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Table 2 Assembly quality metrics for strains sequenced in this study

From: Short-term genome evolution of Listeria monocytogenes in a non-controlled environment

Strain F6900 J0161 J2818 FSL J1-194
Contig N50(1) 434 kb 148 kb 167 kb 156 kb
Total contigs 35 49 38 43
Assembly size 2.96 Mb 2.97 Mb 2.97 Mb 2.93 Mb
Aligned sequence length (nt)(2) 2,921,655 2,921,243 2,921,377 -
comK prophage sequence length (number of contigs)(3) 38,876 bp (5) 41,349 bp (4) 42,001 bp (2) 42,189 bp (1)
Contigs to capture 90% of assembly 11 19 19 19
Fraction bases Q40(4) 99.5% 99.7% 99.8% 99.7%
Fraction reference covered 95.97% 95.97% 96.08% 93.79%
Assembled coverage 25× 30× 24× 22×
  1. (1) Length-weighted median that describes the contig size in which at least half the bases reside.
  2. (2) Length of each sequence in the refined alignment containing the 1988 and 2000 isolates. The length for F6854 is 2,921,388 nt.
  3. (3) Sequenced length of the prophage inserted into comK for each isolate/strain. The length for F6854 is 41,259 nt.
  4. (4) As reported by 454 assembly software.