Tandem repeats
Use of Variable Number Tandem Repeats To Examine Genetic Diversity of Neisseria meningitidis
... variable tandem repeats. The majority of the tandem repeat loci in meningococci are in or near genes that encode proteins with phase-variable properties (30, ...of tandem repeat areas showed ...
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Intragenic tandem repeats in Daphnia magna: structure, function and distribution
... intragenic tandem repeats are not distributed randomly in the mRNA sequences; instead, dinucleotides are more frequent in non- coding regions, whereas trinucleotides (and longer motifs involving ...
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Numerous Length Polymorphisms at Short Tandem Repeats in Human Cytomegalovirus
... short tandem repeats in the human cytomegalovirus (HCMV) genome and assess their usefulness as molecular ...short tandem repeats are common (80% of repeats examined are polymorphic ...
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Heteroplasmy of short tandem repeats in mitochondrial DNA of Atlantic cod, Gadus morhua.
... Tandem repeats in the D-loop region: T h e cod repeats are comparable to a number of other repeated sequences found in animal mtDNA in that they lie in the D-loop region [r] ...
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Coding Tandem Repeats Generate Diversity in Aspergillus fumigatus Genes
... hypervariable tandem repeats (TRs) located within exons of cell surface ...coding repeats is associated with various diseases, including Hunting- ton’s disease and fragile X syndrome ...genomes, ...
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Optimal computation of all tandem repeats in a weighted sequence
... a tandem repeat may change by additional, uncoordinated, mutations, and so only approximate tandem copies may be ...dem repeats in genomic sequences is a certain variation threshold that must be ...
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Are Variable Number Tandem Repeats Appropriate for Genotyping Mycobacterium leprae?
... While our work was in review, Young and coworkers (23) published the findings of a VNTR study of M. leprae in which eight short tandem repeats were surveyed (of which only one was common to the set used in ...
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Variable Number of Tandem Repeats in Salmonella enterica subsp enterica for Typing Purposes
... 35 tandem repeats with repeat units longer than 6 bp were predicted to be polymorphic be- tween CT18 and Ty2, CT18 and LT2, and Ty2 and LT2, re- ...Six tandem repeats were predicted to be of ...
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Evaluation of the Polymorphisms Associated with Tandem Repeats for Pseudomonas aeruginosa Strain Typing
... 3,000 tandem repeats within the ...predict tandem repeat polymorphisms directly from the sequence of a single allele (7, 13), present approaches rely upon systematic testing, especially for species ...
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Development of Variable Number Tandem Repeat Typing of Mycobacterium bovis: Comparison of Results with Those Obtained by Using Existing Exact Tandem Repeats and Spoligotyping
... variable-number tandem repeat (VNTR) typing have provided PCR-derived typing ...of tandem repeats in the size range of 53 to 59 bp in the MTBC, and their assessment as typing tools in 47 ...
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Genome-wide analysis of transposable elements and tandem repeats in the compact placozoan genome
... that repeats are notoriously dynamic genomic elements. Tandem repeats are highly unstable, and TEs are typically the most lineage-specific sequences in eukaryotic ...interspersed repeats that ...
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Finding the region of pseudo-periodic tandem repeats in biological sequences
... pseudo-periodic repeats (or tandem repeats) is an important task in biological sequence analysis ...human tandem repeat appears below (Gen- ...
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Polymorphism of Variable Number Tandem Repeats at Multiple Loci in Mycobacterium tuberculosis
... VNTR analysis of M. tuberculosis. Each VNTR locus was separately amplified by a pair of primers specific for the flank- ing regions of the VNTR. Thirty-nine loci were polymorphic and will therefore be referred to as VNTR ...
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Probabilistic approaches to alignment with tandem repeats
... for repeats in each sequence indepen- dently, which can cause ...a tandem repeat can be found in only one of the species, if it is less conserved in the other species or has there only one copy of the ...
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Distinct influences of tandem repeats and retrotransposons on CENH3 nucleosome positioning
... on tandem repeats adapts to the underlying AA/TT dis- ...the tandem repeat in maize contrasts with both the phasing reported on tandem repeats in primates and with the phasing on the ...
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Diversity of Potential Short Tandem Repeats in Mycobacterium leprae and Application for Molecular Typing
... (8). Tandem repeats are usually classified among satellites (span- ning megabases of DNA, associated with heterochromatin), minisatellites (repeat units in the range from 6 to 100 bp, spanning hundreds of ...
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Link between short tandem repeats and translation initiation site selection
... mononucleotide repeats, in which STRs of ≥ 6-re- peats were studied) for each individual gene was devel- oped and applied as follows: the 120 bp genomic DNA and cDNA sequence upstream of the TISs of all anno- ...
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Identification and Characterization of Variable Number Tandem Repeats in the Yersinia pestis Genome
... A direct repeat array may contain either a mononucleotide repeat motif, also called a homopolymeric motif, such as a poly(T) tract, or a heteropolymeric mo- tif, which is a dinucleotide or greater repeat motif of mixed ...
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An efficient clustering algorithm for partitioning Y short tandem repeats data
... Efforts to group Y-STR data based on genetic distances have recently been reported. For example, Schlecht et al . [12] used machine learning techniques to classify Y-STR fragments into related groups. Furthermore, Seman ...
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Diagnosing Zygosity in Giant Panda Twins Using Short Tandem Repeats
... Comparing the unique genetic fingerprints that can discriminate between individuals offers the most robust method for estimating the zygosity of a twin pair (Forget- Dubois et al., 2003; Jackson et al., 2001). In this ...
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