HCV Database
HCV sequence database

To our users Please note that the HCV database site is no longer funded. We try to keep the database updated and the tools running, but unfortunately, we cannot guarantee we can provide help for using this site. Data won't be manually curated either.

Codes and Symbols in Sequence Alignments

This page decodes the symbols you may find in your sequences and alignments. We also provide a Codon Table for translating nucleotides into amino acids.

Symbols in Sequences

Symbol       Meaning
#            frameshift
?            position where no majority-rule consensus could be made
X            amino acid position where an IUPAC nucleotide prevented translation
*            stop codon
$            stop codon


IUPAC Nucleotide Ambiguity Codes

Symbol       Meaning      Nucleic Acid
A            A           Adenine
C            C           Cytosine
G            G           Guanine
T            T           Thymine
U            U           Uracil
M          A or C
R          A or G
W          A or T
S          C or G
Y          C or T
K          G or T
V        A or C or G
H        A or C or T
D        A or G or T
B        C or G or T
X      G or A or T or C
N      G or A or T or C


Cornish-Bowden (1985) IUPAC-IUB SYMBOLS FOR NUCLEOTIDE NOMENCLATURE. Nucl. Acids Res. 13: 3021-3030.


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