Clustalw
YOUR EMAIL
ALIGNMENT TITLE
RESULTS
ALIGNMENT
OUTPUT
FORMAT
OUTPUT
ORDER
interactive
full
fast
aln w/numbers
aln wo/numbers
gcg MSF
phylip
pir
gde
aligned
input
COLOR
ALIGNMENT
KTUP
(WORD SIZE)
WINDOW LENGTH
SCORE TYPE
TOPDIAG
PAIRGAP
no
yes
def
1
2
3
4
5
def
10
9
8
7
6
5
4
3
2
1
0
percent
absolute
def
10
9
8
7
6
5
4
3
2
1
def
1
2
3
4
5
10
25
50
100
250
500
PHYLOGENETIC
TREE
MATRIX
GAP OPEN
END GAPS
GAP EXTENSION
GAP DISTANCES
TREE TYPE
none
nj
phylip
dist
CORRECT DIST.
off
on
IGNORE GAPS
off
on
def
blosum
pam
md
id
def
100
50
25
10
5
2
1
def
10
20
def
0.05
0.5
1.0
2.5
5.0
7.5
10.0
def
10
9
8
7
6
5
4
3
2
1
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