Table 1.
False duplication statistics in previous and VGP assemblies
| Zebra finch Pre. (Sanger) |
Zebra finch VGP (bTaeGut1) |
Hummingbird Pre. (Illumina) |
Hummingbird VGP (bCalAnn1) |
Platypus Pre. (Sanger) |
Platypus VGP (mOrnAna1) |
||
|---|---|---|---|---|---|---|---|
| Heterozygosity (%) | - | 0.95 | - | 0.34 | - | 0.22 | |
| Total false duplication length (Mbp) | 195.6 (15.9 %) | 24.1 (2.3 %) | 40.9 (3.7 %) | 5.8 (0.5 %) | 126.0 (6.3 %) | 5.6 (0.3 %) | |
| Type | Heterotype (Mbp) | 190.5 (15.5 %) | 23.1 (2.2 %) | 13.7 (1.2 %) | 5.4 (0.5 %) | 72.0 (3.6 %) | 5.0 (0.3 %) |
| Homotype (Mbp) | 5.1 (0.4 %) | 0.9 (0.1 %) | 27.2 (2.5 %) | 0.4 (<0.1 %) | 54.0 (2.7 %) | 0.6 (<0.1 %) | |
| Location | Same scaffold (Mbp) | 46.4 (3.8 %) | 22.2 (2.1 %) | 2.9 (0.3 %) | 4.8 (0.5 %) | 22.7 (1.1 %) | 3.4 (0.2 %) |
| Different scaffold (Mbp) | 149.3 (12.1 %) | 1.9 (0.2 %) | 38.0 (3.4 %) | 1.0 (<0.1 %) | 103.3 (5.2 %) | 2.2 (0.1 %) | |
| Total assembly Length (Mbp) | 1232.1 (100 %) | 1058.0 (100 %) | 1105.7 (100 %) | 1059.7 (100 %) | 1995.6 (100 %) | 1858.5 (100 %) | |
Heterozygosity (top row) was calculated as the mean number of variants in each assembly based on the 10X linked reads produced for each VGP assembly. Second row is the total Mbp (and % of genome size in brackets) that are falsely duplicated. Rows below that are the type and location of false duplications