Data-SPAdes

  • Evaluated by QUAST
QUAST (QUAST v2.2)
Running QUAST requires Ec_gene_list and NC_000913.fna. There are 4497 genes in total.
Basic statistics Website data Raw Data Fractional Data 50X coverage 100X coverage
# contigs 1 14 1 1 1
Largest contig 4638970 4625005 4638970 4638970 4638970
Total length 4638970 4652215 4638970 4638970 4638970
N50 4638970 4625005 4638970 4638970 4638970
Misassemblies
# misassemblies 1 5 1 1 1
Misassembled contigs length 4638970 4625005 4638970 4638970 4638970
Mismatches
# mismatches per 100kbp 0.11 1.06 0.06 0.09 0.06
# indels per 100kbp 0.09 0.61 0.09 0.09 0.09
# N's per 100kbp 0 282.94 0 0.04 0
Genome statistics
Genome fraction (%) 99.983 99.418 99.983 99.983 99.983
Duplication ratio 1 1.013 1 1 1
# genes 4494 + 1 part 4471 + 2 part 4494 + 1 part　 4494 + 1 part 4494 + 1 part
NGA50 4638970 2714032 3763133 4209920 3762305
Running Time 42m 2hr 35m 35m 35m 41m

Misassemblies for Adobe reader.


  • Score with QUAST: Without PacBio Long Reads more detail
Basic statistics Website data Raw Data Fractional Data 50X coverage 100X coverage
# contigs 2 1 5 3 2
Largest contig 4631220 4633080 4575759 4629108 4638312
Total length 4633146 4633080 4698903 4633082 4640072
N50 4631220 4633080 4575759 4629108 4638312
Misassemblies
# misassemblies 3 7 8 8 5
Misassembled contigs length 4631220 4633080 4577746 4631095 4638312
Mismatches
# mismatches per 100kbp 1.19 1.42 2.84 2.52 2.26
# indels per 100kbp 1.13 0.83 3.26 1.24 1.85
# N's per 100kbp 533.22 1545.02 698.87 703.96 760.38
Genome statistics
Genome fraction (%) 99.345 98.343 99.265 99.136 99.272
Duplication ratio 1.012 1.016 1.021 1.008 1.008
# genes 4465 + 11 part　 4395 + 31 part　 4460 + 14 part　 4451 + 13 part 4455 + 14 part
NGA50 3180483 687701 654008 2675325 694154
Running Time 28m 2hr 01m 31m 28m 32m

Misassemblies for Adobe reader.