query_alignment_length returns read length if read is unmapped / query_alignment_end returns end of read if unmapped

[schorlton-bugseq]

As per title. I would have thought an umapped read would return 0 for this field. I can see that query_alignment_end is returning the end of the read, even though it is unmapped. Thanks for your help!

pysam 0.22.1 in micromamba container

(Pdb) print(read)
my_read     4       *       0       0       None    *       0       0       GAGAATGCTAAGATTTTCTTGCCACTTGACCCTTCGAAAAGTGCGAAAGGGTCAGACGAGATAGATTGTGCATAACCACCTCTTAGGTGATTTACTTGTTGGAAGTAAATTTTGCCATTTTTGATTAATGCTATTCTCAATTTTATGTATT       array('B', [37, 25, 25, 37, 37, 11, 11, 25, 25, 37, 37, 11, 37, 11, 37, 11, 11, 25, 25, 37, 11, 11, 37, 11, 11, 11, 37, 11, 11, 11, 11, 37, 11, 37, 11, 11, 11, 37, 25, 37, 25, 25, 11, 25, 11, 25, 37, 37, 25, 11, 25, 37, 11, 37, 11, 11, 11, 11, 11, 11, 37, 37, 37, 37, 25, 37, 25, 11, 25, 37, 11, 11, 11, 37, 37, 11, 11, 37, 11, 25, 37, 25, 11, 25, 37, 37, 11, 25, 11, 37, 25, 11, 11, 11, 11, 25, 11, 11, 37, 25, 11, 37, 37, 37, 11, 11, 37, 37, 25, 37, 37, 11, 11, 11, 37, 11, 37, 11, 25, 37, 11, 11, 37, 25, 37, 11, 11, 37, 11, 11, 37, 25, 37, 11, 37, 11, 37, 11, 11, 11, 11, 11, 11, 37, 37, 25, 11, 37, 11, 25, 11])      [('LC', 'N')]

(Pdb) read.query_alignment_start
0
(Pdb) read.query_alignment_end
151