clodip2.scaffolds.fa.gz  -> contains the assembly scaffolds in fasta format
Cdip2A.FA.gff3.gz -> gff3 file with the protein coding annotation 
Cdip2A.pep.fa.gz -> fasta file with the aminoacid sequence of each annotated protein
Cdip2A.cds.fa.gz -> fasta file with the nucleotide sequence corresponding to the coding part of each annotated protein
Cdip2A.transcripts.fa.gz -> fasta file with the nucleotide sequence of each coding transcript.
Cdip2A.longestpeptide.fa.gz -> fasta file with the aminoacid sequence of the longest protein isoform of each protein coding gene.
Cdip2ncA.gff3.gz -> gff3 file with the noncoding RNA annotation
Cdip2ncA.transcripts.fa.gz -> fasta file with the nucleotide sequence of the noncoding transcripts.
Repeats.gff3.gz --> gff3 file with the Repeat annotation
Clodip2_genome_annotation_report.pdf --> Report on the genome annotation process
b2g_project.pdf --> Report produced by Blast2go about the functional annotation