
Alphabets
- Two alphabets are allowed.
- The protein alphabet contains twenty
characters for amino acids ("ACDEFGHIKLMNPQRSTVWY"),
and is augmented by four more ambiguous characters ("BUXZ").
A alanine P proline
B aspartate or asparagine Q glutamine
C cystine R arginine
D aspartate S serine
E glutamate T threonine
F phenylalanine U any
G glycine V valine
H histidine W tryptophan
I isoleucine Y tyrosine
K lysine Z glutamate or glutamine
L leucine X any
M methionine
N asparagine
-
The four-character DNA alphabet ("ACGT") is augmented by eleven
ambiguous characters:
A --> adenosine M --> A C (amino)
C --> cytidine S --> G C (strong)
G --> guanine W --> A T (weak)
T --> thymidine B --> G T C
D --> G A T
R --> G A (purine) H --> A C T
Y --> T C (pyrimidine) V --> G C A
K --> G T (keto) N --> A G C T (any)
- Any other characters (digits, punctuation, etc.) are
illegal.
Meta-MEME program documentation
Meta-MEME home