Ambiguous single nucleotide variations (more than one nucleotide variation at a given nucleotide position) were filtered out.
Selective sweeps limited to the unfused arrangement are expected to reduce nucleotide variation more severely in northern relative to southern populations of D. americana.
While more extensive surveys of nucleotide variation from coding nDNA are needed, low variation appears to be restricted to the mitochondrial genome of corals.
Hence, this source of variation has more nucleotide content per genome than SNPs [ 4].
More importantly, single nucleotide variations, short insertion and deletions and novel junctions identified from RNA-Seq data make protein database more complete and sample-specific.
More generally: single nucleotide variations constitute most of the genetic variation among humans and therefore play an important role when studying hereditary diseases or differential drug response.
Variability on the level of gene expression is far more common than nucleotide variations which alter protein sequences and it is believed that these haplotype variations determine individual traits and predispositions for common diseases such as PD.
If CanSINE proliferation and subsequent sequence divergence is correlated with evolutionary time, then more ancient inserts will have greater nucleotide variation then those of recent origin.
Although selection does not appear to dramatically alter phylogeographic patterns at these genes, there are some signs from the data that it could be more subtly impacting the patterns of nucleotide variation in these copepod populations.
