Alignments extending past the end of reference sequences

[gt1]

Hi,

I have seen cases where alignments extended past the end of reference sequences (i.e. start from the stated position, following the CIGAR operations and positions past the end of the reference sequence are used). These are invalid and should not be produced.

Best regards,
German

[dfguan]

Hi German,

Thanks for reminding, I will debug rHAT as soon as possible.

Best,

Dengfeng Guan