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Table 2 Sequencing runs and genome assembly details

From: Clinical metagenomic identification of Balamuthia mandrillaris encephalitis and assembly of the draft genome: the continuing case for reference genome sequencing

Sequencing run Raw reads Filtered reads Read length Library prep
MP1a 3845734 N/A 2 × 80 bp Nextera Mate-Pair
MP2a 31223454 12095792 2 × 80 bp Nextera Mate-Pair
MP3a 14121900 4397510 2 × 250 bp Nextera Mate-Pair
PE1b 213604902 29314946 2 × 250 bp Nextera XT
Genome Assemblyc Contigs N50 (bp) Assembly Size  
Mitochondria 1 41,656 41,656  
Contigs 31,194 3,411 48,938,887  
Scaffolds 26,811 19,415 49,120,517  
Gap-fill 26,811 19,012 48,939,625  
Final assembly (minus <500 bp, contaminants) 14,699 26,144 44,270,879  
  1. aThree runs of a Nextera mate-pair library of Balamuthia strain 2046 from axenic culture sequenced on an Illumina MiSeq
  2. bNextera XT paired-end library of strain 2046 sequenced on an Illumina HiSeq
  3. cAssembly of mitochondrial genome from MP1 library, of whole-genome from all four libraries