TCOFFEE::Advanced

Computes a multiple sequence alignment of DNA, RNA or Protein sequences along with the associated phylogenetic tree. The advanced server can combine homology and structural templates with various public alignment methods.

Limitations: Maximum number of sequences is 50
Limitations: Maximum length of sequences is 2000

switch to TCOFFEE :: Regular  Sequence Input switch to TCOFFEE :: Advanced
Paste or upload your set of sequences in FASTA format and Press the SUBMIT button [Sample_File].
Upload File  
or paste data

switch to TCOFFEE :: Regular  Computation Mode switch to TCOFFEE :: Advanced
regular: regular T-Coffee.
expresso: structural extension (E-mail recommended).
rcoffee: RNA secondary structure extension (E-mail recommended).
Computation_mode

switch to TCOFFEE :: Regular  Methods switch to TCOFFEE :: Advanced
Tcoffee produces an alignment by combining the output of several alignment methods. Use this section to select the individual methods.
Pairwise Methods
best_pair4protfast_pairclustalw_pair
lalign_id_pairslow_pairproba_pair
Pairwise Structural
Methods [Proteins]
sap_pairfugue_pairTMalign_pairmustang_pair
Multiple Methods
pcma_msamafft_msaclustalw_msadialigntx_msa
poa_msamuscle_msaprobcons_msat_coffee_msa

switch to TCOFFEE :: Regular  Structures switch to TCOFFEE :: Advanced
Use this section to Upload and Incorporate Protein PDB structures in your Multiple Sequence Alignment.
PDB File
PDB File
PDB File
PDB File
PDB File

switch to TCOFFEE :: Regular  Output switch to TCOFFEE :: Advanced
Use this section to control the Output Format.
Alignment Format
clustalw_alnpir_alnpir_seqscore_pdf
gcgfasta_alnfasta_seqscore_ascii
msf_alnphylipscore_html
Case
Residue Number
Order
You may paste your e-mail address: