Table 5. Determination of recombinant frequencies in PCR with 35 distinct templates by next generation sequencing.

Number of cycles	Copy of templates	Total raw reads	Merged reads	Filtered sequences	Number of sequences aligned to reference	Recombinant sequences
						Number	Percentage
30	3.5×105	291,206	288,721	200,665	188,891	24,833	13%
	3.5×106	406,988	403,870	277,553	262,456	40,078	15%
35	3.5×104	205,152	203,512	117,362	110,412	13,812	13%
	3.5×105	383,225	380,152	245,514	232,128	39,066	17%
	3.5×106	349,839	347,025	226,771	214,915	75,407	35%
40	3.5×104	257,073	254,828	166,013	154,172	24,496	16%
	3.5×105	353,325	350,222	228,543	214,317	52,324	24%
	3.5×106	300,406	298,262	204,089	192,880	85,584	44%
45	3.5×104	310,392	307,886	203,912	191,644	44,856	23%
	3.5×105	381,909	378,724	245,945	231,893	107,881	47%
	3.5×106	343,394	340,447	194,522	184,538	112,661	61%