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Table 8 GAGE statistics (contiguity, duplication and compression) on human chromosome 14.

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

Assembler Ctg num NG50 (kb) NG50 corr. (kb) Assembly size (%) Chaff size (%) Unaligned ref (%) Unaligned asm (%) Dupl (%) Comp (%)
Allpaths-LG 4529 27.96 15.69 78.67 0.02 20.03 0.04 0.23 2.11
CABOG 3361 35.86 18.63 80.34 0.02 19.13 0.07 0.13 1.39
Allpaths-LG + CABOG
GAM-NGS 2235 61.64 21.91 80.94 0.02 19.08 0.10 0.88 1.43
GAA 1989 69.40 23.04 82.08 0.02 18.92 0.09 1.52 1.39
CABOG + Allpaths-LG
GAM-NGS 1979 66.29 23.63 81.00 0.02 19.00 0.06 0.74 1.37
GAA 1903 70.39 23.89 81.89 0.02 18.98 0.07 1.21 1.36
  1. For each assembler we report the number of contigs greater than 200 bp (Ctg), the NG50, the corrected NG50 (NG50 computed breaking the assembly at each error), assembly's total length, the percentage of short (Chaff) contigs, the length of reference's regions which cannot be found in the assembly (Unaligned ref), the length of assembly's regions that cannot be found in the reference (Unaligned asm), the percentage of duplicated (Dupl) and compressed (Comp) regions in the assembly. All the statistics were computed using the same script with the gapped reference genome (107,349,540 bp).
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