Variant sites (alt >= 25% at informative depth >= 4 in any oyster): 19
  seen in >= 2 oysters: 5
  differ between Qui vs Rio (pooled alt-frequency difference >= 0.5): 4  [CpG-destroying: 1]
    59255166 A>T  Pum=0.4  Qui=0.611  Rio=0.0
    59255358 G>T  Pum=  Qui=1.0  Rio=0.471
    59255829 T>C  Pum=0.3  Qui=0.655  Rio=0.031
    59255863 C>T  Pum=0.5  Qui=0.905  Rio=0.056

12 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    17.4     46        0    6.0
Qui1     Qui    29.8     47        0    8.1
Qui2     Qui    40.9     44        0    4.3
Qui3     Qui    68.3     60        0    7.3
Qui4     Qui    50.0     36        1    5.0
Rio1     Rio     4.3     46        0    6.8
Rio2     Rio     3.8     53        0    8.4
Rio3     Rio     0.0     55        0    5.8
Rio4     Rio     0.0     38        0    7.0