Summary of BLASTN Comparisons ofSaccharomyces Species' DNA Sequences to S. cerevisiae DNA Sequence
| Species | # of sequences | % identity CODING | % identity NON-CODING | % of sequences aligning CODING/NON |
| S. paradoxus | 728 | 88.3 | 81.6 | 77.9/36.3 |
| S. cariacanus | 867 | 88.0 | 80.5 | 77.5/39.1 |
| S. mikatae | 1136 | 83.6 | 74.8 | 79.9/27.9 |
| S. bayanus | 851 | 79.7 | 73.6 | 65.7/19.5 |
| S. castellii | 2290 | 70.3 | 62.5[ii] | 48.9/1.7[ii] |
| S. kluyveri | 2145 | 70.2 | 72.8[ii] | 38.6/1.8[ii] |
| S. unisporus | 2357 | 69.2 | 67.6[ii] | 40.4/2.2[ii] |
[i] Coding sequences are all ORFs known or predicted to encode protein. The remaining yeast genomic sequences (minus the sequences encoding RNA genes, transposable elements, and CEN sequences) were considered non-coding. BLASTN comparisons of sensu stricto yeast species used MATCH/MISMATCH parameters M = 5, N = 5 with the default gap penalties. This change was made to more accurately reflect the similarity of the sequences and equals a PAM distance of ∼30 (States et al. 1991). Using these strict MATCH/MISMATCH parameters, only significant alignments were obtained. Default parameters were used for sensu lato and petite-negative comparisons toS. cerevisiae using a wordlength (W) of 5. The dust filter was used to mask low complexity nucleotide sequences. Alignments with aP-value <5.0e-06 were counted as significant.
[ii] Many of the alignments are to repetitive sequences (ribosomal rDNA repeat alignments were not counted).