Variant sites (alt >= 25% at informative depth >= 4 in any oyster): 38
  seen in >= 2 oysters: 14
  differ between Qui vs Rio (pooled alt-frequency difference >= 0.5): 12  [CpG-destroying: 2]
    2338162 G>A  Pum=  Qui=0.0  Rio=0.947
    2338209 A>T  Pum=1.0  Qui=0.111  Rio=1.0
    2338211 T>A  Pum=1.0  Qui=0.118  Rio=1.0
    2338247 C>T  Pum=1.0  Qui=0.2  Rio=1.0
    2338419 T>C  Pum=  Qui=0.235  Rio=1.0
    2338461 A>G  Pum=  Qui=0.118  Rio=1.0
    2338523 C>A  Pum=  Qui=0.077  Rio=1.0
    2338568 A>T  Pum=1.0  Qui=0.111  Rio=1.0
    2338575 A>G  Pum=0.6  Qui=0.038  Rio=0.545
    2338576 T>A  Pum=1.0  Qui=0.12  Rio=0.957
    2338600 A>G  Pum=  Qui=0.125  Rio=0.963
    2338999 A>T  Pum=1.0  Qui=0.179  Rio=1.0

9 CpGs in target; 4 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    62.5     16        1    7.1
Qui1     Qui    90.9     22        0    5.5
Qui2     Qui    87.5      8        0    3.4
Qui3     Qui    97.1     34        0    8.7
Qui4     Qui   100.0     17        1    5.6
Rio1     Rio    63.0     27        1   11.5
Rio2     Rio    57.1     28        1    7.2
Rio3     Rio    50.0      4        1    5.7
Rio4     Rio    67.5     40        1   10.1