Blast Search
Database:
Full length sequences
Predicted nucleotide sequences
Predicted translated sequences
Search program:
BLASTN (search nucleotide databases using a nucleotide query.)
BLASTP (search protein databases using a protein query.)
BLASTX (search protein databases using a translated nucleotide query.)
TBLASTN (search translated nucleotide databases using a protein query.)
TBLASTX (search translated nucleotide databases using a translated nucleotide query.)
Query sequence: (FASTA format recommended)
Or load it from disk
Advanced settings:
The query sequence is filtered for low complexity regions by default.
Filter Low complexity Mask for lookup table only

Expect    Matrix Perform ungapped alignment

Query Genetic Codes (blastx only)

Database Genetic Codes (tblast[nx] only)

Frame shift penalty for blastx

Other advanced options:     

Graphical Overview    Alignment view
Descriptions    Alignments Color schema