Variant sites (alt >= 25% at informative depth >= 4 in any oyster): 4
  seen in >= 2 oysters: 3
  differ between Qui vs Rio (pooled alt-frequency difference >= 0.5): 3  [CpG-destroying: 1]
    53660915 A>T  Pum=0.0  Qui=0.258  Rio=0.969
    53660960 G>A  Pum=0.125  Qui=0.238  Rio=1.0
    53660966 A>T  Pum=0.091  Qui=0.308  Rio=1.0

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    62.5      8        0   10.0
Qui1     Qui    66.7      6        0    6.0
Qui2     Qui    40.0      5        0    6.0
Qui3     Qui    50.0      6        0   10.0
Qui4     Qui    50.0      4        0    6.0
Rio1     Rio     0.0     11        0   11.5
Rio2     Rio     0.0      3        0    5.0
Rio3     Rio     0.0      5        0    8.0
Rio4     Rio     0.0      5        0    6.0