This is the command checktranse that can be run in the OnWorks free hosting provider using one of our multiple free online workstations such as Ubuntu Online, Fedora Online, Windows online emulator or MAC OS online emulator
PROGRAM:
NAME
checktrans - Reports STOP codons and ORF statistics of a protein
SYNOPSIS
checktrans -sequence seqall -orfml integer [-addlast boolean] -outfile outfile
-outseq seqoutall -outfeat featout
checktrans -help
DESCRIPTION
checktrans is a command line program from EMBOSS (“the European Molecular Biology Open
Software Suite”). It is part of the "Nucleic:Gene finding,Nucleic:Translation" command
group(s).
OPTIONS
Input section
-sequence seqall
Required section
-orfml integer
Default value: 100
Additional section
-addlast boolean
An asterisk in the protein sequence indicates the position of a STOP codon. Checktrans
assumes that all ORFs end in a STOP codon. Forcing the sequence to end with an
asterisk, if there is not one there already, makes checktrans treat the end as a
potential ORF. If an asterisk is added, it is not included in the reported count of
STOPs. Default value: Y
Output section
-outfile outfile
-outseq seqoutall
Sequence file to hold output ORF sequences
-outfeat featout
File for output features
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