Table 1.
Overview of raw sequence data obtained from the cultures C. trachomatis samples
| ID | Sample type | Genome copies in 1-2 ml DNA extract | Total inputC. trachomatisgenome copies | Total reads | Mapped reads | Reads mapping toC. trachomatis | Serovar/Genotype (ompA) |
|---|---|---|---|---|---|---|---|
| CT_10 | Culture | 2.3x109 | 362,346,600 | 3450960 | 3058284 | 88.62% | B |
| CT_11 | Culture | 3.5x108 | 2,098,188,000 | 3847486 | 3455294 | 89.81% | C |
| CT_12 | Culture | 8.1x109 | 683,544,000 | 5055724 | 4632017 | 91.62% | G |
| CT_13 | Culture | 1.1x109 | 1,070,106,000 | 3923244 | 3512706 | 89.54% | H |
| CT_14 | Culture | 1.8x109 | 8,421,480,000 | 4814146 | 4524936 | 93.99% | I |
| CT_15 | Culture | 1.4x1010 | 5,587,859,200 | 4572350 | 4242802 | 92.79% | J |
| CT_16 | Culture | 1.4x1010 | 1,563,216,000 | 7734134 | 7240982 | 93.62% | L1 |
| CT_17 | Culture | 2.6x109 | 1224,048,000 | 6316494 | 5681915 | 89.95% | L2 |
All 8 samples were sequenced in a MiSeq run. The total input refers to the number of C. trachomatis genome copies used as input in the library preparation. The genotyping (ompA) was performed in the clinical laboratory.