Skip to main content
SIMRbase Genome
SIMRbase: Petromyzon marinus
SIMRbase: The Place for Genomes
Home
Organisms
Petromyzon marinus
Organism Dashboard
Browse Genome
Curate Gene Models
Tools
BLAST
blastx
tblastn
blastp
blastn
Search Genes
Retrieve Genes
Browse Genomes
Nucleotide to Protein BLAST (blastx)
Request a New BLAST
Enter
Nucleotide
Query Sequence
Enter one or more queries in the top text box or use the browse button to upload a file from your local disk. The file may contain a single sequence or a list of sequences. In both cases, the data must be in
FASTA format
.
Show an Example Sequence
Enter FASTA sequence(s)
Enter query sequence(s) in the text area.
Or upload your own query FASTA:
The file should be a plain-text FASTA (.fasta, .fna, .fa, .fas) file. In other words, it cannot have formatting as is the case with MS Word (.doc, .docx) or Rich Text Format (.rtf). It cannot be greater than
2MB
in size.
Don't forget to press the Upload button before attempting to submit your BLAST.
Choose Search Target
Choose from one of the
protein
BLAST databases listed below.
Protein
BLAST Databases:
Select a Dataset
Petromyzon marinus (Sea Lamprey) PMZ_v3.1 Proteins
Advanced Options
General parameters
Max target sequences:
1
10
50
100
250
500
1000
5000
10000
20000
Select the maximum number of aligned sequences to display
Max HSP Alignments
1
5
10
100
Select the maximum number of HSP alignments per target sequence to show results for.
e-Value (Expected Threshold)
Expected number of chance matches in a random model. This number should be give in a decimal format.
More Information
|
Expect value vedio tutorial
Word size:
3
6
The length of the seed that initiates an alignment
Scoring parameters
Matrix
PAM30
PAM70
PAM250
BLOSUM80
BLOSUM62
BLOSUM45
BLOSUM50
BLOSUM90
Assigns a score for aligning pairs of residues, and determines overall alignment score..
