Variant sites (alt >= 25% at informative depth >= 4 in any oyster): 50
  seen in >= 2 oysters: 18
  differ between Qui vs Rio (pooled alt-frequency difference >= 0.5): 16  [CpG-destroying: 7]
    2086099 A>T  Pum=1.0  Qui=0.0  Rio=1.0
    2086146 G>A  Pum=  Qui=0.0  Rio=1.0
    2086323 T>C  Pum=0.714  Qui=0.0  Rio=0.622
    2086370 C>T  Pum=1.0  Qui=0.0  Rio=1.0
    2086471 A>G  Pum=0.75  Qui=0.0  Rio=0.682
    2086566 A>C  Pum=0.833  Qui=0.0  Rio=0.741
    2086587 A>C  Pum=0.857  Qui=0.0  Rio=0.8
    2086594 C>T  Pum=1.0  Qui=0.0  Rio=0.95
    2086612 C>A  Pum=0.857  Qui=0.0  Rio=1.0
    2086809 C>T  Pum=1.0  Qui=0.0  Rio=1.0
    2086810 G>A  Pum=  Qui=0.0  Rio=1.0
    2086822 C>T  Pum=1.0  Qui=0.0  Rio=1.0
    2086866 A>T  Pum=1.0  Qui=0.0  Rio=1.0
    2086911 C>A  Pum=1.0  Qui=0.0  Rio=0.909
    2086944 T>C  Pum=1.0  Qui=0.0  Rio=0.96
    2086996 G>A  Pum=  Qui=0.0  Rio=1.0

26 CpGs in target; 14 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    75.6     45        3    6.9
Qui1     Qui    97.0    101        0    9.4
Qui2     Qui    97.8     45        0   10.3
Qui3     Qui    92.8     97        0    7.7
Qui4     Qui    92.2     51        0    5.4
Rio1     Rio    63.0     27        3    7.1
Rio2     Rio    69.0     71        2    6.0
Rio3     Rio    58.6     29        3    6.9
Rio4     Rio    71.7    106        3    8.7