Filling gaps of genome scaffolds via probabilistic searching optical maps against assembly graph

BMC Bioinformatics

Table 3 Filling the gaps identified using real optical maps of E. coli, S. coelicolor, and P. putida genomes

Species	Gap	Reference sequence		nanoGapFiller
Species	Gap	#contigs	#bases	#contigs	CPS	NSS (%)
E. coli	252196–252226	17	51,810	20	17	99.66
E. coli	252486r–252526r	35	105,652	38	27	99.79
E. coli	252510r–252292r	93	600,523	107	86	99.84
E. coli	252312r–252486r	108	184,041	65	31	87.54
S. coelicolor	781738–781976r	9	88,470	9	9	100
S. coelicolor	781976r–781848r	18	66,018	18	18	100
P. putida	443944r–443818	95	875,288	96	83	99.88

ISSN: 1471-2105