Table 4.
Summary of bona fide † and orphan* transfrags integrity and validity
| Assembly | № of bona fide UTF | № of chimeras in unmapped transfrags ζ | Alignment of TF to reference genes (CDS) | Alignment of TF to reference genome | ||||
|---|---|---|---|---|---|---|---|---|
| № of TF Cov 50%, ID 50% | № of reference unigenes | № of TF Cov 90%, ID 90% | № of reference unigenes | № of TF uniquely mapped | № of N. crassa genes identified by TF | |||
| Trinity† | 14806 | 282 | 9879 | 6263 | 2593 | 1609 | 13339 | 7915 |
| Oases-25† | 13834 | 469 | 8653 | 5699 | 1086 | 784 | 11679 | 7345 |
| Oases-M† | 37681 | 3293 | 22080 | 5991 | 2751 | 1009 | 27931 | 7787 |
| Oases-P† | 50445 | 3417 | 30278 | 6179 | 4115 | 1249 | 39693 | 7906 |
| Trinity* | 20772 | 49 | 5016 | 1887 | 4063 | 1543 | 18553 | 3875 |
| Oases-25* | 5359 | 22 | 1292 | 844 | 1008 | 679 | 4918 | 1287 |
| Oases-M* | 7453 | 268 | 1512 | 916 | 976 | 653 | 6148 | 1483 |
| Oases-P* | 10848 | 247 | 2355 | 1234 | 1458 | 882 | 9203 | 1919 |
†Bona fide: transfrags with coding potential and predicted CDS.
*Orphan: transfrags with no coding potential or with coding potential but no predicted CDS.
ζ Possible chimera with a distinct breakpoint.