Variant sites (alt >= 25% at informative depth >= 4 in any oyster): 45
  seen in >= 2 oysters: 9
  differ between Qui vs Rio (pooled alt-frequency difference >= 0.5): 6  [CpG-destroying: 2]
    2090071 A>G  Pum=0.667  Qui=0.0  Rio=0.821
    2090081 G>T  Pum=1.0  Qui=0.0  Rio=1.0
    2090278 T>C  Pum=1.0  Qui=0.0  Rio=1.0
    2090894 G>A  Pum=0.857  Qui=0.0  Rio=0.96
    2090915 A>T  Pum=0.7  Qui=0.0  Rio=0.674
    2090918 C>T  Pum=  Qui=0.0  Rio=0.933

7 CpGs in target; 4 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    51.1     45        1    9.2
Qui1     Qui    92.1     38        0    7.6
Qui2     Qui    92.4     66        0    9.6
Qui3     Qui    92.5     53        0    8.4
Qui4     Qui    82.9     35        0    9.7
Rio1     Rio    57.8     45        2    8.4
Rio2     Rio    60.0     40        1    7.0
Rio3     Rio    65.1     43        0    7.6
Rio4     Rio    52.6     38        1    7.4