Concatenate sanger sequences to reference databases
This request is not related to changes in codes, but rather addition of sequences to the most recent reference databases used for sequence assignment during the FROGS step. I have files containing Sanger sequences from animals collected from the same sites as the environmental samples. The plan was to place these sequences within the larger database(s), so that they may be present for the taxonomic assignment step.
There are three FASTA files for three gene fragments:
COI: 94 sequences COI_313bp_94seqs.fasta
18Sv1(v2): 95 sequences 18S_V1V2_350bp_95seqs.fasta
18Sv9: 132 sequences 18S_V9_130bp_132seqs.fasta
I would like to use the reference databases listed in the config.sh file. Is it then possible to add sanger sequences to the following databases under a new name? After which, I can call these databases in my copy of the config.sh file:
COI: COI_genbank_2017-12-19-modif/COI-Genbank_CoreNucleotide_2017-12-19.fasta 18Sv1: 18S_silva132/silva_132_18S.fasta 18v9: mix_18S16S_silva132/mix_18S16S_silva132.fasta
Thank you in advance.