Table 4.
Fraction of reads mapped to known exons for HISAT2 and STAR.
| HISAT2 | STAR | |||
|---|---|---|---|---|
| Col-0 | N14 | Col-0 | N14 | |
| Assigned to exon | 94.34 | 90.70 | 93.05 | 90.72 |
| Unmapped | 1.10 | 5.16 | 0.50 | 1.99 |
| Multimapped | 4.01 | 3.61 | 5.93 | 6.77 |
| No Feature (intergenic) | 0.55 | 0.53 | 0.51 | 0.53 |
To test accuracy of HISAT2 and STAR, reads of the 36 biological samples were mapped against the reference genome without including an annotation. More than 90% of reads were mapped for both accessions and mappers to known exons while a small fraction was either unmapped, multimapped or mapped to intergenic positions.