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The sequence alignments used for this analysis are maintained by us at the University of Texas; these alignments, containing all publicly available sequences used in the analysis, are or will be available from the CRW Site http://www.rna.icmb.utexas.edu(Table 2).
The first major category, Comparative Structure Models http://www.rna.icmb.utexas.edu/CSI/2STR/contains our most recent 16S and 23S rRNA covariation-based structure models, which were adapted from the original Noller & Woese models (16S [ 15 22 ] and 23S [ 19 ] rRNA), and the structure models for 5S rRNA [ 12 ] , tRNA [ 5 6 7 8 9 ] , and the group I [ 32 ] and group II [ 34 ] introns, as determined by others.
Copies of the manuscript figures and tables and additional materials related to this work are available from the Gutell Laboratory's CRW Site at http://www.rna.icmb.utexas.edu/ANALYSIS/FUNGINT/ [ 44 ] . This page includes detailed rRNA conservation and intron position data (both the version used for the manuscript and current values that are updated daily), fungal nucleotide frequency values, and the SSU and LSU rRNA sequence alignments used in Table 2.
We strongly encourage all users to access the Comparative RNA Web Site http://www.rna.icmb.utexas.eduusing its main address, http://www.rna.icmb.utexas.edu/, rather than through specific URLs.
The number of different tRNA secondary structure models is approximately 2.5 × 10 19; there are approximately 10 393and 10 740possible structure models for 16S and 23S rRNA, respectively (see CRW Methods http://www.rna.icmb.utexas.edu/METHODS/).
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