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Choosing to generate overlapping read pairs instead of non-overlapping read pairs can reduce the effective coverage by half.
Overlapping read counts are shown in deep red.
Overlapping read pairs were joined and used for assembly along with the non-merged read pairs.
Sequencing errors can occur in two forms in overlapping read pairs.
The cost of this increased coverage by generating non-overlapping read pairs is losing the benefit of context-specific error estimation and correction afforded by the overlapping read pairs.
At every base, all overlapping read pairs were separated into two categories: matching and non-matching base pairs.
Similar(34)
Additionally, in a preliminary alignment to genome, overlapping reads were aggregated together into contiguous intervals.
Illumina paired-end sequencing of the amplified sequences generates millions of overlapping reads.
Computational methods have been developed to reconstruct transcript structures based on overlapping reads [36].
The extraction of overlapping reads with proper primer sequences and correct sequence tags was performed with a custom Perl program.
The ability to assemble overlapping reads into reliable contigs is also crucial for de novo genome sequencing applications.
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