Note:This
table is identical to PHYLIP's translation table.
Character |
Translation |
A |
Alanine (Ala) |
C |
Cysteine (Cys) |
D |
Aspartic Acid (Asp) |
E |
Glutamin Acid (Glu) |
F |
Phenylalanine (Phe) |
G |
Glycine (Gly) |
H |
Histidine (His) |
I |
Isoleucine (Ile) |
K |
Lysine (Lys) |
L |
Leucine (Leu) |
M |
Methionine (Met) |
N |
Asparagine (Asn) |
P |
Proline (Pro) |
Q |
Glutamine (Gln) |
R |
Arginine (Arg) |
S |
Serine (Ser) |
T |
Threonine (Thr) |
V |
Valine (Val) |
W |
Tryptophan (Trp) |
Y |
Tyrosine (Tyr) |
B |
D or N (Asn or Asp) |
Z |
E or Q (Gln or Glu) |
X,? |
Unknown amino acid (any of the 20) |
- |
Skipped or unknown (see
Deletions and Ambiguities) |
. |
For sequential file formats is interpreted
as '?'. For interleaved formats singnals that '.' should be replaced
with the character at the same position in the first sequence. |
HYPHY
provides means for defining custom alphabets and translations.
In particular, HYPHY recognizes relevant NEXUS blocks.
However one must be careful with custom alphabets since they
may require model redefinitions.
|