Variant sites (alt >= 25% at informative depth >= 4 in any oyster): 44
  seen in >= 2 oysters: 10
  differ between Qui vs Rio (pooled alt-frequency difference >= 0.5): 13  [CpG-destroying: 5]
    130914019 G>A  Pum=  Qui=1.0  Rio=0.0
    130914036 T>C  Pum=0.0  Qui=0.675  Rio=0.039
    130914223 A>T  Pum=0.0  Qui=0.909  Rio=0.0
    130914245 A>T  Pum=0.0  Qui=0.583  Rio=0.0
    130914355 C>T  Pum=0.125  Qui=1.0  Rio=0.0
    130914479 T>A  Pum=0.091  Qui=0.54  Rio=0.0
    130914612 G>A  Pum=  Qui=1.0  Rio=0.0
    130914687 A>C  Pum=0.0  Qui=0.625  Rio=0.0
    130914696 A>C  Pum=0.0  Qui=0.677  Rio=0.0
    130914705 C>T  Pum=0.0  Qui=1.0  Rio=0.0
    130914732 C>A  Pum=0.0  Qui=1.0  Rio=0.0
    130914929 G>A  Pum=  Qui=1.0  Rio=0.0
    130914997 A>T  Pum=0.0  Qui=1.0  Rio=0.0

9 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    97.6     41        0    9.1
Qui1     Qui    89.7     39        0    6.5
Qui2     Qui    86.2     29        1    7.9
Qui3     Qui    88.2     51        1    9.8
Qui4     Qui    71.4     35        1    7.7
Rio1     Rio    96.8     63        0   12.5
Rio2     Rio    88.2     34        0    9.7
Rio3     Rio    95.5     44        0    7.6
Rio4     Rio    97.0     33        0   10.6