Step 1

Blast input
The text field allows two input formats:

  • Non-Fasta, if the sequence code (DNA or Protein) is pasted directly into the input field.
  • Fasta format, if multiple sequences should be processed.

In the lower section of the page it is possible to refine your query by adjustment of BLAST parameters:

  • Significance
    Set an eValue threshold.
  • BLAST algorithm
    Choose between blastn, blastx and tblastx.
  • Wordsize
    Choose the initial Wordsize from 1 to 50.
  • Database
    Select if transcripts with multiple reads (contigs), singletons or both should be used as reference BLAST database.
If the sequences are provided in FASTA format, the last checkbox needs to be checked. Otherwise an error will occur!


Step 2

Blast result part 1
The upper part of the blast results provides an overview of the results.
The query sequence is visualised as a scaled arrow on top. Possible hits are displayed according to their alignment in the query sequence.


Step 3

Blast result part 2
In the second part the traditional BLAST output is shown as an overview sorted by significance. By clicking to one of the hits the corresponding db entry (single transcript overview) will be shown.



Blast result part 3
In the last part of the output, the detailed BLAST aligned for all HSP (high-scoring segment pairs) is shown.