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SPInDel workbench

By GEPO Free

Key Details of SPInDel workbench

  • Acquire a method for species identification in all domains of life using multiplex analysis
  • Last updated on 05/28/20
  • There has been 1 update within the past 6 months
  • The current version has 0 flags on VirusTotal badge_icon

Developer's Description

The SPInDel is an alternative approach for biological identification based on the length of ribosomal RNA (rRNA) gene regions. In general, alignments of primary rRNA gene sequences from different species show alternating regions of nucleotide conservation and variation, both in terms of nucleotide substitutions (commonly called "SNPs") and insertion/deletion (indel) events. The presence of indels results in sequences of different lengths and introduces gaps in the alignment, typically denoted by a dash "-".
Our concept for biological identification uses rRNA gene sequences as follows: conserved regions are used to define variable segments ("SPInDel hypervariable regions") in which a combination of sequence lengths is characteristic of each species (a "SPInDel profile"). Thus, each species can be defined by a unique numeric profile.
In theory, a survey of just 6 hypervariable regions with 20 alleles each (or 11 regions with 5 alleles each) is enough to discriminate all eukaryotic species on Earth, which are estimated to be between 5 and 15 million in number. In practice, SPInDel is able to discriminate 93.3% of eukaryotic species with low intraspecific variation and high phylogenetic resolution.

Full Specifications

What's new in version 1.3

General

Release May 28, 2020
Date Added May 28, 2020
Version 1.3

Operating Systems

Operating Systems Windows 10, Windows 8, Windows Vista, Windows, Windows 7, Windows XP
Additional Requirements None

Popularity

Total Downloads 64
Downloads Last Week 0
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