Table 2.
Statistics of the tea plant genome assembly and improved annotation.
| Assembly | |
| Estimated genome size (Gb) | 3.08 |
| Number of scaffolds | 14,051 |
| Total length of scaffolds (bp) | 3,141,536,798 |
| N50 of scaffolds (bp) | 1,397,810 |
| N90 of scaffolds (bp) | 358,724 |
| Longest scaffold (bp) | 7,310,916 |
| Number of contigs | 94,321 |
| Total length of contigs (bp) | 2,893,782,109 |
| N50 of contigs (bp) | 67,068 |
| N90 of contigs (bp) | 14,057 |
| Longest contig (bp) | 538,748 |
| Gap sequence (bp) | 247,754,689 |
| Predicted coverage of the assembled sequences (%) | 95.07 |
| GC content of the genome (%) | 37.84 |
| Annotation | |
| Number of predicted protein-coding genes | 53,512 |
| Average gene length (bp) | 3,747 |
| Mean exon length (bp) | 284 |
| Average exon per gene | 4.5 |
| Mean intron length (bp) | 712 |
| Annotated to Swissport | 34,694 (64.83%) |
| Annotated to PFAM | 39,889 (74.54%) |
| Annotated to TAIR (version 10) | 38,952 (72.79%) |
| Annotated to GO | 21,961 (41.04%) |
| Annotated to KOG | 14,587 (27.26%) |
| tRNAs | 597 |
| rRNAs | 2,838 |
| snRNAs | 416 |
| miRNAs | 355 |
| Masked repeat sequence length (bp) | 1,861,774,995 |
| Percentage of repeat sequences (%) | 64.42 |
The statistics of genome assembly are based on sequence lengths that are larger than 1 kb. The protein-coding genes were re-predicted based on the improved ab intio training models and manual filtering. Putative functions of the re-annotated tea plant genes were predicted by aligning them against Swiss-Prot, InterPro, KEGG and GO databases. The statistics of genome assembly, noncoding RNAs and repeat contents were summarized from our previous work6.