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Of these 17 pseudogenes, 15 are recombinationally derived (with introns, in tandem to their functional paralogs), one ( Mgstl-Psi ) is retrotransposed (with a poly(A) tail, lacking introns which its functional paralog possesses), and one is too degenerate to classify definitively.
In the second case, we do have sequence information but cannot fully classify the intron with confidence; here, we provide the most plausible classification.
Their A+T-richness tends to classify them with phages and other mobile elements [ 13 ] . However, the RNP suggests that LTGs undergo low selection pressure on the protein sequence compared to these elements.
An important next step was to test whether relative expression data from these samples could be used in a predictive fashion to classify samples to the appropriate trial arm.
In contrast, analyses using profile search algorithms such as HMMER http://hmmer.wustl.edu/and Pfam [ 8 ] classify sequences too generally.