Table 7. Transcriptome assembly statistics.
Shown are the number of genes assembled from the RNA-seq reads for each of the 12 files, and the total number in the merged assembly with and without using the reference annotation. The total number of transcripts after merging with annotation (bottom row) includes only those transcripts that had non-zero expression levels. Also shown are the number of assembled genes and transcripts that are novel; i.e., that do not match any annotated genes.
| Sample ID | Number of assembled genes |
Novel genes | Transcripts matching annotation |
Novel transcripts |
|---|---|---|---|---|
| ERR188044 | 808 | 288 | 675 | 615 |
| ERR188104 | 793 | 294 | 651 | 630 |
| ERR188234 | 838 | 322 | 656 | 659 |
| ERR188245 | 677 | 196 | 579 | 470 |
| ERR188257 | 706 | 228 | 614 | 504 |
| ERR188273 | 631 | 177 | 536 | 406 |
| ERR188337 | 852 | 343 | 668 | 660 |
| ERR188383 | 707 | 225 | 608 | 497 |
| ERR188401 | 794 | 287 | 653 | 624 |
| ERR188428 | 631 | 173 | 588 | 414 |
| ERR188454 | 745 | 241 | 622 | 547 |
| ERR204916 | 761 | 265 | 643 | 564 |
| Merged without annotation | 908 | 382 | 661 | 1225 |
| Merged with annotation | 1258 | 414 | 1408 | 1257 |