Amino acid sequences can be defined by a percentage of identity. This percentage indicates the number of identical residues between proteins or nucleic acids of a given alignment.
- In this case, 240 aminoacids is the total length of the protein alignment (i.e. the alignment between FP1 and FP2 proteins)
- In consequence, in this case, the percentage of identity is 99.58% because dissimilarity is equal to 1/240= 0.0041667%, thereby percentage of identity is equal to 100 - 0.0041667 = 0.995833%.
- Nucleic acid (either DNA or RNA) sequences and amino acid sequences can be defined by the percentage of identity.
- The percentage of identity can be used to discover proteins or protein regions (i.e., domains, linear motifs, etc) which exhibit homology, i.e., proteins/protein regions that are similar due to a common evolutionary origin.
In conclusion, the percentage of identity is determined by the number of identical nucleotides (DNA and RNA) or amino acid residues (proteins) over the total of nucleotides/amino acids in the local alignment.
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