variants

type AnnoStructs struct {
	Queryname string
	Vs        []Variant
	Idx       int
}

type Region struct {
	Whichtype   string // only "protein-coding" for now
	Name        string // name of feature, if it has one
	Start       int    // 1-based 5'-most position of region on the forward strand, inclusive
	Stop        int    // 1-based 3'-most position of region on the forward strand, inclusive
	Translation string // amino acid sequence of this region if it is CDS
	Strand      int    // values in the set {-1, +1} only (and "0" for a mixture?!)
	Positions   []int  // all the (1-based, unadjusted) positions in order, on the reverse strand if needs be
}

type Variant struct {
	Queryname      string
	RefAl          string
	QueAl          string
	Position       int    // (1-based) genomic location (for an amino acid change, this is the first position of the codon)
	Residue        int    // (1-based) amino acid location
	Changetype     string // one of {nuc,aa,ins,del}
	Feature        string // this should be, for example, the name of the CDS that the thing is in
	Length         int    // for indels
	SNPs           string // if this is an amino acid change, what are the snps
	Representation string
}