934048 A>C  Pum=0.667  Qui=0.636  Rio=0.038
    89934050 T>A  Pum=1.0  Qui=0.591  Rio=0.0
    89934137 C>A  Pum=  Qui=0.538  Rio=0.0
    89934143 C>T  Pum=  Qui=0.692  Rio=0.133
    89934148 A>C  Pum=  Qui=0.5  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=0.0
    89934270 T>C  Pum=  Qui=0.714  Rio=0.0
    89934315 A>C  Pum=  Qui=0.733  Rio=0.0
    89934333 A>C  Pum=  Qui=0.688  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; 3 testable for SNPs (>= 8 pooled genotype reads at C and G in each of Qui, Rio)
sample   pop   meth%  calls CtoT_snp  depth
Pum1     Pum    95.7     23        0    4.3
Qui1     Qui    57.9     19        0    4.0
Qui2     Qui    70.7     41        0    5.0
Qui3     Qui     0.0      5        0    3.8
Qui4     Qui    54.9     51        0    4.4
Rio1     Rio     0.0     37        1    5.3
Rio2     Rio     9.4     32        1    4.4
Rio3     Rio     0.0     22        1    4.5
Rio4     Rio     0.0     42        0    7.5