Does Prokka or gff3 change the sequence / subject ID of fasta files?

Question

I used prokka to create a database for some fasta files but I noticed a strange difference between the prokka and fasta files. Normally the seqid for the gff3 output for prokka has seqid's that match the sequence id's of the fasta files. The files I just produced with prokka have a different seqid than my fasta files. My fasta files look like this

>NODE_108_length_645_cov_0.679537_ID_215

However the prokka output gff3 file for the same fasta file uses a seqid like this

gnl|X|JHIOGLGG_28

What would cause this difference? And do the last digits still correlate to the same seqid's even though the string before it has changed?

Answer 1

Prokka is an annotation tool. It takes your contigs file with fasta headers >NODE_108...and searchs for ORFs and their putative functions. Prokka produces submission ready output, the new fasta headers you see >JHIOGLGG_28...are locus tags and gene description from the annotation and are not related to contig node data. Please see the github information page for more info.