Table 1 Pangenome profile in 1,324 E. coli identified based on CD-HIT and ProteinOrtho. The Jaccard index measures the similarity between the two methods. The softcore genome is defined as the set of clusters of homologous genes, which exist in at least 95% of the genomes
Methods | PanGenome | Core Genome | Softcore Genome | Singletons |
|---|---|---|---|---|
CD-HIT | 25,420 | 425 | 3057 | 5654 |
ProteinOrtho | 24,889 | 427 | 3056 | 5568 |
Jaccard Index | 87.97% | 95.41% | 95.49% | 93.28% |