DNA-protein alignment

Carolyn Weiller CAROLYN at RSBS.ANU.EDU.AU
Mon Oct 25 12:51:21 CDT 1999

John Trueman <trueman at RSBS.ANU.EDU.AU> wanted to align DNA coding sequences
to an alignment of their encoded proteins:
>     ...  To save me re-inventing the wheel does anyone have or know of a
>     utility which will
>     1.  input a protein alignment in one of the commonly-used formats
>         (eg, Nexus, Fasta, Clustal),
>     2.  input the corresponding DNA sequences, along possibly with
>         leading and trailing non-coding regions and introns,
>     3.  align the second to the first.

The public domain java program package "TransAlign" does exactly that.
Including reading Fasta file format.
TransAlign in available on

Dr Georg Weiller
Head, Bioinformatics Group
Research School of Biological Sciences
Australian National University
GPO 475, Canberra, ACT 2601
phone +61 (0)2 6249-5916
fax  +61 (0)2 6279-9709
www  http://biology/rsbsweb/profiles/georgw.shtml

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