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Table 1 Filling the gaps identified using simulated optical maps of E. coli genome

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

Gap Reference sequence OMACC nanoGapFiller
#contigs #bases #contigs #bases CPS NSS (%) #contigs #bases CPS NSS (%)
252228–252408r 4 11 4 11 4 100 4 11 4 100
252424r–252466 4 12 46 3316 4 0.72 4 12 4 100
252292–252268r 5 645 5 645 5 100 5 645 5 100
252410r–252292 5 10,858 5 10,858 5 100 5 10,858 5 100
252208–252300 5 199 7 367 5 70.32 5 199 5 100
252538r–252526 6 1256 6 1256 6 100
252216r–252238 7 226 31 1546 7 25.51 7 226 7 100
252238–252228 7 1259 7 1259 7 100 7 1259 7 100
251622r–252244 9 30,034 17 30,482 9 99.26 9 30,034 9 100
252244–252386r 10 10,424 10 10,424 10 100 10 10,424 10 100
251936r–252510 14 18,913 14 18,913 12 99.86
252408r–252538r 14 20,922 14 20,922 14 100 14 20,922 14 100
252268r–252316 15 3339 19 3701 15 94.86 15 3339 15 100
252300–252312 15 5127 15 5127 11 98.93
252132–252226 18 7171 18 7171 18 100
252180–252410r 23 22,821 24 22,821 20 99.40
252316–252290 23 79,025 23 79,025 22 99.99
252312–252424r 24 5431 25 5431 23 99.96
252466–252252 25 13,442 26 13,442 21 99.97
252226–252216r 42 156,131 43 156,131 33 99.93
252486–252208 47 83,834 47 83,834 41 99.92
252148–252180 56 50,774 59 50,774 44 99.20
252252–252310r 59 118,754 60 118,754 53 100
  1. Alignment method: SOMA2. Here, the symbol ‘–’ represents the failure of OMACC