Variant sites (alt >= 25% at informative depth >= 4 in any oyster): 51
  seen in >= 2 oysters: 24
  differ between Qui vs Rio (pooled alt-frequency difference >= 0.5): 23  [CpG-destroying: 9]
    17844025 G>A  Pum=0.833  Qui=1.0  Rio=0.176
    17844043 T>A  Pum=1.0  Qui=1.0  Rio=0.167
    17844063 T>G  Pum=0.571  Qui=0.757  Rio=0.083
    17844089 A>G  Pum=0.556  Qui=0.8  Rio=0.107
    17844090 G>A  Pum=1.0  Qui=1.0  Rio=0.158
    17844113 G>A  Pum=1.0  Qui=1.0  Rio=0.2
    17844170 G>A  Pum=  Qui=1.0  Rio=0.111
    17844181 T>G  Pum=0.333  Qui=0.762  Rio=0.077
    17844240 A>G  Pum=0.571  Qui=0.739  Rio=0.0
    17844251 A>G  Pum=0.625  Qui=0.7  Rio=0.0
    17844255 A>G  Pum=0.625  Qui=0.75  Rio=0.0
    17844259 A>T  Pum=0.625  Qui=0.667  Rio=0.0
    17844297 G>T  Pum=1.0  Qui=1.0  Rio=0.0
    17844338 A>T  Pum=1.0  Qui=1.0  Rio=0.059
    17844619 T>G  Pum=  Qui=0.895  Rio=0.0
    17844642 G>A  Pum=  Qui=1.0  Rio=0.0
    17844666 T>C  Pum=  Qui=0.913  Rio=0.138
    17844687 T>C  Pum=  Qui=0.625  Rio=0.114
    17844847 C>T  Pum=  Qui=1.0  Rio=0.143
    17844864 C>T  Pum=  Qui=1.0  Rio=0.136
    17844877 C>A  Pum=  Qui=1.0  Rio=0.15
    17844942 G>A  Pum=  Qui=1.0  Rio=0.056
    17844996 G>A  Pum=1.0  Qui=1.0  Rio=0.045

23 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    70.6     68        0    4.4
Qui1     Qui    88.0    100        0    8.4
Qui2     Qui    54.1    122        0    7.6
Qui3     Qui    60.4     96        0    5.9
Qui4     Qui    58.3     60        0    4.4
Rio1     Rio     0.0     71        0    6.6
Rio2     Rio     0.0     67        0    5.7
Rio3     Rio     1.4     70        0    4.8
Rio4     Rio     0.8    119        0    8.5