Variant sites (alt >= 25% at informative depth >= 4 in any oyster): 7
  seen in >= 2 oysters: 4
  differ between Qui vs Rio (pooled alt-frequency difference >= 0.5): 4  [CpG-destroying: 1]
    90229413 T>C  Pum=1.0  Qui=0.581  Rio=0.0
    90229460 G>A  Pum=1.0  Qui=0.727  Rio=0.0
    90229467 G>T  Pum=1.0  Qui=0.762  Rio=0.0
    90229487 T>C  Pum=1.0  Qui=0.743  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     0.0      4        0    6.0
Qui1     Qui     0.0      4        0    5.0
Qui2     Qui     0.0      3        0    6.0
Qui3     Qui    28.6      7        0   11.0
Qui4     Qui    55.6      9        0   14.5
Rio1     Rio   100.0      7        0   10.0
Rio2     Rio   100.0      7        0    8.0
Rio3     Rio   100.0      6        0    9.0
Rio4     Rio    88.9      9        0   12.0