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6 Multiple alignment of coding DNA from aligned amino acid sequences was done using RevTrans.
An algorithm for progressive multiple alignment of sequences with insertions.
(c) Multiple alignment of the NREP ORF across vertebrates.
TranslatorX: multiple alignment of nucleotide sequences guided by amino acid translations.
Loytynoja, A. & Goldman, N. From The Cover: an algorithm for progressive multiple alignment of sequences with insertions.
Lassmann, T., Frings, O. & Sonnhammer, E. L. Kalign2: high-performance multiple alignment of protein and nucleotide sequences allowing external features.
Abascal, F., Zardoya, R. & Telford, M. J. TranslatorX: multiple alignment of nucleotide sequences guided by amino acid translations.
The multiple alignment of the conserved Rab family domain were constructed with Clustal X (version 2.0).
Fig. 1 Multiple alignment of the deduced amino acid sequence of BnaABF2 and its homologs.
Multiple alignment of sequences was performed using the Clustal W program.
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Tree reconstruction was based on a multiple alignment of 41 RpoT sequences (see "Methods").
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