LOCAL BLAST evalue problem

Hello, I am using local blastx and giving cut off e value of 1.0e-5, but still e value more than 1 is appearing in result.Any suggestions are welcome.

blastx -query /home/manish/ncbi/query/SR51.fasta -db /home/manish/ncbi/DB/plazapro2/plazapro2 -out SR51.txt -evalue 1.0e-5 -outfmt 6 -max_target_seqs 2
I have tried evalue limit as `0.0001, still problem remains the same.

regards Rahul

blast ngs

• 3,670 views • link

updated 9.1 years ago by theobroma22

• written 9.1 years ago by Rahul •

1 answer

Try: 1e-5, if not, for some reason that option may not be available for your blastx search...it could be a bug so contact the help desk.

• 0 views • link

written 9.1 years ago by theobroma22

More posts like this

Blastx -max_target_seqs
written 2.6 years ago by sansan •

Hello everyone, I want to annotate a transcriptome that I assemble de novo following the Trinotate workflow, however, I am not clear about the -max_target_seqs …
Blast in parallel with edible outfmt
written 5.5 years ago by K.Gee •

Hello Biostars I know that I can run blast with with "edible" output by using this command: blastp -query -FASTA.faa - db MYDATABASE -evalue 1e-5 …
Blastx against nr for plants
written 5.8 years ago by m.s_tabatabaei •

Hi every one, I run the Blastx aginst nr using this commend line " blastx -db blastdb_Nr/Blast_Nr -query Query -taxidlist 33090.txids -evalue 1.0e-5 -num_threads 23 …
How to get 1 top hit only for each query in blastx
written 6.5 years ago by 2822462298 •

I am running blastx using the following command: blastx -query CDS.fa -db local_path_nr -num_threads 36 -evalue 1e-5 -outfmt 6 -max_target_seqs 1 -out CDS_blast.txt I aim …
Local protein BLAST not working
written 6.9 years ago by lisa96.barel •

I am trying to run a pblast locally. I have downloaded all the nr files from NCBI in a file with the following directory: '/home/lisa/Documents/nr' …
Swissprot db annotate error
written 8.3 years ago by worarado.kan •

Hello everyone, I'm running Trinity data with swissprot db using linux base. I already install and get file **pin,phr,psq, psi.** I used this command; $ …
Command line blast database
written 8.3 years ago by worarado.kan •

Dear all, I'm new for rna-seq . I have simple question. I have a local nr database formatted for blast, with makeblastdb but I'm not …
Blast Error: Tax database file not found
written 12.1 years ago by navillusol858 •

Hello, I am running this command for a blast search. blastx -query Ndiv_cap300.fasta -out Ndiv_run -outfmt 7 -db nr -num_threads 32 -evalue 1e-3 -max_target_seqs 5 …
For Loop Is Not Working Within My Script
written 13.4 years ago by federico.gaiti

Hi all I made a script in bash that run blastx. ``` #!/bin/sh -l # $Id: Barrine.sh federicogaiti $ echo "Right now it is:" date …
Help For Blastx, No Output Untill The Program Finished
written 14.0 years ago by zhangmin8712 •

<p>I have run blastx program agaist NR with about 50,000 sequences locally. I am confused the xml file is empty, but the blastx program is …