Variant sites (alt >= 25% at informative depth >= 4 in any oyster): 23
  seen in >= 2 oysters: 7
  differ between Qui vs Rio (pooled alt-frequency difference >= 0.5): 6  [CpG-destroying: 4]
    2104026 C>T  Pum=1.0  Qui=0.0  Rio=0.9
    2104216 C>T  Pum=1.0  Qui=0.0  Rio=1.0
    2104393 T>A  Pum=0.5  Qui=0.0  Rio=0.6
    2104450 A>G  Pum=0.75  Qui=0.0  Rio=1.0
    2104834 C>T  Pum=1.0  Qui=0.0  Rio=1.0
    2104868 C>T  Pum=1.0  Qui=0.0  Rio=1.0

10 CpGs in target; 8 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    76.3     38        2    6.9
Qui1     Qui    94.9     59        0    8.4
Qui2     Qui    90.2     41        0    6.9
Qui3     Qui    92.9     42        0    7.8
Qui4     Qui    90.0     60        0    7.2
Rio1     Rio    67.3     55        1    9.6
Rio2     Rio    77.3     44        1    8.0
Rio3     Rio    77.8     36        1    5.7
Rio4     Rio    66.7     45        2    8.7