 | PHIRESearches on bacteriophage genome sequences for blocks that display sequence similarity. |
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PHIRE Ranking & Summary
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- License:
- Freeware
- Publisher Name:
- Katholieke Universiteit Leuven
- Operating Systems:
- Windows All
- File Size:
- 4.2 MB
PHIRE Tags
- searcher color similarity similarity Salient Variable Similarity Genome Browser Annotate Genome Visualize Genome Genome view similarity display image sequence search genome sequence genome sequence searcher find genome sequence bacteriophage analyze genome genome analysis view multiple genome search genome view genome sequence genome sequence viewer display genome sequence view genome data browse genome view genome genome language text similarity algorithm prokaryotic genome Arabidopsis genome analysis view Arabidopsis genome analyze Arabidopsis genome analyze bacterial genome Genome visualization Genome Viewer genome-wide association similarity sort Sequence Similarity compare genome sequence genome sequence comparison genome sequence UCSC genome browser track view genome file display genome data bacterial genome sequence Genome Explorer microbial genome characterize genome genome characterization view bacterial genome image similarity similarity percentage visual similarity
PHIRE Description
The PHIRE program, a standalone program in Visual Basic, performs an algorithmic string-based search on bacteriophage genome sequences, discovering and extracting blocks displaying sequence similarity, corresponding to conserved regulatory elements contained within these genomes in a systematic manner, without any prior experimental or predictive knowledge. PHIRE systematically compares all the DNA substrings of a specified length (L) to one another, allowing a limited number of mismatches (degeneracy D) to sort out and extract the largest sets (DominantNum) of substrings that represent a unique consensus. This way, the entire genome will be analysed on the Watson and crick DNA strand as well. In order to visualize the sequences around the consensus sequence, the window size (W) can be adapted to include the sequences left and right of each selected DNA individual string.
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