From: De novo assembly of bacterial genomes with repetitive DNA regions by dnaasm application
Sample | Assembler | Type | No. of | N50 [bp] | Max [bp] | Avg. | Avg. |
---|---|---|---|---|---|---|---|
of output | contigs | mis. | indels | ||||
ERR351243 | ABySS | unitigs | 79 | 40021 | 224368 | 0.00 | 1.61 |
Velvet | unitigs | 206 | 12813 | 38818 | 0.31 | 0.81 | |
SPAdes | unitigs | 43 | 61281 | 287932 | 0.93 | 2.28 | |
dnaasm | unitigs | 84 | 30628 | 191880 | 0.06 | 1.98 | |
ABySS | scaffolds | 33 | 65136 | 224368 | 1.59 | 2.69 | |
Velvet | scaffolds | 30 | 82451 | 224509 | 1.42 | 3.15 | |
SPAdes | scaffolds | 27 | 74784 | 333212 | 1.23 | 2.53 | |
dnaasm | scaffolds | 34 | 61265 | 333846 | 0.62 | 3.82 | |
SRR1981622 | ABySS | unitigs | 81 | 36448 | 110990 | 1.11 | 0.99 |
Velvet | unitigs | 254 | 8636 | 27708 | 1.12 | 0.37 | |
SPAdes | unitigs | 53 | 58976 | 228504 | 1.42 | 1.29 | |
dnaasm | unitigs | 73 | 45793 | 134195 | 0.93 | 1.11 | |
ABySS | scaffolds | 40 | 67391 | 207675 | 4.89 | 1.96 | |
Velvet | scaffolds | 33 | 114376 | 285632 | 4.99 | 2.65 | |
SPAdes | scaffolds | 35 | 98439 | 228504 | 3.26 | 2.09 | |
dnaasm | scaffolds | 39 | 91627 | 228504 | 3.33 | 1.73 | |
SRR1981619 | ABySS | unitigs | 80 | 36449 | 110993 | 8.36 | 2.85 |
Velvet | unitigs | 314 | 7163 | 22826 | 7.92 | 1.56 | |
SPAdes | unitigs | 53 | 58765 | 228586 | 9.00 | 3.21 | |
dnaasm | unitigs | 77 | 43959 | 134261 | 7.76 | 2.77 | |
ABySS | scaffolds | 43 | 79578 | 111309 | 16.00 | 4.15 | |
Velvet | scaffolds | 35 | 107026 | 492812 | 10.06 | 4.32 | |
SPAdes | scaffolds | 34 | 98351 | 228586 | 8.99 | 4.31 | |
dnaasm | scaffolds | 38 | 93136 | 256270 | 11.21 | 4.25 | |
SRR5431732 | ABySS | unitigs | 559 | 11471 | 57586 | 17.85 | 2.90 |
Velvet | unitigs | 1032 | 4790 | 18304 | 17.98 | 2.57 | |
SPAdes | unitigs | 238 | 30607 | 129385 | 21.02 | 3.74 | |
dnaasm | unitigs | 416 | 16178 | 59383 | 21.68 | 4.10 | |
ABySS | scaffolds | 208 | 35552 | 131767 | 19.81 | 4.51 | |
Velvet | scaffolds | 202 | 41843 | 182297 | 21.99 | 7.21 | |
SPAdes | scaffolds | 172 | 46834 | 159097 | 22.65 | 4.72 | |
dnaasm | scaffolds | 354 | 19644 | 120052 | 25.13 | 4.42 |