Drosophila melanogaster - Tandem Repeat Analysis Protocol

Experimental procedure

1. The file d_melanogaster.fasta corresponds to the frozen data (April 15, 2004 ftp://ftp.fruitfly.org/pub/download/compressed/) of Drosophila melanogaster genome.
   
   
2. Genome sequence FASTA file Genome complexity - 118,357,599 bp
   
   
3. The file was submitted to Tandem Repeats Finder (TRF) (Benson, 1999) program using the following parameters:
   2 5 7 80 10 25 1000.
   
   
4. TRF output files were analyzed by the Tandem Repeat Analysis Program (TRAP) using the following parameters:
   • Minimum period size of repeats - 1
   • Maximum period size of repeats - 6
   • Minimum identity percentage - 80
   • Create HTML - yes
   • Sorting - according to the total number of bases
     

---