About SNP position about imgthla HOT 1 CLOSED

Thanks for your enquiry, the alignments and subsequent positioning of SNPs an indels will be dependant on the software used, the scoring matrix and the sequences aligned, in particular the inclusion of sequences which cause indels. It can therefore be difficult to replicate alignments particularly with such a variable system as HLA and the numbers of sequences required for each alignment. Sequence alignments are an artificial representation of how two sequences align and are there to allow human understanding of the difference and as such can be subjective and open to interpretation. MSF files are produced based on validated sequence alignments built using published software.

from imgthla.