Variant sites (alt >= 25% at informative depth >= 4 in any oyster): 68
  seen in >= 2 oysters: 23
  differ between Qui vs Rio (pooled alt-frequency difference >= 0.5): 16  [CpG-destroying: 5]
    10028033 T>A  Pum=  Qui=0.024  Rio=0.656
    10028188 T>C  Pum=0.75  Qui=0.095  Rio=0.6
    10028208 G>T  Pum=  Qui=0.2  Rio=0.875
    10028274 C>T  Pum=0.5  Qui=0.105  Rio=0.786
    10028284 G>A  Pum=  Qui=0.077  Rio=0.75
    10028353 C>A  Pum=  Qui=0.083  Rio=0.875
    10028430 T>A  Pum=0.714  Qui=0.091  Rio=0.714
    10028667 T>A  Pum=  Qui=0.043  Rio=0.562
    10028672 A>C  Pum=  Qui=0.154  Rio=0.765
    10028696 A>G  Pum=  Qui=0.143  Rio=0.727
    10028704 G>A  Pum=  Qui=0.25  Rio=0.778
    10028726 C>A  Pum=  Qui=0.263  Rio=0.947
    10028754 T>A  Pum=1.0  Qui=0.175  Rio=0.71
    10028879 A>T  Pum=0.909  Qui=0.105  Rio=0.688
    10028939 G>A  Pum=  Qui=0.0  Rio=0.786
    10028950 C>T  Pum=1.0  Qui=0.148  Rio=0.923

12 CpGs in target; 7 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    50.0     12        1    5.2
Qui1     Qui    90.6     32        0    6.7
Qui2     Qui    93.7     63        0    9.7
Qui3     Qui    67.9     56        1    6.7
Qui4     Qui    79.1     43        0    7.9
Rio1     Rio    30.0     10        1    5.8
Rio2     Rio    50.0     22        1    5.7
Rio3     Rio    72.0     25        2    5.0
Rio4     Rio    19.6     46        1    7.7