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The element searches for open reading frames (ORFs) in the su= pplied sequence.
Parameter | Description | Default value |
---|---|---|
Annotate As | Name of the result annotations. | ORF |
Direction | See the description here. | Any |
Allow alternative codons | Allows / disallows ORFs starting with alternativ= e initiation codons, accordingly to the current translation table. | False |
Require init codons | Allows / disallows ORFs starting with any codon = other than terminator. | True |
Require stop codons | Ignores or takes into account boundary ORFs whic= h last beyond the search region. | False |
Min length | Ignores ORFs shorter than the specified length.<= /td> | 100bp |
Max length | Maximum length of annotation allowed. | 10000bp |
Genetic code | Genetic code that should be used to translate th= e input nucleotide sequence. | The standard genetic code |
Type: orf
Parameter | Parameter in the GUI | Type |
---|---|---|
key | Annotate As | string |
strand | Direction | string Available values are:
|
alt-start | Allow alternative codons | boolean |
starts-with-init | Require init codons | boolean |
ends-with-stop | Require stop codons | boolean |
min-length | Min length | numeric |
max-length | Max length | numeric |
trans-id | Genetic code | string Available values are:
|