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Table 6 GAGE statistics (SNPs, indels and misjoins) on Rhodobacter sphaeroides.

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

Assembler SNPs Indels < 5 bp Indels ≥ 5 bp Misjoins Inv Reloc
Allpaths-LG 218 150 37 6 0 6
MSR-CA 807 179 32 9 1 8
Allpaths-LG + MSR-CA
GAM-NGS 250 157 44 5 0 5
GAA 345 162 48 5 0 5
ZORRO 263 153 35 7 0 7
MSR-CA + Allpaths-LG
GAM-NGS 842 198 46 10 1 9
GAA 802 187 49 10 1 9
ZORRO 928 215 29 7 0 7
Bambus2 189 149 363 5 0 5
SOAPdenovo 534 155 404 8 0 8
Bambus2 + SOAPdenovo
GAM-NGS 431 173 406 10 0 10
GAA 581 177 404 10 0 10
ZORRO 546 196 84 8 0 8
SOAPdenovo+ Bambus2
GAM-NGS 534 153 393 8 0 8
GAA 532 155 407 8 0 8
ZORRO 513 175 111 9 0 9
  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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