Table 2.
Flagstat and FastQC RNA-seq mapping statistics of Eucalyptus nitens reads to the v1.1 Eucalyptus grandis and Phytophthora cinnamomi var cinnamomi genomes.
| Sample name | Total reads mapped to E. grandis | Properly paired to E. grandis (%)a | Singletons mapped to E. grandis (%)b | % GC content | Expressed genes in host | Average FPKM in host | Total reads mapped to pathogen | % reads mapped to pathogen |
|---|---|---|---|---|---|---|---|---|
| Control 1 | 37444809 | 66.44 | 10.24 | 50 | 29024 | 493598 | 30756 | 0.08 |
| Control 2 | 36111678 | 68.02 | 10.16 | 50 | 29250 | 492972 | 29274 | 0.08 |
| Control 3 | 37060251 | 68.76 | 8.90 | 49 | 29135 | 467006 | 29116 | 0.08 |
| Inoculated 1 | 37234371 | 66.13 | 11.65 | 49 | 29429 | 471923 | 444935 | 1.19 |
| Inoculated 2 | 36622434 | 67.30 | 12.48 | 49 | 29407 | 497171 | 552202 | 1.51 |
| Inoculated 3 | 36022978 | 68.19 | 10.18 | 49 | 29576 | 473466 | 196534 | 0.55 |
a
Number of proper pairs in proportion to the total reads mapped.
b
Number reads where one from a pair in proportion to the total mapped.