Performance comparison of second- and third-generation sequencers using a bacterial genome with two chromosomes

BMC Genomics

Table 1 Data statistics for sequence run and assemblies

Sequencer	GS Jr	Ion PGM	MiSeq	PacBio
Number of reads	115611	4982888	39656630	120230*
Total bp	48285593	1443005019	9953814130	374942687
Coverage	9	279	1927	73
Mean length	418	290	251	3119
Assembler	Newbler	Newbler	CLC	Sprai
Number of bp used for assembly	48285593	400000107	299809460	374942687
Number of reads used	115611	1380757	1194460	120230*
Coverage	9	77	58	73
Number of contigs	309	61	34	31
Total bases	5053921	5075085	5103771	5298335
Max length	164926	895358	732626	3288561
N50 contig length	30451	392606	431440	3288561

GS Jr, Ion PGM, and MiSeq data are based on a single run. PacBio data are from three cells. The upper part of the table shows read statistics and the lower part shows the statistics of the best assembly. *Number of reads of PacBio is the number of subreads longer than 500 bp.

ISSN: 1471-2164