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Table 3 Hybrid scaffolding assembly statistics

From: Efficient and accurate whole genome assembly and methylome profiling of E. coli

Original assembler Original data type Original coverage Approx. PacBio coverage # Scaffolds % improvement Max scaffold size % improvement N50 % improvement Total bases Gaps Median gap size
Velvet MiSeq 75X 25X 94 38.96% 789973 183.69% 297566 249.55% 4530346 20 141
    55X 86 44.16% 1184298 275.38% 581705 487.84% 4529781 15 104
    110X 77 50.00% 1107981 257.63% 581889 487.99% 4530783 14 103
Ray MiSeq 50X 25X 56 39.78% 456422 137.07% 261284 235.05% 4579304 1 25
    55X 47 49.46% 768167 230.70% 297488 267.62% 4574295 0 n/a
    110X 52 44.09% 456422 137.07% 241297 217.07% 4578631 0 n/a
  Ion 25X 25X 92 77.83% 394228 522.34% 186135 930.81% 4605573 307 201
    55X 90 78.31% 324309 429.70% 179686 898.56% 4579067 62 127
    110X 83 80.00% 466975 618.72% 201280 1006.55% 4592864 69 175
MIRA MiSeq 50X 25X 201 37.38% 661174 298.02% 249860 516.65% 4597589 9 209
    55X 179 44.24% 716302 322.87% 394266 815.24% 4600672 17 110
    110X 176 45.17% 759703 342.43% 433542 896.45% 4606800 23 118
  Ion 25X 25X 112 26.80% 477985 169.86% 141498 132.46% 4569060 7 104
    55X 105 31.37% 477631 169.73% 149865 140.29% 4569565 15 120
    110X 93 39.22% 537668 191.07% 200457 187.66% 4571203 17 230