31Oct21 Revised alignment files

· Used the MUSCLE software and BLAST alignment algorithm through the genome comparator plugin in BIGSdb: · https://zoo-dalmore.zoo.ox.ac.uk/bigsdb?db=staphylococcus_sheppard_private&page=plugin&name=GenomeComparator&set_id=1&l=1 · Job id: BIGSdb_031361_9165552302_19465 · Variation parameters were set within the population genomic sample to a minimum nucleotide identity of 70% for gene presence, a minimum difference alignment length of 50% for each gene and a BLAST word size of 20.