STR project alignment settings
In addition to the default sequence alignment project settings, a specific alignment setting, Read length over reference length, is required for STR analysis. This setting ensures that the read covers an entire repeat region.
Setting | Description |
|---|
Read length over reference length > [80%] | Selected by default. The read must cover at least the indicated percentage of the segment to which it is aligned, or it is not assigned to an allele. |
Variants that do not pass the Mutation Filter thresholds are assumed to be sequencing errors and they are ignored when assigning reads to alleles. See
Mutation Filter settings.