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Search and Analysis
> ClustalW
ClustalW
Version
2.1 (Latest version)
1.83 (Modified by Dr. Kirill Kryukov)
Sequences
DNA
Protein
sequences
File Upload:
or COPY & PASTE:
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Pairwise Alignment Parameters
Alignment Type:
Slow
Fast
Slow Pairwise Alignment Options
Protein Weight Matrix
BLOSUM
PAM
Gonnet
ID
DNA Weight Matrix
IUB
ClustalW
GAP OPEN
100
50
25
10
5
2
1
GAP EXTENSION
0.05
0.1
0.5
1.0
2.5
5.0
7.5
10.0
Fast Pairwise Alignment Options
KTUP (WORD SIZE)
WINDOW LENGTH
10
9
8
7
6
5
4
3
2
1
0
SCORE TYPE
percent
absolute
TOPDIAG
10
9
8
7
6
5
4
3
2
1
PAIRGAP
1
2
3
4
5
10
25
50
100
250
500
Multiple Sequence Alignment Parameters
Protein Weight Matrix
BLOSUM
PAM
Gonnet
ID
DNA Weight Matrix
IUB
ClustalW
GAP OPEN
100
50
25
10
5
2
1
GAP EXTENSION
0.05
0.20
0.5
1.0
2.5
5.0
7.5
10.0
GAP DISTANCES
10
9
8
7
6
5
4
3
2
1
NO END GAPS
no
yes
ITERATION
none
tree
alignment
NUMITER
1
2
3
4
5
6
7
8
9
10
CLUSTERING
NJ
UPGMA
OUTPUT Options
FORMAT
ORDER
aligned
input
DOTSINOUTPUT (DDBJ original)
off
on
Making Tree Parameters
DISTANCE (DDBJ original)
TOSSGAPS
on
off
OUTPUTTREE
phylip
clustal
phylip distance
Making Bootstrap Parameters
DISTANCE (DDBJ original)
TOSSGAPS
on
off
OUTPUTTREE
phylip
clustal
COUNT
SEED
