Table 3.
Long-read NGS analysis of encapsidated DNA
| Target aligned against | Filter step | Bac-RepCap | SGMO Helper | Bac-RepCap | SGMO Helper |
|---|---|---|---|---|---|
| Vector genome | 0 | 97.65 | 98.90 | 97.66 | 97.16 |
| Rep/Cap | 1 | 0.66 | 0.00 | 0.60 | 0.00 |
| Bacmid | 2 | 1.49 | 0.64 | 1.39 | 2.03 |
| Sf9 genome | 3 | 0.04 | 0.04 | 0.05 | 0.10 |
| Total mapped reads: | 99.84 | 99.58 | 99.70 | 99.29 | |
| Percentage of mapped reads that are vector genome: | 97.81 | 99.32 | 97.95 | 97.85 | |
| Percentage of unmapped reads: | 0.16 | 0.42 | 0.30 | 0.71 | |
Capsid-associated DNA was sequenced and mapped back to the vector genome, Rep/Cap, bacmid, or Sf9 genome. Values are presented as percentage of total sequences that mapped to a particular target. Percentage of unmapped reads are reported. Unmapped reads were used to BLAST search against the NCBI genome collection and greater than 75% of unmapped reads mapped to the Shigella sp. PAMC 28750, a Shigella isolate from Antarctic lichens.