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Multiple Sequence Alignment using Clustalw

(sequences hyperlinked to Motif program at GenomeNet In Japan)

HELP!!
Please input the sequences to be aligned in FASTA format

Pairwise alignment speed
Reset gap alignments


Note: Click here for information on the parameters

Pairwise Alignment Parameters

Slow/Accurate alignaments:
Gap open penalty
Gap extension penalty

Protein weight matrix :
BLOSUM30 PAM350 IDENTITY MATRIX

Fast/Approximate alignments:
Gap penalty
K-tuple (word) size
No. of top diagonals
Window size
Pairwise alignment speed

Multiple Alignment Parameters

Gap open penalty
Gap extension penality
Delay divergent sequences
Toggle Transitions (DNA)

Protein Weight Matrix :
BLOSUM series PAM350 IDENTITY MATRIX

Use negative Matrix

Format Of Alignment Output

CLUSTAL format output
NBRF/PIR format output
GCG/MSF format output
PHYLIP format output
GDE format output

Protein Gap Parameters

Toggle Residue-Specific Penalties
Toggle Hydrophilic Penalties
Hydrophilic Residues
Gap Separation Distance
Toggle End Gap Separation
Last updated
accesses since 5th June 1996.