Erroneous duplications
UMD2
BosTau4
Each base in the genome is
covered by 6 reads, on average. A way to judge which assembly is correct is to compute the
average read coverage
for these regions.
•Two recent published assemblies of the cow genome: UMD2 and BosTau4
•Segmental duplications were a central theme in BosTau4 genome paper
•UMD2 assembly had many fewer duplications
We examined the duplications,
> 99.5% identity, >5000bp, one copy in the UMD2 assembly and
two copies in the BosTau4
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