gene plot frankia acn vs frankia cci3
DESCRIPTION
Gene plot Frankia ACN vs Frankia CCI3. More info on these strains at - PowerPoint PPT PresentationTRANSCRIPT
![Page 1: Gene plot Frankia ACN vs Frankia CCI3](https://reader036.vdocument.in/reader036/viewer/2022062323/568158c7550346895dc6100a/html5/thumbnails/1.jpg)
Gene plotFrankia ACN vs Frankia CCI3
More info on these strains at
Philippe Normand, Pascal Lapierre, Louis S. Tisa, Johann Peter Gogarten, Nicole Alloisio, Emilie Bagnarol, Carla A. Bassi, Alison M. Berry, Derek M. Bickhart, Nathalie Choisne, Arnaud Couloux, Benoit Cournoyer, Stephane Cruveiller, Vincent Daubin, Nadia Demange, Maria Pilar Francino, Eugene Goltsman, Ying Huang, Olga R. Kopp, Laurent Labarre, Alla Lapidus, Celine Lavire, Joelle Marechal, Michele Martinez, Juliana E. Mastronunzio, Beth C. Mullin, James Niemann, Pierre Pujic, Tania Rawnsley, Zoe Rouy, Chantal Schenowitz, Anita Sellstedt, Fernando Tavares, Jeffrey P. Tomkins, David Vallenet, Claudio Valverde, Luis G. Wall, Ying Wang, Claudine Medigue, and David R. Benson (2007):Genome characteristics of facultatively symbiotic Frankia sp. strains reflect host range and host plant biogeography.Genome Research 17: 7-15
![Page 2: Gene plot Frankia ACN vs Frankia CCI3](https://reader036.vdocument.in/reader036/viewer/2022062323/568158c7550346895dc6100a/html5/thumbnails/2.jpg)
Part of Perl script to keep only top scoring blast hit for each query
![Page 3: Gene plot Frankia ACN vs Frankia CCI3](https://reader036.vdocument.in/reader036/viewer/2022062323/568158c7550346895dc6100a/html5/thumbnails/3.jpg)
Part of the Frankia CCI3 ptt file
![Page 4: Gene plot Frankia ACN vs Frankia CCI3](https://reader036.vdocument.in/reader036/viewer/2022062323/568158c7550346895dc6100a/html5/thumbnails/4.jpg)
Part of the Frankia CCI3 ptt fileThis time in MSWord, with tabs set so it aligns nicely – note the non printing characters in blue
![Page 5: Gene plot Frankia ACN vs Frankia CCI3](https://reader036.vdocument.in/reader036/viewer/2022062323/568158c7550346895dc6100a/html5/thumbnails/5.jpg)
Add numbers to faa file – scriptRead header of table
![Page 6: Gene plot Frankia ACN vs Frankia CCI3](https://reader036.vdocument.in/reader036/viewer/2022062323/568158c7550346895dc6100a/html5/thumbnails/6.jpg)
Add numbers to faa file –scriptRead table to hash
$part[3] contains the GI number
![Page 7: Gene plot Frankia ACN vs Frankia CCI3](https://reader036.vdocument.in/reader036/viewer/2022062323/568158c7550346895dc6100a/html5/thumbnails/7.jpg)
Add numbers to faa file –scriptRead, modify, write faa file
![Page 8: Gene plot Frankia ACN vs Frankia CCI3](https://reader036.vdocument.in/reader036/viewer/2022062323/568158c7550346895dc6100a/html5/thumbnails/8.jpg)
Plot blast.out
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Location of blast hits in the two genomes E-value <10^-24:
![Page 10: Gene plot Frankia ACN vs Frankia CCI3](https://reader036.vdocument.in/reader036/viewer/2022062323/568158c7550346895dc6100a/html5/thumbnails/10.jpg)
Plot blast.out and blast.out.top
#Note: gnuplot only runs on master node
![Page 11: Gene plot Frankia ACN vs Frankia CCI3](https://reader036.vdocument.in/reader036/viewer/2022062323/568158c7550346895dc6100a/html5/thumbnails/11.jpg)
Location of all blast hits in the two genomes and location of all top scoring blast hits in the two genomes E-value <10^-24:
![Page 12: Gene plot Frankia ACN vs Frankia CCI3](https://reader036.vdocument.in/reader036/viewer/2022062323/568158c7550346895dc6100a/html5/thumbnails/12.jpg)
Location of all blast hits in the two genomes and location of all top scoring blast hits in the two genomes E-value <10^-50:
![Page 13: Gene plot Frankia ACN vs Frankia CCI3](https://reader036.vdocument.in/reader036/viewer/2022062323/568158c7550346895dc6100a/html5/thumbnails/13.jpg)
Location of all blast hits in the two genomes and location of all top scoring blast hits in the two genomes E-value <10^-7: