Ambiguous nucleotide: Difference between revisions
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Ambiguous nucleotides are used when the true nucleotide is unknown. The most popular one seen with high-throughput genome sequences is "N" which represents any possible nucleotide. | Ambiguous nucleotides are used when the true nucleotide is unknown. The most popular one seen with high-throughput genome sequences is "N" which represents any possible nucleotide. | ||
==Ambiguous== | |||
*Any nucleotide (A or C or G or T or U) '''N''' | *Any nucleotide (A or C or G or T or U) '''N''' | ||
*Purine (A or G) '''R''' | *Purine (A or G) '''R''' | ||
*Pyrimidine (T or C) '''Y''' | *Pyrimidine (T or C) '''Y''' | ||
| Line 17: | Line 13: | ||
*Not G (A or C or T) '''H''' | *Not G (A or C or T) '''H''' | ||
*Not T or U (A or C or G) '''V''' | *Not T or U (A or C or G) '''V''' | ||
==Not ambiguous== | |||
*Adenosine '''A''' | |||
*Cytidine '''C''' | |||
*Guanine '''G''' | |||
*Thymidine '''T''' | |||
*Uridine (if 'Alphabet' set to 'RNA') '''U''' | |||
Revision as of 23:07, 23 June 2011
Ambiguous nucleotides are used when the true nucleotide is unknown. The most popular one seen with high-throughput genome sequences is "N" which represents any possible nucleotide.
Ambiguous
- Any nucleotide (A or C or G or T or U) N
- Purine (A or G) R
- Pyrimidine (T or C) Y
- Keto (G or T) K
- Amino (A or C) M
- Strong interaction (3 H bonds) (G or C) S
- Weak interaction (2 H bonds) (A or T) W
- Not A (C or G or T) B
- Not C (A or G or T) D
- Not G (A or C or T) H
- Not T or U (A or C or G) V
Not ambiguous
- Adenosine A
- Cytidine C
- Guanine G
- Thymidine T
- Uridine (if 'Alphabet' set to 'RNA') U