Single molecule sequencing and genome assembly of a clinical specimen of Loa loa,the causative agent of loiasis

BMC Genomics

Table 1 Assembly statistics for scaffolds

Assembler	Sequencing data	No. scaffolds	Total length	No. scaffolds (≥1 kbp)	Total length (> = 1 kbp)	Largest scaffold	GC (%)	N50
Newbler	454	5,774	91.4	NR	NR	NR	31.0	172,000
CA	Illumina MiSeq	2,902	86,081,730	2,891	86,076,258	447,471	30.7	64,834
MaSurCA	Illumina MiSeq	27,116	96,961,118	16,611	90,177,928	129,528	30.8	10,831
CLCBio	Illumina MiSeq	72,775	104,010,594	12,719	78,215,812	115,234	29.3	7,816
CA	Illumina-corrected PacBio reads	4,436	94,016,717	4,436	94,016,717	901,957	31.0	61,260
CA	Illumina- and 454-corrected PacBio reads	4,222	100,293,095	4,222	100,293,095	905,793	30.8	89,633
HGAP2	PacBio reads	2,601	102,405,157	2,601	102,405,157	1,570,895	30.7	163,655
HGAP2 with trimming	PacBio reads	2,250	96,410,008	2,183	96,369,305	1,570,872	30.8	180,288

This table provides the statistics about the scaffolds generated by various combinations of assemblers and data sets. The statistics reported include the number of scaffolds, total length of sequence, number of scaffolds ≥ 1 kbp, the total length of scaffolds ≥ 1 kbp, the size of the largest scaffold, the percent GC, and the N50. The previously published values for the 454-based assembly (Genbank: ADBU02) is included for comparison; NR denotes that the value was not reported.

ISSN: 1471-2164