Table 1.
Transrate and Trinity Statistics of the original, decontaminated and final transcriptome assembly of liver transcriptome of S. colias.
| Trimming & Assembly | Liver tissue | ||
|---|---|---|---|
| Raw sequencing reads | 121,656,039 | ||
| Reads used in assembly | 111,124,228 | ||
| Percentage of reads submitted to assembly | 91.34% | ||
| Assembly Versions | Original transcriptome assembly | Decontaminated transcriptome assembly | Final transcriptome assembly |
| Number of “genes” | 72,618 | 54,876 | 35,386 |
| Number of transcripts | 114,174 | 93,731 | 44,345 |
| n50 transcript length (bp) | 1299 | 1462 | 1288 |
| Median transcript length (bp) | 544 | 593 | 593 |
| Mean transcript length (bp) | 899 | 975 | 912 |
| Smallest Contig | 301 | 301 | 301 |
| Largest Contig | 14,405 | 14,405 | 13,899 |
| Number of Contigs over 1k nn | 30,346 | 28,819 | 12,962 |
| Number of Contigs over 10k nn | 28 | 26 | 3 |
| GC % | 45.33 | 45.32 | 46.64 |
| Total Assembled bases | 102,639,256 | 91,425,968 | 40,443,374 |
| RMBT % | – | – | 81.37% |