Figure 11
From: GenomeGems: evaluation of genetic variability from deep sequencing data
When the user chooses one of the SNPs appearing in the UCSC visualization interface, a new window opens containing (A) the position of the SNP, in addition to band, genomic size and strand, (B) the frequency and quality score for each allele, and (C) the properties of the changed and original amino acids: polarity, acidity and hydropathy. Notice the alleles are relative to forward strand of reference genome, and the coding sequence changes are relative to the strand of transcript.