The ability to map features exists in both MegAlign Pro and DNASTAR’s SeqNinja. Here are some reasons you might want to map features in one application versus the other:
| Task | Use MegAlign Pro | Use SeqNinja |
|---|---|---|
| View the alignment and the mapped features | x | |
| Configure alignment options | x | |
| Map features in an end-to-end alignment. For instance, to perform a Mauve alignment of end-to-end chromosomes with some rearrangement. | x | |
| Map VCF features from a .vcf file. | x | |
| Map features into a table, then edit the table before generating the resulting sequence or feature file | x |
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