Variant sites (alt >= 25% at informative depth >= 4 in any oyster): 11
  seen in >= 2 oysters: 7
  differ between Qui vs Rio (pooled alt-frequency difference >= 0.5): 7  [CpG-destroying: 4]
    5025709 A>G  Pum=0.0  Qui=0.105  Rio=0.722
    5025716 G>A  Pum=0.0  Qui=0.2  Rio=1.0
    5025729 G>T  Pum=0.0  Qui=0.222  Rio=1.0
    5025743 C>T  Pum=0.0  Qui=0.25  Rio=1.0
    5025749 C>T  Pum=0.0  Qui=0.308  Rio=1.0
    5025762 G>A  Pum=0.0  Qui=0.333  Rio=1.0
    5025785 A>G  Pum=0.0  Qui=0.5  Rio=1.0

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    75.0      4        0    9.0
Qui1     Qui    66.7      3        1    6.0
Qui2     Qui     0.0      2        1    6.0
Qui3     Qui   100.0      1        0    2.0
Qui4     Qui   100.0      3        1    7.0
Rio1     Rio     0.0      4        0    4.0
Rio2     Rio     0.0      3        1    7.0
Rio3     Rio     0.0      3        1    6.0
Rio4     Rio     0.0      7        0    8.0