wfischer at BIO.INDIANA.EDU
Wed Oct 20 13:03:28 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.
I have a perl script to do this (although it will not cope with introns).
ALIGN2AA will read fasta and other formats, and insert appropriate gaps
in the nucleotide sequences to match the amino-acid alignment.
Biology Department wfischer at indiana.edu
Indiana University Lab: 812-855-2549
Jordan Hall 142 FAX: 812-855-6705
1001 E. Third Street
Bloomington, IN 47405-3700 USA
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