Variant sites (alt >= 25% at informative depth >= 4 in any oyster): 9
  seen in >= 2 oysters: 9
  differ between Qui vs Rio (pooled alt-frequency difference >= 0.5): 3  [CpG-destroying: 2]
    54887218 G>A  Pum=0.0  Qui=0.971  Rio=0.222
    54887249 A>G  Pum=0.0  Qui=0.829  Rio=0.216
    54887266 G>A  Pum=0.0  Qui=1.0  Rio=0.265

1 CpGs in target; 0 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   100.0     12        0   15.0
Qui1     Qui     0.0      3        0    3.0
Qui2     Qui    10.0     10        0   11.5
Qui3     Qui    12.5      8        0    8.0
Qui4     Qui     0.0     12        0   13.0
Rio1     Rio    62.5      8        0    9.0
Rio2     Rio   100.0     10        0   11.0
Rio3     Rio    58.3     12        0   13.0
Rio4     Rio    83.3      6        0    6.0