Now that you have finished Part B, step 2, you will use SeqMan Pro to create a custom database from variants in the Variant Report. This custom database can be used for subsequent assemblies with the same reference sequence, and can be updated at any time to reflect new discoveries.
If you use DNASTAR’s ArrayStar software, you can easily import the custom database during data import and view it side-by-side with other data in the Variants Table.
To create a custom variant database:
- Being careful not to close the entire SeqMan Pro project, close both the Strategy View and the Alignment View using the ‘x’ or button in the top corner of each view.
- In the Variant Report, confirm the variant that you just investigated by clicking on the leftmost column to change the question mark to a checkmark. (If you had found supporting evidence was lacking, you could have clicked a second time to reject the variant and add an ‘x’.)
- Using the method in Part B, step 2, confirm and add checkmarks to the next three variants.
- To create a new database containing the four variants, select Variant > Append Checked Variants to VCF. The table of VCF Reference Variants appears.
You can add more variants to this database at any time from within SeqMan Pro.
- Close the VCF Reference Variant table.
Proceed to 4. Discovering structural variations.
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