fill
fun fillInMissingVariantBlocks(tempVariantInfos: MutableList<AssemblyVariantInfo>, refGenomeSequence: Map<String, NucSeq>, fillWithRef: Boolean = true): MutableList<AssemblyVariantInfo>
Function to fill in the missing variant blocks between MAF records. If fillWithRef is set to true it will make VariantBlocks, if false it will make missing blocks.
This will also not return an assembly coordinate in the output VariantInfos. This is because Anchorwave did not find an alignment for these in-between regions. We could try to put in some coords but it gets very tricky to do so due to inversions.