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Through integrating previous interpretations with applications of sequence stratigraphy and seismic sedimentology, researchers identified lowstand meandering valleys (LMVs) in this area (Zhu 2009; Li 2011; Qian et al. 2012).
In addition to the previously demonstrated applications of sequence alignment, fold identification, template selection, and homology modeling, we demonstrate herein, application of the described PCAIN-based structure prediction methodology to derive biological insight into potential structure-function relationships of proteins with hitherto unresolved structure.
Other applications of sequence alignment require different algorithms.
Still, the applications of sequence signature methods for the comparison of metagenomic samples have not been well studied.
Traditionally, the main applications of sequence alignments have included phylogenetic tree reconstruction, Hidden Markov Modeling (profiles), secondary or tertiary structure prediction, function prediction and many minor but useful applications such as PCR primer design and data validation.
Since it was first proposed, the Z-curve has been used in many applications of sequence segmentation [ 3- 5], horizontal gene transfer detection [ 6], isochoric domain inference [ 3, 5], and sequence analysis [ 7].
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The applications of sequencing technologies on environmental microbiology can be mainly divided into target sequencing, metagenomic sequencing and single-cell genomic sequencing, according to the problems they need to be solved.
Further applications of sequencing experiments, e.g. sequencing cellular transcriptomes or experiments characterizing metagenomic samples, point to the necessity of a wider vocabulary of allele frequencies.
Still, clinical diagnostic applications of sequencing where specific clinical questions need to be answered might favor analysis of only the relevant loci at high coverage.
We find that modest applications of sequencing effort recover most of the novel sequences present in the transcriptome of this species, including single-copy loci and a representative distribution of functional groups.
The role of RNA secondary structures in the RNA interference process as well as the application of sequence rules are discussed to show the applicability of the software.
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