Table 1 Runtime of Read-SpaM and Mash (in seconds) to estimate the distance between two strains of E. coli, by comparing an assembled genome to unassembled reads and by comparing unassembled reads from both strains to each other, for varying levels of sequencing coverage
Coverage | Genome vs. Read | Read vs. Read | ||
|---|---|---|---|---|
Multi-SpaM | Mash | Multi-SpaM | Mash | |
1X | 3.40 | 0.35 | 2.84 | 0.35 |
2−1X | 2.43 | 0.27 | 1.55 | 0.19 |
2−2X | 2.02 | 0.24 | 1.16 | 0.11 |
2−3X | 1.86 | 0.22 | 1.00 | 0.06 |
2−4X | 1.74 | 0.19 | 0.93 | 0.04 |
2−5X | 1.76 | 0.20 | 0.89 | 0.02 |
2−6X | 1.64 | 0.20 | 0.87 | 0.01 |
2−7X | 1.64 | 0.22 | 0.86 | 0.01 |
2−8X | 1.66 | 0.19 | 0.87 | 0.00 |
2−9X | 1.63 | 0.19 | 0.85 | 0.02 |