extract_amplicon_from_primersearch_output

Extracts PCR amplicons from full-length nucleotide fasta sequences, using Emboss primersearch output. Reads in full-length fasta sequences and corresponding Emboss primersearch output for the sequences. Parses primersearch output for sequence id and description and uses primer locations to extract amplicon regions from full-length fasta sequences. If more than one amplimer is present in the primersearch output, sequence is extracted using the first amplimer. Prints extracted amplicon sequences to fasta file. Note: Fasta definition lines should follow the typical format: e.g. >KY925925 A/Santo Antonio da Patrulha/LACENRS-2621/2012 2012/08/10 7 (MP) Instead of: e.g. >A_/H1N1|A/WAKAYAMA/163/2016|MP||_970779