/// <summary>
/// Get the sequence item converted from Encoding to Alphabet
/// </summary>
/// <param name="item">Sequence item to veify.</param>
private ISequenceItem GetSymbolSafeISequenceItem(ISequenceItem item)
{
if (UseEncoding && Encoding.Contains(item))
{
return(MapToAlphabet.Convert(item));
}
return(item);
}