This alignment comprises seven nuclear housekeeping genes (aldolase, methionine adenosyltransferase, ATP synthase beta chain, catalase, elongation factor 1 alpha, triosephosphate isomerase and phosphofructokinase; [ 37]) and three ribosomal DNAs (5.5S, 18S, and 28S rDNA) from 119 taxa.
After indels and poorly aligned positions were removed the alignment comprised 15,685 bp including 6,986 informative sites.
Among the 3,562 bp, the alignment comprised 1,627 45.688%) variable sites, of which 1,392 39.088%) were parsimony informative.
This concatenated alignment comprised 6,436 amino acids (data set c24p, 24 CDS; gene no. 1 24 in supplementary table S3, Supplementary Material online).
The RPE alignment consisted of 183 alignable characters and the GAPDH alignment comprised 278 alignable characters.
For example, the test for an artificial attraction of Ectoprocta and Phoronida due to a deviating amino acid composition is based on a subset of the alignment comprising the character states at all positions where the ancestor of the Ectoprocta + Phoronida clade is characterized by apomorphies.
After removing unreliably aligned regions, the final alignment comprised 150 taxa and 1,647 positions (the alignment is available upon request).
The resulting alignment comprised 102 WNTs and 220 positions (available upon request).
The final alignment comprised 3,576 amino acids.
The concatenated alignment comprised 4102 positions.
