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Table 1 Short read only assembly statistics

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

Assembler Data type kmer Approx. coverage # Contigs % Contigs>500 Max contig size N50 Dup-mer 21 Assembly size % Assembly size
Velvet MiSeq 59 100X 154 54.55% 430066 119241 0.28 4493252 98.56%
   59 75X 156 53.21% 413653 119171 0.30 4493894 98.57%
   59 50X 144 55.56% 415116 118491 0.28 4493686 98.57%
   59 25X 244 68.03% 212504 48994 0.26 4494206 98.58%
Ray MiSeq 36 100X 93 78.49% 332975 111161 1.67 4565040 100.13%
   36 75X 90 85.56% 350117 111227 0.47 4550209 99.81%
   36 50X 100 90.00% 213879 86298 0.45 4495395 98.61%
   36 25X 292 93.15% 79672 26198 0.5 4499709 98.70%
  Ion 29 100X 734 88.56% 34241 10008 2.34 4545446 99.70%
   29 75X 578 87.02% 58878 13621 1.64 4493104 98.56%
   29 50X 440 85.00% 85800 18468 1.01 4499305 98.69%
   29 25X 415 86.51% 75474 19997 0.36 4470372 98.06%
MIRA MiSeq n/a 100X 1260 6.51% 388423 115369 2.16 4754899 104.30%
   n/a 75X 457 22.98% 284700 96674 0.85 4630082 101.56%
   n/a 50X 321 51.09% 221854 48362 1.01 4589987 100.68%
   n/a 25X 1071 74.51% 33745 8703 1.31 4545144 99.70%
  Ion n/a 100X 697 10.33% 493665 180738 2.34 4763496 104.49%
   n/a 75X 429 19.58% 401639 128626 1.60 4674816 102.54%
   n/a 50X 221 37.10% 351325 144583 1.03 4598473 100.87%
   n/a 25X 153 62.75% 281400 106822 0.73 4559337 100.01%
  1. The bolded assemblies represent the best assembly for the specified combination of sequencer and software.