What is "*" in the ALT field of my VCF file
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15 months ago

I get the following line in my vcf file generated with GATK:

YALI0A  9035  .    C   A,*   67408.50  PASS  AC=11,2;AF=0.196,0.036;AN=56 GT:AD:DP:GQ:PL 2:0,0,233:233:99:9791,9791,0  1:30,70,0:100:99:2565,0,2715

Does anyone know what the "*" means in the ALT field?

vcf GATK • 710 views
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3
Entering edit mode
15 months ago

https://gatk.broadinstitute.org/hc/en-us/articles/360035531912-Spanning-or-overlapping-deletions-allele-

We use the term spanning deletion or overlapping deletion to refer to a deletion that spans a position of interest.

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