Table 4 |
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|
Scores for Arabidopsis assemblies determined using the pooled BAC and WGS strategies |
|||||||||
|
Size (Mbp) |
Method |
Match |
Relocation |
Inversion |
Redundancy |
Coverage |
Scaffold N50 |
Number of scaffolds |
|
|
|
|||||||||
|
chr1 |
30.4 |
WGS |
0.501 |
0.986 |
0.957 |
0.891 |
90.42% |
||
|
chr2 |
19.7 |
WGS |
0.496 |
0.940 |
0.954 |
0.846 |
84.97% |
||
|
chr3 |
23.5 |
WGS |
0.503 |
0.988 |
0.939 |
0.893 |
90.09% |
207,281 |
3,268 |
|
chr4 |
18.6 |
WGS |
0.479 |
0.992 |
0.950 |
0.778 |
76.01% |
||
|
chr5 |
30.0 |
WGS |
0.492 |
0.993 |
0.955 |
0.804 |
83.02% |
||
|
|
|||||||||
|
chr1 |
30.4 |
Pooled |
0.512 |
1.000 |
0.968 |
0.979 |
94.11% |
369,269 |
497 |
|
chr2 |
19.7 |
Pooled |
0.518 |
0.998 |
0.962 |
0.982 |
96.01% |
534,038 |
291 |
|
chr3 |
23.5 |
Pooled |
0.515 |
0.998 |
0.953 |
0.978 |
97.23% |
464,102 |
431 |
|
chr4 |
18.6 |
Pooled |
0.518 |
0.999 |
0.955 |
0.977 |
93.43% |
355,538 |
370 |
|
chr5 |
30.0 |
Pooled |
0.537 |
1.000 |
0.967 |
0.978 |
96.36% |
750,202 |
390 |
|
|
|||||||||
|
Assembly evaluation scores and scaffold statistics are shown for the Arabidopsis chromosome pseudomolecules obtained from assembling WGS and pooled BAC data. Chromosome scaffold statistics for pooled assemblies are averages over the values for each pool in that chromosome. Optimized assembly parameters were used. |
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|
Haiminen et al. BMC Genomics 2011 12:194 doi:10.1186/1471-2164-12-194 |
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