Variant sites (alt >= 25% at informative depth >= 4 in any oyster): 57
  seen in >= 2 oysters: 25
  differ between Qui vs Rio (pooled alt-frequency difference >= 0.5): 2  [CpG-destroying: 1]
    62503441 T>C  Pum=0.4  Qui=0.146  Rio=0.731
    62503754 C>T  Pum=0.333  Qui=0.4  Rio=0.941

15 CpGs in target; 5 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    29.4     34        1   10.3
Qui1     Qui    60.5     38        1    8.1
Qui2     Qui    35.5     31        1    6.6
Qui3     Qui     9.8     41        0   10.8
Qui4     Qui    38.2     34        1    9.1
Rio1     Rio    70.0     30        1    8.9
Rio2     Rio    87.5     24        0    5.8
Rio3     Rio    86.4     22        1    6.1
Rio4     Rio    77.3     22        1    5.9