Description
Return a DNA k-mer's reverse complement and canonical representative.
Sequence text, ambiguity codes and encoded quality scores describe different information. Literal alphabets and Phred transformations can be checked without identifying a molecule or proving calibrated sequencing accuracy; missingness and reporting encodings require explicit conventions.
Return a DNA k-mer's reverse complement and canonical representative.
When to use this tool
Use Kmer Canonical Reverse Complement Pair when checking the stated sequence token, ambiguity, quality symbol or local trimming convention.
How to use the tool and how it works
- Enter kmer. Use the units and conventions below.
- Run the tool. Correct any format, range, or cross-field input error before interpreting the output.
- Read reverseComplement, canonical, palindromic. Inspect palindromic before interpreting the associated values.
Return a DNA k-mer's reverse complement and canonical representative. Require nonempty uppercase A/C/G/T; reverse and complement, choose lexical minimum, palindromic means equality.1
| Input field | Meaning and units | Accepted input |
|---|---|---|
| kmer | Kmer | Required. Text; maximum UTF-16 length 8192. |
| Output field | Interpretation | Returned shape |
|---|---|---|
| reverseComplement | Reverse Complement | Required. Text; maximum UTF-16 length 8192. |
| canonical | Canonical | Required. Text; maximum UTF-16 length 8192. |
| palindromic | Palindromic | Required. Boolean. |
{
"input": {
"kmer": "ACG"
},
"output": {
"reverseComplement": "CGT",
"canonical": "ACG",
"palindromic": false
}
}Limitations and assumptions
- No ambiguous bases, lowercase normalization, genomic occurrence counting or strand-specific biological interpretation is provided.
- Inputs must satisfy both the field types and the cross-field conditions above. Invalid input causes an error; a successful false flag or documented placeholder is a different result.
Alternative or Complementary methods
Use a complete format-aware sequence/quality workflow and the appropriate reference/genetic code; assess biological identity and quality calibration independently.
References
Similar or alternative tools
- FASTA Iupac Ambiguity Cardinality
Expand one uppercase IUPAC DNA ambiguity symbol.
- Bioinformatics: Codon Ambiguity Position Mask
Return ambiguous positions in an IUPAC DNA codon.