parse genome sequences...
	imported: 1
	filtered & revised: 1
	plasmids: 1

start annotation...
predict tRNAs...
	found: 0
predict tmRNAs...
	found: 0
predict rRNAs...
	found: 0
predict ncRNAs...
	found: 0
predict ncRNA regions...
	found: 0
predict CRISPR arrays...
	found: 0
predict & annotate CDSs...
	predicted: 3 
	discarded spurious: 0
	revised translational exceptions: 0
	detected IPSs: 0
	found PSCs: 0
	found PSCCs: 0
	lookup annotations...
	conduct expert systems...
		amrfinder: 0
		protein sequences: 0
	combine annotations and mark hypotheticals...
	analyze hypothetical proteins: 3
	detected Pfam hits: 0 
	calculated proteins statistics
	revise special cases...
extract sORF...
	potential: 52
	discarded due to overlaps: 36
	discarded spurious: 0
	detected IPSs: 0
	found PSCs: 0
	lookup annotations...
	filter and combine annotations...
	filtered sORFs: 0
detect gaps...
	found: 0
detect oriCs/oriVs...
	found: 0
detect oriTs...
	found: 0
apply feature overlap filters...
select features and create locus tags...
selected: 3

genome statistics:
	Genome size: 3,306 bp
	Contigs/replicons: 1
	GC: 43.4 %
	N50: 3,306
	N ratio: 0.0 %
	coding density: 65.2 %

annotation summary:
	tRNAs: 0
	tmRNAs: 0
	rRNAs: 0
	ncRNAs: 0
	ncRNA regions: 0
	CRISPR arrays: 0
	CDSs: 3
	  hypotheticals: 3
	  signal peptides: 0
	sORFs: 0
	gaps: 0
	oriCs/oriVs: 0
	oriTs: 0

export annotation results to: /home/pierre/Seafile/ABROMICS/galaxy-tools/tools/bakta/test-data/TEST_1
	human readable TSV...
	GFF3...
	INSDC GenBank & EMBL...
	genome sequences...
	feature nucleotide sequences...
	translated CDS sequences...
	hypothetical TSV...
	translated hypothetical CDS sequences...
	machine readable JSON...
	genome and annotation summary...

If you use these results please cite Bakta: https://doi.org/10.1099/mgen.0.000685
Annotation successfully finished in 0:00 [mm:ss].