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FONZIE for Windows 7 - Find markers with with this tool - Windows 7 Download

FONZIE Windows 7

FONZIE 12.2010

Created for the genetic cartography speciality

FONZIE is a bioinformatic tool written in Python developed for the genetic cartography speciality. FONZIE allow as well to find markers on a set of sequences than to find associate oligonucleotides.

FONZIE 12.2010 full details

File Size: 10 kB
License: Open Source
Price: FREE
Released: 2011-08-30
Downloads: Total: 24 | This Month: 0
Publisher: Jonathan Grandaubert
Publisher URL: http://sourceforge.net/projects/fonzie-jgpb/


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FONZIE windows 7 compatible

FONZIE 12.2010 full description

FONZIE was designed to successively 1) perform a search for markers via the external software Tandem Repeat Finder, 2) exclude user-defined specific genomic regions, 3) screen for the size and the percent matches of each relevant marker found by Tandem Repeat Finder, 4) evaluate marker specificity (i.e., occurrence of the marker as a single copy in the genome) using BLAST2.0, 5) design minisatellite primer pairs via the external software Primer3, and 6) check the specificity of each final PCR product by BLAST.

A final file returns to users all the results required to amplify markers. A biological validation of the approach was performed using the whole genome sequence of the phytopathogenic fungus Leptosphaeria maculans, showing that more than 90% of the minisatellite primer pairs generated by the pipeline amplified a PCR product, 44.8% of which showed agarose-gel resolvable polymorphism between isolates. Segregation analyses confirmed that the polymorphic minisatellites corresponded to single-locus markers.

FONZIE 12.2010 download tags

marker finder find marker genetic cartography marker genetics cartography
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