|   | infobase | 
| % infobase Return information on a given nucleotide base Nucleotide base code [ABCDGHKMNRSTUVWXY]: Output file [outfile.infobase]: | 
Go to the output files for this example
| 
   Standard (Mandatory) qualifiers:
  [-code]              string     [ABCDGHKMNRSTUVWXY] Enter IUPAC nucleotide
                                  base codes, e.g. A, C, G, T, R, Y etc. (Any
                                  string is accepted)
  [-outfile]           outfile    [*.infobase] Output file name
   Additional (Optional) qualifiers: (none)
   Advanced (Unprompted) qualifiers: (none)
   Associated qualifiers:
   "-outfile" associated qualifiers
   -odirectory2        string     Output directory
   General qualifiers:
   -auto               boolean    Turn off prompts
   -stdout             boolean    Write first file to standard output
   -filter             boolean    Read first file from standard input, write
                                  first file to standard output
   -options            boolean    Prompt for standard and additional values
   -debug              boolean    Write debug output to program.dbg
   -verbose            boolean    Report some/full command line options
   -help               boolean    Report command line options. More
                                  information on associated and general
                                  qualifiers can be found with -help -verbose
   -warning            boolean    Report warnings
   -error              boolean    Report errors
   -fatal              boolean    Report fatal errors
   -die                boolean    Report dying program messages
 | 
| Standard (Mandatory) qualifiers | Allowed values | Default | |
|---|---|---|---|
| [-code] (Parameter 1) | Enter IUPAC nucleotide base codes, e.g. A, C, G, T, R, Y etc. | Any string is accepted | ABCDGHKMNRSTUVWXY | 
| [-outfile] (Parameter 2) | Output file name | Output file | <*>.infobase | 
| Additional (Optional) qualifiers | Allowed values | Default | |
| (none) | |||
| Advanced (Unprompted) qualifiers | Allowed values | Default | |
| (none) | |||
| Code Ambiguity Complement Mnemonic A A T adenine B CGT V not_adenine C C G cytosine D AGT H not_cytosine G G C guanine H ACT D not_guanine K GT M keto_base M AC K amino_base N ACGT N any_base R AG Y purine_base S CG S strong_bond T T A thymine U T A uracil V ACG B not_thymine/uracil W AT W weak_bond X ACGT X unknown Y CT R pyrimidine | 
EMBOSS data files are distributed with the application and stored in the standard EMBOSS data directory, which is defined by the EMBOSS environment variable EMBOSS_DATA.
To see the available EMBOSS data files, run:
% embossdata -showall
To fetch one of the data files (for example 'Exxx.dat') into your current directory for you to inspect or modify, run:
% embossdata -fetch -file Exxx.dat
Users can provide their own data files in their own directories. Project specific files can be put in the current directory, or for tidier directory listings in a subdirectory called ".embossdata". Files for all EMBOSS runs can be put in the user's home directory, or again in a subdirectory called ".embossdata".
The directories are searched in the following order:
| Program name | Description | 
|---|---|
| infoalign | Display basic information about a multiple sequence alignment | 
| inforesidue | Return information on a given amino acid residue | 
| infoseq | Display basic information about sequences | 
| seealso | Finds programs with similar function to a specified program | 
| showdb | Displays information on configured databases | 
| textsearch | Search the textual description of sequence(s) | 
| tfm | Displays full documentation for an application | 
| whichdb | Search all sequence databases for an entry and retrieve it | 
| wossname | Finds programs by keywords in their short description |