BLAST

Overview

BLAST: In bioinformatics, BLAST is an algorithm and program for comparing primary biological sequence information, such as the amino-acid sequences of proteins or the nucleotides of DNA and/or RNA sequences.

Using

Use the module name blast-plus to discover versions available and to load the application.

Multicore

Some of the suite of tools can be used across multicores. Look at the help for each command to identify what it can do. For example look at blastp -help for the -num_threads option.

Blast Database

  • ARCC has a version of the related BLAST database installed on Teton and WilidIirs that is configured so that blast knows where to look for it (so you don't have to worry about this).

  • Due to the reasonably dynamic nature of this database, ARCC does have a method to update this database on request.

Here is a list of the current databases on the various clusters:

Teton

WildIris

Teton

WildIris

Last updated: 20210422

Last updated: 20220312

Connected to NCBI 16S_ribosomal_RNA 18S_fungal_sequences 28S_fungal_sequences Betacoronavirus ITS_RefSeq_Fungi ITS_eukaryote_sequences LSU_eukaryote_rRNA LSU_prokaryote_rRNA SSU_eukaryote_rRNA cdd_delta env_nr env_nt human_genome landmark mito mouse_genome nr nt pataa patnt pdbaa pdbnt ref_euk_rep_genomes ref_prok_rep_genomes ref_viroids_rep_genomes ref_viruses_rep_genomes refseq_protein refseq_rna refseq_select_prot refseq_select_rna swissprot taxdb tsa_nr tsa_nt
Connected to NCBI 16S_ribosomal_RNA 18S_fungal_sequences 28S_fungal_sequences Betacoronavirus ITS_RefSeq_Fungi ITS_eukaryote_sequences LSU_eukaryote_rRNA LSU_prokaryote_rRNA SSU_eukaryote_rRNA env_nt env_nr human_genome landmark mito mouse_genome nr nt pataa patnt pdbaa pdbnt ref_euk_rep_genomes ref_prok_rep_genomes ref_viroids_rep_genomes ref_viruses_rep_genomes refseq_select_rna refseq_select_prot refseq_protein refseq_rna swissprot tsa_nr tsa_nt taxdb

Version: 2.6.10

Since the last update of the database, version 2.6.0 is no longer compatible with this database. If you try running blastp with this version, you will see the following error message:

BLAST Database error: Error: Not a valid version 4 database.