Variant sites (alt >= 25% at informative depth >= 4 in any oyster): 51
  seen in >= 2 oysters: 22
  differ between Qui vs Rio (pooled alt-frequency difference >= 0.5): 23  [CpG-destroying: 8]
    55562066 C>T  Pum=  Qui=0.909  Rio=0.125
    55562072 C>A  Pum=  Qui=1.0  Rio=0.125
    55562099 G>A  Pum=0.833  Qui=1.0  Rio=0.176
    55562117 T>A  Pum=1.0  Qui=1.0  Rio=0.167
    55562137 T>G  Pum=0.571  Qui=0.757  Rio=0.083
    55562163 A>G  Pum=0.556  Qui=0.8  Rio=0.107
    55562164 G>A  Pum=1.0  Qui=1.0  Rio=0.158
    55562187 G>A  Pum=1.0  Qui=1.0  Rio=0.2
    55562244 G>A  Pum=  Qui=1.0  Rio=0.111
    55562255 T>G  Pum=0.333  Qui=0.762  Rio=0.077
    55562314 A>G  Pum=0.571  Qui=0.739  Rio=0.0
    55562325 A>G  Pum=0.625  Qui=0.7  Rio=0.0
    55562329 A>G  Pum=0.625  Qui=0.75  Rio=0.0
    55562333 A>T  Pum=0.625  Qui=0.667  Rio=0.0
    55562371 G>T  Pum=1.0  Qui=1.0  Rio=0.0
    55562412 A>T  Pum=1.0  Qui=1.0  Rio=0.059
    55562693 T>G  Pum=  Qui=0.895  Rio=0.0
    55562716 G>A  Pum=  Qui=1.0  Rio=0.0
    55562740 T>C  Pum=  Qui=0.913  Rio=0.138
    55562761 T>C  Pum=  Qui=0.625  Rio=0.114
    55562921 C>T  Pum=  Qui=1.0  Rio=0.143
    55562938 C>T  Pum=  Qui=1.0  Rio=0.136
    55562951 C>A  Pum=  Qui=1.0  Rio=0.15

25 CpGs in target; 11 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    68.4     76        0    4.2
Qui1     Qui    84.6    104        0    7.9
Qui2     Qui    51.7    116        1    7.2
Qui3     Qui    51.0    100        0    5.6
Qui4     Qui    63.5     52        1    4.0
Rio1     Rio     0.0     62        0    6.1
Rio2     Rio     0.0     76        0    5.7
Rio3     Rio     1.3     78        0    4.7
Rio4     Rio     0.8    122        0    8.2