Genome Analysis Software Site

in silico biology, inc.

IMC E04T02 Auto Creation of Blast Database When Loading Genome Sequence Files

  1. When loading the base sequence file into the current reference directory, the base sequence database for Blast search is automatically generated.
  2. If the sequence to be loaded is a genomic sequence file CDS is identified and if there is amino acid translation for each CDS, an amino acid sequence search database is generated at the same time.
  3. In IMCGE, AE, and DS, multiple genome sequences can be loaded simultaneously into the current reference directory, so multiple Blast search databases are generated at the same time.
  4. The timing for generating the Blast search database is when the new base sequence file is loaded into the current reference directory and when the current reference directory is changed.
  5. The database of the array which was the current until then is automatically deleted.
  6. It loads a base sequence file into the current reference directory and automatically generates its base sequence database and amino acid sequence database.
  7. Make the reference directory that is not the current directory the current reference directory.
  8. Right click on that directory. The menu will be displayed.
  9. Select "Change Current Directory" from the menu.
  10. A confirmation message "Change Current Directory?" Is displayed.
  11. Click "Yes (Y)". Click "Yes (Y)".
  12. A directory change will be executed and a green C icon will be displayed in that directory as it completes.
  13. Load the genomic sequence into the current reference directory.
  14. From the menu click File -> Load Sequences to MGV.
  15. The file selection dialog is displayed.
  16. To use sample array data, select NC_000964.gbk from My Documents> imc_xx> seq> Bacillus subtilis.
  17. The above genomic base sequence file is loaded into the current reference directory.
  18. From the menu click File -> Create Blast DB ....
  19. The "Blast DB List" dialog is displayed.
  20. Two of them are NC - 000964.gbk, and Type is indicated as NA - REF and AA - REF.
  21. This shows that two types of Blast search databases are generated from the loaded genomic sequence and are automatically registered as a base sequence database and as an amino acid sequence database.

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