Retrieve query start and end positions on reverse strand with Pysam

Question

[María José]

I'm using the pysam library to work with BAM files and extract the alignment positions of my target sequence. I've implemented a conditional logic to handle reverse strand alignments, but I'm not getting the expected results.

for read in bamfile.fetch():
    print("ref_name:", read.reference_name)
    print("ref_start:", read.reference_start)
    print("ref_end:", read.reference_end)
    if read.is_reverse:
        query_start = len(read.seq) - read.query_alignment_end
        query_end = len(read.seq) - read.query_alignment_start
    else:
        query_start = read.query_alignment_start
        query_end = read.query_alignment_end
    print("query_start:", query_start)
    print("query_end:", query_end)
Reference Name: ref
Reference Start: 0
Reference End: 70
Query Start: 0
Query End: 70
Reference Name: ref
Reference Start: 70
Reference End: 101
Query Start: 0 x -> 70
Query End: 31 x -> 101

[Mark]

but I'm not getting the expected results.

What results are you expecting?