StarshipExtraAccessoryGenes.md

Identification of Interesting genes in other starship copies

1. BLAST fgenesh proteins against the 211 B71 predicted proteins

blastp -query fgenesh.pep -subject 211B71.pep -evalue 1e-5 -outfmt '6 qseqid sseqid qlen length' | awk '$4 > $3*0.8' . myMatchingProteins.pep

3. Identify proteins that show alignment across 80% of their lengths
4. Create a list of matching proteins
5. Create table of annoation data (protein ID, motifs and functions) for the proteins found in other starship copies
6. Use R to Filter the table to remove those proteins that shiwed alignment to the B71