. 2021 Jul 17;22(14):7668. doi: 10.3390/ijms22147668

Table 4.

Quality control results obtained with QUAST for the assemblies using different strategies.

Strategy	Platform	Polishing/Hybrid Method	Genome Fraction	Genomic Features	Aligned Length	NGA50	Misassemblies	Mismatches	Contigs	Largest Contig	N50	GC (%)	Predicted rRNA
Independent	Illumina	N/A	87.07	3741 + 224 part	1,981,064	23,234	51	30,355	527	157,573	40,498	39.87	2 + 0 part
	PacBio	N/A	89.583	3862 + 205 part	2,377,501	43,084	200	36,379	25	2,391,556	2,391,556	40.1	11 + 0 part
	ONT	N/A	89.458	3862 + 204 part	2,084,692	43,068	158	31,999	1	2,360,091	2,360,091	40.02	8 + 0 part
Hybrid	Illumina + ONT	SPAdes	89.276	3855 + 205 part	2,071,505	35,530	163	31,833	262	1,953,224	1,953,224	40.01	8 + 0 part
	Illumina + ONT + PacBio	SPAdes	89.426	3866 + 201 part	2,076,717	35,559	167	31,943	236	2,351,543	2,351,543	40.02	8 + 0 part
	Illumina + ONT	Unicycler	89.553	3862 + 206 part	2,076,870	37,563	159	31,797	1	2,349,186	2,349,186	40.03	8 + 0 part
	Illumina + PacBio	Unicycler	89.61	3864 + 204 part	2,077,902	37,563	157	31,811	1	2,349,340	2,349,340	40.03	8 + 0 part
	Illumina + ONT	MaSuRCA	89.584	3860 + 204 part	2,089,749	37,227	157	31,883	1	2,365,339	2,365,339	40.02	8 + 0 part
	Illumina + PacBio	MaSuRCA	87.089	3742 + 215 part	2,094,785	35,418	169	32,512	4	1,345,876	1,345,876	40.04	7 + 0 part
Polished	PacBio	Pilon	89.578	3862 + 204 part	2,077,525	43,084	156	31,830	1	2,349,014	2,349,014	40.03	8 + 0 part
	ONT	Medaka	89.524	3860 + 204 part	2,087,009	43,079	157	32,033	1	2,361,313	2,361,313	40.03	8 + 0 part
	ONT	Medaka+Homopolish	89.61	3864 + 204 part	2,087,858	43,086	158	32,085	1	2,361,359	2,361,359	40.04	8 + 0 part
	ONT	Pilon	89.598	3864 + 204 part	2,087,224	43,084	157	32,130	1	2,361,312	2,361,312	40.04	8 + 0 part
	ONT	Medaka + Pilon	89.524	3860 + 204 part	2,087,133	43,084	156	32,045	1	2,361,444	2,361,444	40.04	8 + 0 part

Note: The complete H. parasuis SH0165 genome sequence was selected as the reference genome, with a GC content of 39.99%, 4507 genomic features, and a total of 2,269,156 bp. Cell colors go from red to blue to indicate how metrics are ranked from worst to best.