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