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Unparsable vcf record with allele *
I have recently jointly called 27 full genome data using GenotypeGVCFs approach. While i was trying to extract some chromosomes from the final file, i got this error
The provided VCF file is malformed at approximately line number 16076: Unparsable vcf record with allele *.
I look into the file and I found some of the multi-allellic sites having * as seen in the attached picture.
I feel the problem could be that the program realised that more than one allele is present at that position but could not ascertain which allele. I may be wrong but please what do you think I can do to solve this problem.