BIOINF 06-013 Supplemental Material
Identification of Homoplastic Characters
in Multiple Sequence Alignments
Andreas W. M. Dress, Christoph Flamm, Guido Fritzsch, Stefan Grünewald,
Matthias Kruspe, Sonja J. Prohaska and Peter F. Stadler
Supplemental Material
SOFTWARE:
Noisy-1.5.7
Accession Numbers of the sequences used in this study.
Examples
Arthropoda.fas: Clustal X alignment of the nucleotide sequences of
arthropods mitochondrial protein coding genes
Arthropoda_out.fas:Output file of the program noisy
with cutoff 0.8 - nucleotide sequences of arthropods mitochondrial protein coding genes
Arthropoda_sta.gr: Statistics of the alignment and the output
of the program noisy - nucleotide sequences of arthropods mitochondrial protein coding genes
Arthropoda_typ.eps: Graphic of the distribution of homoplastic
sites for arthropods example
Squamata.fas: Clustal X alignment of the nucleotide sequences of
Squamata mitochondrial protein coding genes
Squamata_out.fas:Output file of the program noisy
with cutoff 0.8 - nucleotide sequences of Squamata mitochondrial protein coding genes
Squamata_sta.gr: Statistics of the alignment and the output
of the program noisy - nucleotide sequences of Squamata mitochondrial protein coding genes
Squamata_typ.eps: Graphic of the distribution of homoplastic
sites for Squamata example
Frogs.fas: Clustal X alignment of the part of nucleotide sequences (12Sr RNA to 16Sr RNA) of frogs
Frogs_out.fas:Output file of the program noisy
with cutoff 0.8 - part of nucleotide sequences (12Sr RNA to 16Sr RNA) of frogs
Frogs_sta.gr: Statistics of the alignment and the output
of the program noisy - part of nucleotide sequences (12Sr RNA to 16Sr RNA) of frogs
Frogs_typ.eps: Graphic of the distribution of homoplastic
sites for frogs example