Nucleic Acid Sequence Alignments of Partly Coding Regions Using Genetic Information

codaln produces multiple nucleic acid alignments using information on coding and non-coding regions as part of the scoring function. This is done in order to prevent the problem of higher sequence divergency on the level of nucleic acids as compared to the underlying protein sequences in the case of coding at a certain region of the input nucleic acid sequences. The program allows plenty of user intervention to overrule the defaults.
Current version:
codaln 1.0

[Download of program] [The manual page only]

codaln is the successor of code2aln (version 1.2)
The predecessor program code2aln 1.2 is available here: code2aln 1.2
If you find this software useful for your research, please cite the following work:
Interdisciplinary Centre for Bioinformatics, Haertelstrasse 16-18,
D-04107 Leipzig, Germany
Last modified: 2005-10-13 20:55:00 roman