Alignment of partial SdhD sequences from 19 species
Genetic Classification and Differentiation of Bartonella Species Based on Comparison of Partial ftsZ Gene Sequences
... quintana sequences were highly conserved, while those of the four ...differed from the type strain at 5 ...isolated from cats and patients, only two genotypes were detected: Houston and ...
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The Determination of the Partial 28S Ribosomal DNA Sequences and Rapid Detection of Phellinus linteus and Related species
... pini, P. chrysoloma. P. linteus and P. baumii, which were used mainly in traditional medicine, belong to the same group, but exactly speaking both were split into two different subgroups. To detect P. linteus only, we ...
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The CRISPR Spacer Space Is Dominated by Sequences from Species Specific Mobilomes
... tary sequences in the target DNA and stimulates (primes) acquisition of new spacers without causing cleavage of the ...(32). From the evolutionary standpoint, both the requirement for only partial ...
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Identification of Mycobacterium Species by secA1 Sequences
... Mycobacterium species have not been studied ...every species sequenced, with the exception of ...the species studied (Table 1). A 700-bp section of secA1 was amplified from 29 Mycobacterium ...
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Inferring phylogenies of evolving sequences without multiple sequence alignment
... contain partial and/or fragmented sequences (Supplementary ...of alignment-free methods more than that of MSA-based approach in recovering accurate ...our alignment-free approach across these ...
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Robust Canonical Time Warping for the Alignment of Grossly Corrupted Sequences
... Temporal alignment of human behaviour from visual data is a very challenging problem due to a numerous rea- sons, including possible large temporal scale differences, inter/intra subject variability and, ...
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Phylogenetic Analysis and PCR Restriction Fragment Length Polymorphism Identification of Campylobacter Species Based on Partial groEL Gene Sequences
... the partial groEL ...Campylobacter species and/or isolates can easily be obtained and evaluated against known ...for species identification, whereas three primer pairs (or four primer pairs for ...
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TranslatorX: multiple alignment of nucleotide sequences guided by amino acid translations
... each species, or using a predefined text file that can be copied and pasted or uploaded from ...each species is the name of the taxon (or sequence) plus the index of the corresponding genetic code ...
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NucAmino: a nucleotide to amino acid alignment optimized for virus gene sequences
... local alignment of a nucleo- tide sequence to a reference amino acid sequence using an amino acid substitution matrix, partial scores for co- dons containing ambiguous IUPAC nucleotides, and a positional ...
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Whole Genome Sequences of 23 Species from the Drosophila montium Species Group (Diptera: Drosophilidae): A Resource for Testing Evolutionary Hypotheses.
... to alignment error, especially for small features such as transcription factor binding sites (Stark et ...2) species are closely related enough such that sequence similarity produces accurate alignments, ...
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Most partial domains in proteins are alignment and annotation artifacts
... We suggest that genuine structural partials can be inferred based on two criteria: (1) evolutionary mobil- ity, where the same domain is found in different protein contexts, and (2) structural compactness. However, all ...
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Species Specificity of Macaque Rhadinovirus Glycoprotein B Sequences
... fragments from RFHVMm and RFHVMn in our analysis ...RRV26-95 partial DNA pol and gB se- quences, it has been suggested that RFHV and macaque rhadi- noviruses constitute independent phylogenetic branches and ...
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PCR amplification and comparison of nucleotide sequences from the groESL heat shock operon of Ehrlichia species
... samples from which we initially extracted DNA for amplification of groESL sequences are listed in Table ...least partial nucleotide sequencing of the PCR products were performed with all blood and ...
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A New Algorithm for the Alignment of Phonetic Sequences
... After discussing various approaches to pho- netic alignment, I present a new algorithm that com- bines a number of techniques developed for se- quence comparison with a sco[r] ...
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Efficient Alignment of Very Long Sequences
... We emphasize that the described cache model is a very simplified model. In practice, modern computers commonly have two or three levels of cache and em- ploy sophisticated adaptive cache replacement strategies rather ...
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Identification of Escherichia coli and Shigella Species from Whole Genome Sequences
... The MLST analysis orientated the isolate in the phylogeny and facilitated the selection of the most appropriate reference genome prior to the highly discriminatory SNP typing analysis. A kmer (a short string of DNA of ...
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Clustering and Alignment of Polymorphic Sequences for HLA-DRB1 Genotyping
... iterations from 5 to 60 ...resulted from a decreased number of sensitivity errors occurring when a genotype determined as heterozygous via the SSO approach was reported as homozygous during CAPSeq analysis ...
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Improving performance of BWA alignment of short sequences with coroutines
... 3.2 Fibers / Coroutines Fibers and coroutines are non-preemptive lightweight units of execution, as opposed to preemptively scheduled threads, which are managed by the operating system scheduler. Instead, for coroutines ...
Alignment of helical membrane protein sequences using AlignMe
... sequence alignment methods have been designed specifically for integral membrane proteins, even though these important proteins have distinct evolutionary and structural properties that might affect their ...
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ELIMINATE DUPLICATE URLs USING MULTIPLE ALIGNMENT OF SEQUENCES
... cost from the available training ...rules from pairs of duplicate ...rules from few training examples, taking maximum advantage, without sacrificing the detection of DUST across different ...
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