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Table 3 GAGE statistics (SNPs, indels and misjoins) on Staphylococcus aureus.

From: GAM-NGS: genomic assemblies merger for next generation sequencing

Assembler SNPs Indels < 5 bp Indels ≥ 5 bp Misjoins Inv Reloc
Allpaths-LG 79 4 12 4 0 4
MSR-CA 191 23 10 13 6 7
Allpaths-LG + MSR-CA
GAM-NGS 137 9 15 5 0 5
GAA 145 8 16 6 0 6
ZORRO 133 12 8 6 2 4
MSR-CA + Allpaths-LG
GAM-NGS 214 19 10 9 2 7
GAA 206 22 15 11 2 9
ZORRO 262 24 9 7 4 3
Allpaths-LG 79 4 12 4 0 4
SOAPdenovo 247 25 31 15 1 14
Allpaths-LG + SOAPdenovo
GAM-NGS 88 5 14 4 0 4
GAA 100 9 19 10 1 9
ZORRO 227 19 12 6 1 5
SOAPdenovo+ Allpaths-LG
GAM-NGS 304 27 29 15 1 14
GAA 314 32 30 12 1 11
ZORRO 299 28 11 13 2 11
  1. For each assembly we show the number of SNPs, the number of indels shorter than 5 bp and greater (or equal) than 5 bp. The number of misjoins is computed as the sum of inversions (parts of contigs reversed with respect to the reference genome) and relocations (rearrangements moving a contig within/between chromosomes).
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