MEGAN has more "reads" than in original file

User Questions
1

I am using MEGAN 6 to assign taxonomy to transcripts. I am using diamond blastx to get blast hits for each cds (about 5 million). After daa-meganizer and looking at the data in MEGAN 6, it shows 200 million summed “reads” under cellular organisms.

What could cause this issue?
diamond blastx --threads 32 -d NR.dmnd -q FILE.fasta -o FILE.daa -f 100 -F 15 --range-culling --top 10
daa-meganizer -i FILE.daa -mdb megan-map-Feb2022.db -t 32 -lg

The options are for long reads but they don’t seem like they should be causing this issue.

Thanks!

2

Since you’re utilizing long read parameters, the sum should represent the total number of aligned bases.