Aligned and unaligned sequences use for phylogenetics analyses

The gene folder contains three type of files : 1) The *.fst files are unaligned nucleotides sequences 2) The *.mafft.fst are aligned amino-acid sequences 3) The *_base.fst are aligned nucleotides sequences corvusBrachyrhynchos, parusCaeruleus, manacusVitellinus, ficedulaHypoleuca sequences were obtained from brain transcriptome sequencing (see Nabholz B, Jarvis ED, Ellegren H. 2010. Obtaining mtDNA genomes from next-generation transcriptome sequencing: a case study on the basal Passerida (Aves: Passeriformes) phylogeny. Mol. Phylogenet. Evol. 57:466–470)