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