Polish-Japanese Institute of Information Technology Silesian University of Technology 

MANUAL

Burrows-Wheeler Tandem Repeat Searcher (BWtrs) searches for the exact occurrences of tandem repetitions within DNA sequence. The application can be started on-line from here.

BWtrs accepts a DNA sequence in the FASTA format. Input sequence can be submitted in one of the following ways:

• Download from the GenBank - download a sequence from the GenBank database by its ID

• Upload from a file - upload a FASTA file from local directory

• Paste from the clipboard - cut and paste FASTA sequence

The input parameters of the application:

• Minimum motif size - the minimum length of tandem repeat's motif within the range from 2 up to the value of the maximum length parameter (default value is 3)

• Maximum motif size - the maximum length of tandem repeat's motif within the range from the value of the minimum length parameter to 100 (default value is 60)

• Minimum repeat size - the minimum total length of tandem repeat within the range from 4 to 100 (default is 9)

• Minimum repeat ratio - the minimum value of the tandem repeat's ratio within the range from 2 to 100 (default value is 3)

The button "Submit" starts the searching of the exact occurrences of tandem repetitions in the entered DNA sequence. This process can take a while, especially in case of long sequences. When the searching is finished the searching report is presented.

 
Home page | On-line application | Contact

Copyright © 2009
Polish-Japanese Institute of Information Technology
Silesian University of Technology
Bioinformatics Laboratory