Mapping Illumina Exome Chip Indels To Reference

Question

[TJSingh]

Hello all, I am currently working with the Illumina HumanExome chip 12v1, and the indels on the chip do not appear to have proper alleles. The variants are generally coded I and D. Does anyone know of a straightforward way of determining the precise alleles of the indels, similar to that of a VCF format?

http://supportres.illumina.com/documents/myillumina/6ce9dc2c-b552-4a3e-a9c1-33649ed61373/humanexome-12v1_a_gene_annotation.txt Thanks!

T