Genome and Assembly Statistics

Genome Stats

Size Chrs %GC Genes tRNAs rRNAs % Repeat
V. cholerae MO10 4.08 Mb N/A 47.54 3,870 72 4 N/A
V. cholerae MAK 757 3.94 Mb N/A 47.57 3,502 29 0 N/A
V. cholerae RC385 4.19 Mb N/A 47.42 3,737 27 1 --
V. cholerae V51 4.21 Mb N/A 47.45 3,741 65 10 N/A
V. cholerae V52 4.05 Mb N/A 47.49 3,630 71 10 N/A
V. cholerae MZO-2 3.98 Mb N/A 47.54 3,540 81 10 N/A
V. cholerae MZO-3 4.14 Mb N/A 47.42 3,762 75 10 N/A
V. cholerae AM-19226 4.05 Mb N/A 47.57 3,632 79 11 N/A
V. cholerae 623-39 4.16 Mb N/A 47.44 3,626 73 14 N/A
V. cholerae 2740-80 4.07 Mb -- 47.51 3,649 69 11 N/A
V. cholerae 1587 4.22 Mb -- 47.39 3,821 88 14 --

Assembly Stats

Coverage Assembly Size Total Contig Length Scaffolds Scaffold N50 Contigs Contig N50 %Q40
V. cholerae MO10 41x (454); 9x (TIGR) 4.08 Mb 4.03 Mb 27 1.04 Mb 84 178.79 Kb 99.97
V. cholerae MAK 757 19.14x (454); 6.59x (ABI) 3.94 Mb 3.92 Mb 12 1.08 Mb 43 227.38 Kb 98.90
V. cholerae RC385 16.70x (454); 3.74x (ABI) 4.19 Mb 4.12 Mb 23 1.07 Mb 97 93.03 Kb 98.17
V. cholerae V51 12.22x (454); 5.4x (ABI) 4.21 Mb 4.13 Mb 80 362.32 Kb 143 98.1 Kb 99.39
V. cholerae V52 9.64x (454); 5.2x (ABI) 4.05 Mb 4.01 Mb 59 345.38 Kb 111 128.3 Kb 99.51
V. cholerae MZO-2 19.14x (454); 7.2x (ABI) 3.98 Mb 3.95 Mb 36 978.84 Kb 54 345.01 Kb 99.78
V. cholerae MZO-3 19.37x (454); 6x (ABI) 4.14 Mb 4.12 Mb 45 1.1 Mb 77 216.76 Kb 99.57
V. cholerae AM-19226 16.23x (454); 8.77x (ABI) 4.05 Mb 4.04 Mb 34 1.09 Mb 63 220.22 Kb 99.89
V. cholerae 623-39 22.32x (454); 5.51x (ABI) 4.16 Mb 4.06 Mb 39 1.1 Mb 80 225.54 Kb 99.72
V. cholerae 2740-80 20.62x (454); 6.71x (ABI) 4.07 Mb 4.03 Mb 41 610.86 Kb 70 199.9 Kb 99.78
V. cholerae 1587 17.04x (454); 6.01x (ABI) 4.22 Mb 4.2 Mb 73 499.12 Kb 114 210.6 Kb 99.66

Library Clones

We end-sequenced the following types of libraries:

Plasmid Physical Coverage Fosmid Physical Coverage

Table Header Definitions

  • Size length of complete genome sequence, calculated by adding lengths of all scaffolds together
  • Chrs number of chromosomes
  • %GC GC content of scaffolds
  • Genes number of predicted protein-coding genes in genome
  • tRNAs number of predicted tRNA genes in genome
  • rRNAs number of predicted rRNA genes in genome
  • % Repeat percentage of genome comprised of reptitive sequences
  • Coverage -fold coverage of the genome sequenced
  • Assembly Size length of complete genome sequence, calculated by adding lengths of all scaffolds together
  • Total Contig Length total length of all the contigs added together
  • Scaffolds number of scaffolds/supercontigs contained in a genome assembly
  • Scaffold N50 length of the scaffold containing the middle base of the genome
  • Contigs number of contigs contained in a genome assembly
  • Contig N50 length of the contig containing the middle base of the genome
  • %Q40 percentage of contig bases with quality scores equal to or greater than 40
  • Plasmid number of plasmids sequenced and subsequently assembled in the genome
  • Physical Coverage depth of coverage (applies to plasmids)
  • Fosmid number of fosmids sequenced and subsequently assembled in the genome
  • Physical Coverage depth of coverage (applies to fosmids)