TABLE 1.
Summary of sequencing run characteristics and cumulative analysis results from the five participating laboratories
| Laboratory designation | Sequencing run characteristics |
Sequencing analysis results |
|||||
|---|---|---|---|---|---|---|---|
| Cluster density (K/mm2) | Run output (Gb) | % reads >Q30 | Mean read length (bp)a | Mean fold coverage (SDb, range)c | Mean N50 | Mean % called cgMLST targets (SD, range) | |
| C1 | 935 | 8.6 | 89.9 | 225 | 129 (27, 43–170) | 56,620 | 97.5 (5.7, 73.3–99.6) |
| C2 | 715 | 6.7 | 92.2 | 237 | 106 (17, 76–144) | 153,228 | 99.2 (0.4, 98.0–99.8) |
| C3 | 1,297 | 10.6 | 87.7 | 238 | 169 (54, 29–256) | 253,745 | 98.9 (2.2, 89.7–100) |
| C4 | 878 | 8.2 | 88.4 | 221 | 123 (16, 98–164) | 101,873 | 99.2 (0.4, 98.5–99.9) |
| C5 | 1,247 | 10.8 | 78.1 | 180 | 129 (24, 86–187) | 225,594 | 99.3 (0.3, 98.7–100) |
| Total mean | 1,014 | 9.0 | 87.3 | 220 | 131 (27, 66–184) | 158,212 | 98.8 (1.8, 91.6–99.9) |
a
Read lengths after Illumina base calling and adapter removal.
b
SD, standard deviation.
c
Coverage is calculated for an S. aureus genome size of 2.8 Mb.