Variant sites (alt >= 25% at informative depth >= 4 in any oyster): 130
  seen in >= 2 oysters: 18
  differ between Qui vs Rio (pooled alt-frequency difference >= 0.5): 9  [CpG-destroying: 4]
    5340378 A>T  Pum=0.571  Qui=0.062  Rio=0.619
    5341798 A>T  Pum=0.25  Qui=0.1  Rio=0.833
    5342319 C>T  Pum=  Qui=0.0  Rio=0.6
    5342426 G>A  Pum=  Qui=0.154  Rio=0.765
    5342527 G>T  Pum=0.714  Qui=0.16  Rio=0.826
    5342537 A>G  Pum=0.8  Qui=0.152  Rio=0.871
    5342565 G>A  Pum=0.571  Qui=0.2  Rio=0.833
    5342620 G>A  Pum=0.625  Qui=0.136  Rio=0.783
    5343928 A>T  Pum=0.714  Qui=0.027  Rio=0.571

13 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    82.1     67        0    8.8
Qui1     Qui    89.7     68        0    7.3
Qui2     Qui    86.1     72        0    7.9
Qui3     Qui    90.8     65        0    9.0
Qui4     Qui    92.2     64        0    7.5
Rio1     Rio    70.4     54        0    7.8
Rio2     Rio    73.7     57        0    8.2
Rio3     Rio    76.7     30        0    5.6
Rio4     Rio    63.2     57        0    7.5