Table 1 |
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|
A summary of REAPR results on a range of genome sequences. |
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|
Scaffold errorsa |
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|
|
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|
Genome assembly |
Total length (Mb) |
Gaps (n) |
Total gap length (bp) |
Original N50 (Mb) |
Corrected N50b (Mb) |
Called by REAPR |
False +ve |
False -ve |
Error-free bases (%) |
|
|
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|
S. aureus TW20 k71 |
3.0 |
31 |
249 |
0.2 |
0.2 |
18 |
2 |
0 |
98.2 |
|
S. aureus, GAGE Velvet |
2.9 |
128 |
17,688 |
0.8 |
0.2 |
24 |
0 |
1 |
89.5 |
|
P. falciparum de novo k55 |
23.8 |
11,636 |
2,638,349 |
0.4 |
0.3 |
56 |
1 |
8 |
81.2 |
|
P. falciparum v2.1.4 |
23.3 |
160 |
947 |
1.7 |
1.7 |
4 |
1 |
0 |
94.5 |
|
P. falciparum v3 |
23.3 |
0 |
0 |
1.7 |
1.7 |
NA |
NA |
NA |
94.9 |
|
C. elegans WS228 |
100.3 |
0 |
0 |
17.5 |
17.5 |
NA |
NA |
NA |
90.3 |
|
M. musculus GRCm38 |
2725.5 |
522 |
77,999,939 |
130.7 |
100.2 |
41 |
ND |
ND |
80.1 |
|
H. sapiens GRCh37 |
3095.7 |
360 |
234,350,278 |
155.3 |
146.4 |
6 |
ND |
ND |
79.1 |
|
|
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|
aScaffold errors are not applicable (NA) when the assembly contains no gaps. Where a second genome sequence was unavailable for comparison, false-positives and false-negatives were not determined (ND). bCorrected N50 refers to the N50 of the assembly after breaking the original assembly at breakpoints called by REAPR. |
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|
Hunt et al. Genome Biology 2013 14:R47 doi:10.1186/gb-2013-14-5-r47 |
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