Variant sites (alt >= 25% at informative depth >= 4 in any oyster): 3
  seen in >= 2 oysters: 3
  differ between Qui vs Rio (pooled alt-frequency difference >= 0.5): 3  [CpG-destroying: 1]
    17739420 A>T  Pum=0.5  Qui=0.933  Rio=0.083
    17739467 C>T  Pum=0.75  Qui=1.0  Rio=0.0
    17739480 T>C  Pum=0.364  Qui=0.679  Rio=0.0

1 CpGs in target; 1 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    60.0      5        1    9.5
Qui1     Qui     0.0      3        1    8.0
Qui2     Qui     0.0      3        1    9.0
Qui3     Qui              0        1    8.5
Qui4     Qui     0.0      4        0    5.5
Rio1     Rio   100.0      6        0    8.0
Rio2     Rio   100.0      4        0    7.5
Rio3     Rio    80.0      5        0    6.0
Rio4     Rio   100.0      8        0   11.0