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Consider two k-mers x and y that are within a small Hamming distance and present in the read dataset.
The use of the term noncompliance as opposed to nonadherence is intentional and reflects the nomenclature present in the Read codes.
Alternative isoforms would be expected to generate alignment gaps if a contig contains an extra (or different) exon which is not present in the read.
Since each sequence read is from a single chromosome, if a read covers two variant sites, all of the alleles present in the read must be from the same haplotype.
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Surely the mechanisms we have for denying the more troubling parts of ourselves are as present in the reading of a self-help book as they are at any other time?
However, they neglect the availability of information about the number of tags present in the reading area of each reader and the operation of the underlying reading protocols, which are major factors determining the performance of the reading process.
To quantify the diversity present in the reads, the base substitution rate was calculated for each position, defined as the fraction of bases that do not map to the expected base for a given position (Figure 3B).
Finding all the conserved peptides from the list that were present in the reading frame.
The multi-set of all k-mers present in the reads is partitioned and partitions are saved to disk.
cDNA synthesis primer sequences present in the reads were removed and very short reads with less than 100 bp and low-quality sequences were eliminated.
The gaps were closed by first analysing the contig graph, which presents the connections between contigs, based on the repeat information present in the reads.
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