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How to submit your query ? How does AMIGene work ?

Gene Model (?)

Build one new Gene Model

OR

Use specific Gene Models for an organism :  


AMIGene parameters (?)

Use predefined parameter values : GC percent 

OR

Choose your own parameters : (default values are little constrained)
Abrv. Definition Value
Sure_Pc

Coding Probability above which a CDS is interpreted as a sure CDS.

Sure_LMin

Minimum Length of a sure CDS selected.

Prob_Pc

Between the Sure-Pc and Prob-Pc thresholds a CDS is interpreted as a probable CDS.

Prob_LMin

Minimum Length of a probable CDS selected.

Sure_ss_I

Minimum Inclusion percentage between two sure CDSs transcribed on the same strands.

Sure_os_I

Minimum Inclusion percentage between two sure CDSs transcribed on the opposite strands.

Sure_prob_O

Maximum Overlapping percentage between a sure and a probable CDSs transcribed on the opposite strands.

Prob_glob_IO

Maximum global score, including both Inclusion and Overlapping situations, between a probable CDS and all other probable CDSs being partially or completely in overlap with this CDS.




Sequence (?)

Sequence Label (Only alphanumeric characters, without space)

DNA sequence in Fasta format (Undetermined bases will be replaced by N) :



Upload a file :

Genetic Code :

START Codons : ATG | GTG | TTG | CTG
TGA = Trp (Mycoplasma)



Options (?)

Email address (for full access during one week)
 
Translate CDSs Add FrameShift Errors Detection (ProFED)
 



If you use the AMIGene software please cite: Bocs, S., Cruveiller, S., Vallenet, D., Nuel, G. And Médigue C. : AMIGENE: Annotation of Microbial Genes. Nucleic Acids Res. 13(31) (2003) 3723-3726.
 
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