note - FIZ Karlsruhe
note - FIZ Karlsruhe
note - FIZ Karlsruhe
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Appendices<br />
II: Nucleotide Codes<br />
The following table lists the symbols and ambiguity codes for nucleotides according to the IUPAC<br />
system that may be used in DGENE nucleic acid sequence searches using RUN GETSEQ (page<br />
102). Uncommon, modified or unknown nucleotides are typically represented by the parent<br />
nucleotide or by an 'N'. Details about uncommon nucleotides in a sequence will typically be found<br />
in the feature table (FEAT).<br />
Codes Name or Definition<br />
--------- ------------------<br />
A Adenine<br />
G Guanine<br />
U Uracil<br />
R A or G<br />
S C or G<br />
K G or T/U<br />
H A, C or T/U; not G<br />
B C, G or T/U; not A<br />
C Cytosine<br />
T Thymine<br />
M A or C<br />
W A or T/U<br />
Y C or T/U<br />
V A, C or G; not T/U<br />
D A, G or T/U; not C<br />
N Unknown or Other<br />
<strong>note</strong><br />
Exact and Subsequence Searches of Nucleic Acids (/SQEN and /SQSN) both<br />
allow all codes to be used, and match the codes in the query exactly against the<br />
codes in the database.<br />
Page 126 | GENESEQ on STN (DGENE) Workshop Manual
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