Sequence Analysis

Access additional resources of interest, submitted by community members.

• BLAST
  Basic Local Alignment Tool with interfaces at:
  • DDBJ (Japan)
  • EBI BLAST
  • GenomeNet (Japan)
  • NCBI (USA)
  • Pasteur Institute (France)
• FASTA
  Implementations of FASTA (Pearson and Lipman) sequence alignment method at:
  • DDBJ (Japan)
  • EBI (UK)
• The MEME Suite
  Motif-based sequence analysis tools.
• PROSITE
  Detection of sequence patterns with interfaces at ExPASy (Switzerland).
• Smith-Waterman
  Implementations of Smith-Waterman sequence alignment at:
  • JAligner (sourceforge.net)
  • EMBOSS Water
  • University of the Basque Country

• ENDscript
  A Web server for searching homologous sequences and giving information on secondary structure elements, accessibility, hydropathy and protein-protein contacts
• ESPript
  Easy Sequencing in Postscript
  
• XtalHop
  XtalHop takes a protein amino acid sequence, searches the RCSB PDB for structural homologs via MMseqs2, extracts their crystallization conditions, and aggregates them into a consensus starting formulation