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

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

Species Gap Reference sequence nanoGapFiller
#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
  1. Alignment method: refAligner