ALIGN: Pairwise Alignment
Version 2.0
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References
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General Informations
E-Mail address
Name of alignment
(optional)
E-mail notification of results
Sequences
Target
(FASTA format)
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Upload a FASTA file:
Template
(FASTA format)
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Upload a FASTA file:
Select a valid
PDB ID
:
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file
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Alignment options
Alignment type
sequence to sequence
profile to sequence
profile to profile
Weighting scheme
No weighting scheme
Henikoff
PSIC
SeqDivergence
Scoring Function
CrossProduct
LogAverage
DotPFreq
DotPOdds
EDistance
Pearson
JensenShannon
AtchleyDistance
AtchleyCorrelation
Alignment algorithm
local
global
freeshift
Sub-optimal alignments
Substitution Matrix
BLOSUM62
BLOSUM45
BLOSUM50
BLOSUM80
Gap function
AGP
VGP
VGP2
Gap open
Gap extension
Weight for helical content
Weight for strand content
Weight for solvent accessibility
Weight for backbone straightness
Weight for space proximity
Structural information
No sec structure
Sec structure (FASTA format)
Sec structure (SS2 format)
Sec structure with solvent acc(PROF format)
Coefficient for sequence alignment
Coefficient for structural alignent