A De Novo Genome Assembly Algorithm for Repeats and Nonrepeats

Table 6

The results of SWA in reference genome datasets.

Species	Repeat			Contigs (kb)		Accuracy (%)			Genome coverage (%)
	TRC	CNRC	NNC	N50	Max	CN-accuracy	Rep-accuracy	C-accuracy
chrIV-S.c	32	Appendix	315	9.4	32.7	88	93	100	100
E. coli	50	Appendix	259	46.5	190.5	88	99.8	100	99.7
chrIII-C.e	198	Appendix	5471	4.6	26.7	89	92	100	97.7

Contigs of repeat and nonrepeat are generated in an independent way by SWA with basic parameters: sequencing depth 𝑆_𝑑=2, read length 𝐿_𝑟=60, filtered times = 1, and sliding window = 3. Contigs smaller than 200 are removed.