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The challenge with de novo transcriptome sequencing using data from short read technology lies in the difficulty of assembling the reads into contigs reflecting transcriptional units [3].
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In reality, due to the difficulty of assembling shotgun sequences in duplicated regions, large (>15 kb) and highly identical (>95%) SDs are often collapsed [ 11].
The organization of rRNA and other repeated genes has been hindered in completely sequenced genomes due to the difficulty of assembling them into a genome.
Reads from the pathogenic DW7-ToxB map to these NPSs, but it is difficult to determine if the domains and modules are arranged in a similar manner due to the difficulty of assembling highly similar reads.
For example, the difficulty of assembling repetitive DNA in a genome sequence can lead to underestimates of genome size [ 87] and inaccurate estimates of transposable element content.
The difficulty of assembling the oyster genome is again reflected in this analysis.
Due to the difficulty of assembling repetitive genome regions, k-mer repeats were masked from the original genome assembly [ 47].
Because of the difficulty of assembling a large series of nonsmoking lung cancer cases in one locale, except for large international collaborations, most studies have been small, including our own.
Everywhere I go, vice-chancellors tell me about the difficulty of assembling global research teams.
One reason for the delay is the difficulty of assembling useful devices from such tiny building blocks.
But the difficulty of assembling the intricately shaped parts with millimeter accuracy led to cost hikes and schedule slips.
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