It might clarify the SNP and SNV by reading this blog - "SNP vs. SNP"?

Quote:

SNP (single nucleotide polymorphism) vs. SNV (single nucleotide variant) As their name suggests, both are concerned with aberrations at a single nucleotide. However, a SNP is when an aberration is expected at the position for any member in the species – for example, a well characterized allele. A SNV on the other hand is when there is a variation at a position that hasn’t been well characterized – for example, when it is only seen in one individual. It is really all a question of frequency of occurrence.

Single-nucleotide and indel/delins changes between species are phylogenetic characters; they can be either informative or uninformative depending on the taxa being considered.

http://biomed.brown.edu/Courses/BIO48/26.Systematics.HTML