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Table 9 GAGE statistics (SNPs, indels and misjoins) on human chromosome 14.

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

Assembler SNPs Indels < 5 bp Indels ≥ 5 bp Misjoins Inv Reloc
Allpaths-LG 55319 27563 2558 101 44 57
CABOG 81151 28438 2884 149 46 103
Allpaths-LG + CABOG
GAM-NGS 61725 29936 2950 119 32 87
GAA 63835 30151 2990 123 29 94
CABOG + Allpaths
GAM-NGS 79478 29653 3021 154 43 111
GAA 81763 29812 3008 134 31 103
  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). All the statistics were computed using the same script with the gapped reference genome (107,349,540 bp).
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