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Tic marks under each chromosome show the location of gaps, indicating that the appropriate sequence for these regions was either not identified or that the sequence is not included in the released genome sequence [ 3].
The Newbler program was used with its default settings to assemble the sequence and to compare all contigs to the completed Florida and St. Maries genomes, which revealed the location of gaps in coverage.
However, neither program was designed to treat repeat contigs or display the reads that link contigs and imply the location of gaps and repeat contigs [ 8, 10] (Table 1).
It then determines the possible location of gaps in the alignment based on splice junctions flanking the aligned reads and uses gapped alignments to align the reads that were not aligned by Bowtie in the first step.
Other publicly available alignment programs were used, but the alignment from ClustalW was deemed to be the most biologically relevant based on the location of gaps in relation to the previously reported conserved regions and the known tertiary structure of the LHC protein.
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In the MKS3 mutant rats, the OMP+ cells were significantly more basal in their distribution relative to controls, although there was no difference between genotypes in the location of GAP-43+ cells (Figure 4C).
They apply compositional adjustment only before the most sensitive and most computationally expensive alignment algorithm, the computation of a gapped alignment that includes information specifying the locations of gaps, information known as the "traceback".
Characteristics and locations of gaps larger than 8 cM in the 16 walnut linkage groups.
Sequence masking was done on the raw sequences (without gaps) while the locations of gaps were retained.
This is important information for two reasons: firstly, subsequent item and test development can be informed by targeting new items at the location of the gaps, and secondly, these gaps indicate regions in which there is minimal information about candidate skills.
It lists gap-year companies and the locations of gap-year fairs, which many firms attend.
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