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Table 5 Evaluation of S aureus (genome size 2,872,915 bp)

From: A de novo next generation genomic sequence assembler based on string graph and MapReduce cloud computing framework

Assembler Num N50 (kb) N50
corr. (kb)
Indel
> 5 bp
Misjoins Precision Recall # of valid
contigs (> 200 bp)
# of invalid
contigs
(> 200 bp)
ABySS 302 29.2 24.8 9 5 75.06% 94.31% 219 83
ALLPATHS-LG 60 96.7 66.2 12 4 93.35% 92.28% 55 5
Bambus2 109 50.2 16.7 164 13 63.20% 61.69% 90 19
MSR-CA 94 59.2 48.2 10 12 90.14% 88.96% 79 15
SGA 1252 4 4 2 4 97.95% 95.61% 1134 118
SOAPdenovo 107 288.2 62.7 31 17 60.22% 60.35% 59 48
Velvet 162 48.4 41.5 14 14 82.66% 81.08% 136 26
CloudBrush 527 9.7 9.5 2 10 96.72% 96.00% 447 80