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[ Bron: epcr  ]

Pakket: ncbi-epcr (2.3.12-1-9)

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Tool to test a DNA sequence for the presence of sequence tagged sites

Electronic PCR (e-PCR) is computational procedure that is used to identify sequence tagged sites(STSs), within DNA sequences. e-PCR looks for potential STSs in DNA sequences by searching for subsequences that closely match the PCR primers and have the correct order, orientation, and spacing that could represent the PCR primers used to generate known STSs.

The new version of e-PCR implements a fuzzy matching strategy. To reduce likelihood that a true STS will be missed due to mismatches, multiple discontiguous words may be used instead of a single exact word. Each of this word has groups of significant positions separated by 'wildcard' positions that are not required to match. In addition, it is also possible to allow gaps in the primer alignments.

The main motivation for implementing reverse searching (called Reverse e-PCR) was to make it feasible to search the human genome sequence and other large genomes. The new version of e-PCR provides a search mode using a query sequence against a sequence database.

This program is retired upstream and it is suggested to use Primer-Blast

 https://www.ncbi.nlm.nih.gov/tools/primer-blast/
instead.

Tags: Field: Biology, Bioinformatics, Implemented in: implemented-in::c++, interface::commandline, Role: Program, Scope: Utility, Purpose: use::checking, use::searching, Supports Format: Plain Text, Works with: Need an extra tag

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Pakket downloaden voor alle beschikbare platforms
Platform Pakketgrootte Geïnstalleerde grootte Bestanden
amd64 164,4 kB496,0 kB [overzicht]
arm64 153,9 kB460,0 kB [overzicht]
armel 143,5 kB416,0 kB [overzicht]
armhf 144,3 kB332,0 kB [overzicht]
i386 172,0 kB512,0 kB [overzicht]
mips64el 162,7 kB594,0 kB [overzicht]
mipsel 160,7 kB542,0 kB [overzicht]
ppc64el 167,9 kB692,0 kB [overzicht]
s390x 153,5 kB496,0 kB [overzicht]