Query sequences missing in the per_query.tsv file

[miferg]

Hi I used epa-ng to place some read sequences to a referece tree and then used gappa examine assign with the --per-query-results flag to get the per_query.tsv taxonomic classification table. When checking the results, I found that some sequences are missing from the table but can be found in the jplace file produced by epa-ng. I would like to know if this is expected and/or what could be causing this. Thanks in advance. Miguel