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Table 4 Evaluation of hybrid scaffolding assemblies

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

Original assembler Original data type Original coverage Approx. PacBio coverage Avg identity Indels<5 bp Indels>= 5 Inversions Missing assembly contigs Relocation SNPs
Velvet MiSeq 75X 25X 99.98 416 36 4 0 31 93
    55X 99.98 471 47 3 0 25 107
    110X 99.98 299 49 2 0 24 88
Ray MiSeq 50X 25X 99.99 191 10 3 19 3 16
    55X 99.99 210 10 2 19 2 33
    110X 99.99 185 13 3 19 2 33
  Ion 25X 25X 99.95 2092 244 8 1 39 65
    55X 99.93 3000 93 3 1 13 206
    110X 99.93 2732 79 0 1 20 171
MIRA MiSeq 50X 25X 99.98 199 23 18 0 14 138
    55X 99.98 140 18 19 0 17 103
    110X 99.98 90 17 21 0 19 92
  Ion 25X 25X 99.97 682 14 12 0 9 59
    55X 99.97 650 14 12 0 11 92
    110X 99.97 648 19 13 0 11 74