Changes

===GENOTYPE field===

===GENOTYPE field===

   0/0: homozygous reference chosen based on in PL.

   0,9,108: PHRED scaled genotype likelihoods

 

   9: no. of reads covering this variant

   0/0     : homozygous reference chosen based on in PL.

   3,0,6: allele depth

   0,9,108 : PHRED scaled genotype likelihoods

          counts of reads supporting the reference allele, the alternative allele and neither.

   9       : no. of reads covering this variant

        The last category might be due to insufficient coverage of the read over the locus  

   3,0,6   : allele depth

        or simply a mis specified allele.

            counts of reads supporting the reference allele,  

   10 : genotype quality.

            the alternative allele and neither alleles respectively.

            The last category might be due to insufficient

            coverage of the read over the locus  

            or simply an allele that is not accounted for.

   10       : genotype quality.

= Analysis =

= Analysis =