Copyright Notice
BLAST is a Registered Trademark of the National Library of Medicine
Bookshelf ID: NBK569852
NCBI Bookshelf. A service of the National Library of Medicine, National Institutes of Health.
BLAST® Command Line Applications User Manual [Internet]. Bethesda (MD): National Center for Biotechnology Information (US); 2008-.
Often a consensus sequence is added to a multiple sequence alignment to be used as the master sequence in a PSI-BLAST search. The consensus sequence provides a good option to display the query-subject alignment in the output and to define which MSA columns are to be converted to PSSM. At the same time adding the consensus sequence changes the statistical properties of the original alignment. To avoid this, the -ignore_msa_master option can be used:
psiblast -in_msa align1 -db pataa -ignore_msa_master
In this case the master sequence is displayed in the output but ignored when the PSSM scores are calculated.
- Ignoring the consensus sequence in the multiple sequence alignment in psiblast -...Ignoring the consensus sequence in the multiple sequence alignment in psiblast - BLAST® Command Line Applications User Manual
Your browsing activity is empty.
Activity recording is turned off.
See more...