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== | |||
* | *'''N''' Any nucleotide (A or C or G or T or U) | ||
*'''R''' Purine (A or G) | |||
*'''Y''' Pyrimidine (T or C) | |||
*'''K''' Keto (G or T) | |||
* | *'''M''' Amino (A or C) | ||
*'''S''' Strong interaction (3 H bonds) (G or C) | |||
*Pyrimidine (T or C) | *'''W''' Weak interaction (2 H bonds) (A or T) | ||
*Keto (G or T) | *'''B''' Not A (C or G or T) | ||
*Amino (A or C) | *'''D''' Not C (A or G or T) | ||
*Strong interaction (3 H bonds) (G or C) | *'''H''' Not G (A or C or T) | ||
*Weak interaction (2 H bonds) (A or T) | *'''V''' Not T or U (A or C or G) | ||
*Not A (C or G or T) | |||
*Not C (A or G or T) | |||
*Not G (A or C or T) | |||
*Not T or U (A or C or G) | |||
*''' | ==Not ambiguous== | ||
* '''A''' Adenosine | |||
* '''C''' Cytidine | |||
*'''G''' Guanine | |||
*'''T''' Thymidine | |||
*'''U''' Uridine (if 'Alphabet' set to 'RNA') | |||
Latest revision as of 23:09, 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
- N Any nucleotide (A or C or G or T or U)
- R Purine (A or G)
- Y Pyrimidine (T or C)
- K Keto (G or T)
- M Amino (A or C)
- S Strong interaction (3 H bonds) (G or C)
- W Weak interaction (2 H bonds) (A or T)
- B Not A (C or G or T)
- D Not C (A or G or T)
- H Not G (A or C or T)
- V Not T or U (A or C or G)
Not ambiguous
- A Adenosine
- C Cytidine
- G Guanine
- T Thymidine
- U Uridine (if 'Alphabet' set to 'RNA')