blastn
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Blastn Command: Align Sequences Using Blastn
Use for align sequences using blastn with Blastn. Exact CLI syntax to align sequences using blastn using Blastn.
When to use this: Use for align sequences using blastn with Blastn.
Command Syntax
blastn -task blastn -query <query.fa> -subject <subject.fa>blastn -task blastn -query <query.fa> -subject <subject.fa>Live Command Builder
Final Command
blastn -task blastn -query <query.fa> -subject <subject.fa> Command Breakdown
-task- Command Option
- Tool-specific option used by this command invocation.
-query- Command Option
- Tool-specific option used by this command invocation.
-subject- Command Option
- Tool-specific option used by this command invocation.
FAQ
Purpose: Exact syntax to align sequences using blastn using Blastn.
Test path: Replace placeholders and run destructive commands in a disposable workspace first.
Flag behavior: Tool version, platform, and shell can change behavior.
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Related Operations
Blastn Command: Align Sequences Custom Tabular Output
blastn -query <query.fa> -subject <subject.fa> -outfmt '<6 qseqid qlen qstart qend sseqid slen sstart send bitscore evalue pident>' -out <output.tsv> Blastn Command: Align Sequences Megablast Default Output blastn -query <query.fa> -subject <subject.fa> -evalue <1e-9> Blastn Command: Display Help For Blastn blastn -h Blastn Command: Search Nucleotide Database With Threads blastn -query <query.fa> -db <path/to/blast_db> -num_threads <16> -max_target_seqs <10> Blastn Command: Search Remote Non Redundant Database blastn -query <query.fa> -db <nt> -remote