Table 2. Read number and L2/D4 ratio of cDNA-encoding domains and peptides with a role in light absorption and response.
| Name | Locus tag | Size (aa) |
Read number |
L2/D4 ratio | q-Value | ||
|---|---|---|---|---|---|---|---|
| D2 | L2 | D4 | |||||
| Bacterial cryptochrome, DASH family | MED134_10201 | 432 | 9 | 29 | 5 | 3.45 | 0.0341 |
| DNA photolyase/cryptochrome, (6-4) photolyase family | MED134_10206 | 511 | 5 | 22 | 2 | 6.54 | 0.0149 |
| DNA photolyase/cryptochrome, (6-4) photolyase family | MED134_10211 | 494 | 3 | 24 | 3 | 4.75 | 0.0244 |
| DNA photolyase/cryptochrome, class I photolyase | MED134_14266 | 436 | 37 | 38 | 12 | 1.88 | 0.1700 |
| PAS domain | MED134_02435 | 1200 | 87 | 66 | 37 | 1.06 | 0.9091 |
| GAF domain | MED134_01075 | 151 | 53 | 56 | 37 | 0.90 | 0.8120 |
| Phytochrome region | MED134_02440 | 749 | 27 | 32 | 9 | 2.11 | 0.1574 |
| BLUF domain | MED134_02460 | 338 | 38 | 18 | 11 | 0.97 | 0.9371 |
| Multi-sensor hybrid His kinase | MED134_01400 | 741 | 109 | 116 | 37 | 1.86 | 0.0058 |
| Two-component system sensor His kinase | MED134_07876 | 182 | 11 | 12 | 12 | 0.59 | 0.4031 |
| Sensory transduction His kinase | MED134_10396 | 163 | 3 | 123 | 4 | 18.3 | <0.0001 |
| Sensory transduction His kinase | MED134_06794 | 657 | 48 | 54 | 31 | 1.04 | 0.9371 |
| Sensory transduction His kinase | MED134_07881 | 470 | 42 | 29 | 15 | 1.15 | 0.8630 |
Statistical significance between light and dark cultures was measured based on q-value (false-discovery rate method). The features with q-values ⩽0.05 (in bold) are considered significant (Storey and Tibshirani, 2003).