The tree is created using UPGMA and distances shown are computed based on pairwise allelic differences (hamming distance). Missing genes are not included in the count.
Holmes A, Dallman TJ, Shabaan S, Hanson M, Allison L.
The 1928D Escherichia coli cgMLST schema is created from 622 reference genomes giving the scheme 2500 core genes. All genes included in the schema are present in at least 95% of reference genomes.