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Given a word table, the checking procedure checks each of the remaining sequences against the table and determines whether it is a redundant sequence.
If the BLAST result revealed that two sequences had a >95% match ratio and a >85% coverage ratio, we removed the shorter sequence as a redundant sequence.
In order to be able to directly compare our data to that of [ 22], we downloaded their supplementary data and created a redundant sequence file to use as input to the UEA plant sRNA toolkit.
The high percentage of nucleotide identity observed also within the flanking and intronic sequences confirmed that the TRDV1S3 and TRDV1S12 genes could represent the same gene indicating the occurrence of a redundant sequence in the genome assembly obtained from two individuals (a male and a female Texel sheep).
Here, we constructed a bacterial artificial chromosome (BAC) library and performed BAC-end sequencing to provide genomic information for kuruma shrimp (Marsupenaeus japonicus), one of the most widely cultured species among crustaceans, and found the presence of a redundant sequence in the BAC library.
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A dash indicates redundant sequence for which a GenBank accession number was not obtained.
Recently, The Institute for Genomic Research TIGRR) has initiated a project to generate redundant sequence analysis of the castor genome.
Second, WGD events create a large amount of redundant sequence, which leaves the genome more vulnerable to invasion by new transposons.
In the initial 'shotgun' phase, large numbers of overlapping sequence reads are obtained at random from a large-insert clone or a whole genome, yielding highly redundant sequence data that typically represent the vast majority of the starting DNA.
Segregated data from each line was then collapsed into putative RAD sequence clusters comprised of a minimum of eight (8×) redundant sequence reads per locus.
For a given target sequence, ANGLOR first generates multiple sequence alignments by searching through a non-redundant sequence database.
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Justyna Jupowicz-Kozak
CEO of Professional Science Editing for Scientists @ prosciediting.com