Variant sites (alt >= 25% at informative depth >= 4 in any oyster): 54
  seen in >= 2 oysters: 31
  differ between Qui vs Rio (pooled alt-frequency difference >= 0.5): 20  [CpG-destroying: 7]
    17843121 C>T  Pum=0.875  Qui=0.818  Rio=0.061
    17843128 T>A  Pum=0.778  Qui=0.75  Rio=0.054
    17843145 T>A  Pum=0.889  Qui=0.824  Rio=0.049
    17843147 A>C  Pum=0.778  Qui=0.667  Rio=0.049
    17843165 C>T  Pum=0.75  Qui=0.706  Rio=0.054
    17843184 A>T  Pum=0.7  Qui=0.682  Rio=0.049
    17843263 T>C  Pum=0.9  Qui=0.889  Rio=0.024
    17843308 C>T  Pum=1.0  Qui=1.0  Rio=0.086
    17843387 C>T  Pum=0.5  Qui=0.733  Rio=0.15
    17843395 A>G  Pum=0.444  Qui=0.684  Rio=0.0
    17843445 T>A  Pum=1.0  Qui=0.87  Rio=0.143
    17843452 T>A  Pum=0.625  Qui=0.739  Rio=0.161
    17843470 A>T  Pum=1.0  Qui=0.962  Rio=0.207
    17843549 C>T  Pum=1.0  Qui=0.938  Rio=0.167
    17843572 T>G  Pum=0.692  Qui=0.522  Rio=0.0
    17843706 T>A  Pum=1.0  Qui=0.957  Rio=0.077
    17843808 G>A  Pum=  Qui=1.0  Rio=0.071
    17843858 A>G  Pum=0.5  Qui=0.5  Rio=0.0
    17843992 C>T  Pum=  Qui=0.909  Rio=0.125
    17843998 C>A  Pum=  Qui=1.0  Rio=0.125

18 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    65.1     86        1    7.6
Qui1     Qui    72.9     48        1    5.9
Qui2     Qui    42.3     26        2    4.1
Qui3     Qui    52.6     78        1    6.5
Qui4     Qui    46.2     39        2    5.7
Rio1     Rio     2.3     44        0    8.2
Rio2     Rio     1.9     54        0    8.1
Rio3     Rio     0.0     44        1    5.1
Rio4     Rio     0.0     43        0    9.3