+ vector<Sequence*> findClosest(Sequence*, vector<Sequence*>, int&, vector<int>&); //takes querySeq, a reference db, numWanted and indexes
+ Sequence* findClosest(Sequence*, vector<Sequence*>);
+ set<int> getPos() { return h; }
+ void setMask(string);
+ void setAlignmentLength(int l) { alignLength = l; }