Table 2.
Quality control of the clean data
| Sample | Raw of Number | Clean read% | Remove Adapter % | Ns Reads Rate % | Low quality % | Clean Q30 Bases Rate (%) | Mapping Rate % | Exon % | Intron % | Intergenic % |
|---|---|---|---|---|---|---|---|---|---|---|
| CK11 | 45,723,590 | 99.27 | 0.7 | 0.02 | 0 | 92.87 | 83 | 81.2 | 9.01 | 9.8 |
| CK12 | 45,297,964 | 98.82 | 1.16 | 0.02 | 0 | 92.77 | 80 | 81.51 | 8.38 | 10.12 |
| CK13 | 46,636,712 | 99.25 | 0.73 | 0.02 | 0 | 92.37 | 86 | 82.23 | 8.46 | 9.31 |
| CK21 | 44,993,708 | 99.14 | 0.84 | 0.02 | 0 | 92.39 | 85 | 81.04 | 9.16 | 9.81 |
| CK22 | 44,432,270 | 99.28 | 0.7 | 8.55E–05 | 0.02 | 91.63 | 84 | 80.06 | 10.15 | 9.79 |
| CK23 | 45,263,166 | 99.06 | 0.91 | 0.02 | 0 | 92.17 | 82 | 81.5 | 9.04 | 9.46 |
| T11 | 45,225,288 | 99.07 | 0.91 | 0.02 | 0 | 92.41 | 82 | 81.03 | 9.22 | 9.75 |
| T12 | 47,694,260 | 98.96 | 1.02 | 0.02 | 0 | 92.13 | 86 | 82.08 | 8.45 | 9.47 |
| T13 | 47,760,684 | 99.29 | 0.68 | 0 | 0.03 | 89.68 | 81 | 79.47 | 10.21 | 10.33 |
| T21 | 45,251,876 | 99.11 | 0.87 | 0.02 | 0 | 92.46 | 76 | 81.01 | 9.35 | 9.64 |
| T22 | 47,477,702 | 98.99 | 0.98 | 0.02 | 0 | 92.32 | 83 | 81 | 9.15 | 9.85 |
| T23 | 45,849,530 | 99.21 | 0.77 | 0.02 | 0 | 92.38 | 80 | 81.66 | 8.86 | 9.48 |
The Ns reads rate indicates that N is too high; the number of sequences that have been removed accounts for the proportion of the original sequence number
Intergenic: new transcripts, expression noise, etc., result in sequences derived from intergenic regions
CK1 control groups without GA treatment in the anthesis stage
CK2 control groups without GA treatment in the hard nucleus stage
T1 GA treatment groups in the anthesis stage
T2 GA treatment groups in the hard-nucleus stage