Hi: I want to download the complete genome of the A. Fumigatus. I got the complete genomes list from ncbi available at: ftp://ftp.ncbi.nih.gov/genomes/Fungi/Aspergillus_fumigatus_uid14003/. The question is in which of all those files is the complete genome of this fungi?
Moving up a level in that directory you will find this README
This directory includes RefSeq data from fungal genomes if any one of the genome records were designated as NC_ (Complete genomic molecules) or NT_ (Intermediate genomic assemblies) or annotated by multi-genome Gnomon.
Directories of each taxon contain the following file formats:
.asn - nucleotide record in asn.1 format
.faa - protein sequences in fasta format
.ffn - nucleotide sequences of CDS features in fasta format
.fna - total nucleotide sequence in fasta format
.frn - nucleotide sequences of structural RNAs in fasta format
.gbk - full Genbank flat file format
.gff - feature annotation in GFF3 format
.ptt - protein table
.rnt - structural RNA table
.rpt - report file
.val - binary file
You can download all the staff directly by typing "wget -r ftp://ftp.ncbi.nih.gov/genomes/Fungi/Aspergillus_fumigatus_uid14003/".