Table 1.

The optimization rules of virus mutation recognized by tmVar

Result type	Rule patterns	Examples
False positive	Include ‘\d{1,}\D{1,}\d{1,}|[/,]’ & no lowercase letters and not end with an ‘S’	A1762T/G1764T (A1762T/Ga)
	End with an ‘S’ & include ‘STOP|stop|Stop|St’	Q118R/Stop (Q118R/Sa)
	Include the three characters of 20 amino acids	Pro130Ile/Thr/Ser (Pro130Ile/Ta)
True positive	Include abbreviation of virus gene	rtM204V (M204Vb)
	Natural language include ‘to|with|by|[-]|for|ins|del|Non|Delta|of|at’	A mutation from T to G at nucleotide 178 (T178Gb)
	Include ‘>’ and not include lowercase ‘l|u|s|p|r|y|h|i|n|e|o|m|v’	8403A>G (A8403Gb)
	Begin with mutation levels (c.|g.|p.)	p.Lys316Glu (K316Eb)
	Special written form of HPV mutant and include ‘A|C|E|G|T’	E-C109G (C109Gb)

^aThe identification errors. For example, A1762T/G1764T are identified A1762T/G; This will be mistaken for A1762T and A1762G in the final identification results.

^bThe normalized mutation written forms.