Variant sites (alt >= 25% at informative depth >= 4 in any oyster): 39
  seen in >= 2 oysters: 6
  differ between Qui vs Rio (pooled alt-frequency difference >= 0.5): 4  [CpG-destroying: 0]
    3616212 T>A  Pum=1.0  Qui=0.261  Rio=0.788
    3616289 A>T  Pum=1.0  Qui=0.238  Rio=0.742
    3616366 G>T  Pum=1.0  Qui=0.172  Rio=0.769
    3616739 G>T  Pum=1.0  Qui=0.0  Rio=1.0

12 CpGs in target; 9 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    81.2     69        0    9.0
Qui1     Qui    93.0     57        0    7.1
Qui2     Qui    95.8     72        0    9.9
Qui3     Qui    94.7     94        0   12.3
Qui4     Qui    94.3    106        0    7.9
Rio1     Rio    42.4     85        0    9.4
Rio2     Rio    38.2     68        0    6.8
Rio3     Rio    80.6     72        0    7.2
Rio4     Rio    48.7     76        0    8.8