private bool AnchoredRegionContainsUnanchoredEnds(BamAlignment read1, BamAlignment read2)
{
var read1UnanchoredStart = read1.Position - (read1.CigarData.GetPrefixClip());
var read1UnanchoredEnd = read1.GetLastBasePosition() + (read1.CigarData.GetSuffixClip());
return(read2.ContainsPosition(read1UnanchoredStart, read1.RefID) ||
read2.ContainsPosition(read1UnanchoredEnd, read1.RefID));
}
