- Advertisement -spot_img
Saturday, January 29, 2022


Sequence Analysis Tools

Pairwise Sequence Alignment

  • Needle@EBI – Needleman-Wunsch global sequence alignment tool.
  • BLAST@NCBI – Alignment tool to find regions of similarity between biological sequences.
  • Stucture Alignment – Pairwise structure alignment tool at PDB.
  • Water@EBI –  For local sequence alignment based on Smith-Waterman algorithm.
  • Dotlet@SIB – Sequence comparison with dot plot.

Multiple Sequence Alignment

  • COBALT@NCBI – Constraint-based Multiple Alignment Tool. Computes a multiple protein sequence alignment using conserved domain and local sequence similarity information.
  • Clustal Omega@EBI – Clustal Omega is a new multiple sequence alignment program that uses seeded guide trees and HMM profile-profile techniques to generate alignments.
  • Muscle@EBI – MUltiple Sequence Comparison by Log- Expectation. Multiple sequence comparison with better average accuracy and speed.
  • MAFFT@EBI – Multiple Alignment using Fast Fourier Transform. High speed multiple sequence alignment program.
  • KALIGN@EBI – A fast and accurate multiple sequence alignment algorithm.
  • T-Coffe@EBI – Multiple alignment program that allows to combine results obtained with several alignment methods.
  • STRAP – Intuitive Editor for annotated multiple Sequence and Structure Alignments
  • Weblogo – A web based application designed to easily generate sequence logos .

Sequence Similarity Search

  • NCBI – Sequence similarity seacrh programs at NCBI including PSI-BLAST and PHI-BLAST, etc.
  • EBI  – Sequence similarity search programs at EBI  including FASTA, BLAST and SSEARCH, GGSearch, GLSearch, HMMER. 
  • BLAST/BLAT@Ensembl – Sequence similarity search tool at Ensembl.
  • BLAT@UCSC – Sequence similarity search program available at UCSC genome browser.
  • Sanger BLAST – Sanger Genome Sequencing Projects BLAST.

Primer Design

  • Primer Design – The online primer design tool at BioWeb.
  • Primer Blast – NCBI primer design tool with Blast search.
  • Web Primer – Online primer design tool at the yeast genome database.

Must Read


A New Sequencing Technique Developed for Low-Biomass, Degraded, or Contaminated Microbiome Samples

A low-cost metagenome sequencing technology has been developed by scientists from the Chinese Academy of Sciences' Qingdao Institute of Bioenergy and Bioprocess Technology (QIBEBT)....

Safely Inserting Therapeutic Genes into the Human DNA

Researchers from Harvard's Wyss Institute, Harvard Medical School, and the ETH Zurich have predicted and validated genetic safe harbors for therapeutic genes, making gene...

Expanding the View of how Mutations Impact Cells with a High-throughput Approach ‘Perturb-seq’

Scientists from Broad Institute of MIT and Harvard, discovered an approach to study functional implications of the millions of mutations linked to cancer by...

EMBL’s Scientists Modeled Molecular Complexes Inside Cells at Atomic Resolution Using Modern Software and...

To better comprehend the function of cells, scientists examine how different components of a cell – from single molecules to several organelles – work...
DNA valve controlling molecular processes along DNA

‘Valves in DNA’ Created to Shape the Flow of Biological Information

New biological components developed by scientists at the University of Bristol can alter the flow of cellular activities along DNA. The scientists provide new insights...
Social Media Auto Publish Powered By : XYZScripts.com