File Name					File Description

Contigs			Oncorhynchus_mykiss_contigNotScaffolded.fa.gz	Assembled contigs that were not localized in scaffolds

Scaffolds

			Oncorhynchus_mykiss_scaffolds.fa.gz		Scaffold sequences
			Oncorhynchus_mykiss_scaffold_annot.gff.gz	Scaffold locations of predicted genes


Chromosomes

			Oncorhynchus_mykiss_chr.agp			Scaffold locations on chromosomes
			Oncorhynchus_mykiss_chr.fa.gz			Chromosomes sequences
			Oncorhynchus_mykiss_chr_annot.gff.gz		Chromosome locations of predicted genes


Coding sequences

			Oncorhynchus_mykiss_mrna.fa.gz			mRNA sequences (CDS + UTRs) of predicted genes
			Oncorhynchus_mykiss_cds.fa.gz			Coding sequences of predicted genes
			Oncorhynchus_mykiss_pep.fa.gz			Proteic sequences of predicted genes
			Oncorhynchus_mykiss_iprscan.xml.gz		Proteic domains detected by InterProScan (run May 2012)


Others

			Om_Repeats_lib.fa.gz				Sequences of O. mykiss TEs library 





More methodological information at http://www.nature.com/ncomms/2014/140422/ncomms4657/full/ncomms4657.html