Table 2.
Description of the pattern-characterizing features.
| Feature | Description |
|---|---|
| LOG_LIKE | The log-likelihood of the pattern, computed by EREM44, 45 |
| ONES_KNOWN | The ratio of 1’s in the pattern, excluding missing data |
| SANKOFF_G1L3 | The total cost of the most parsimonious evolutionary process explaining the pattern, assuming that loss costs three times as much as gain |
| SANKOFF_G3L1 | The total cost of the most parsimonious evolutionary process explaining the pattern, assuming that loss costs three times less than gain |
| IN_AMPHIBIAN | Binary value, equals 1 if the pattern contains at least one intron in amphibians |
| IN_FISH | Binary value, equals 1 if the pattern contains at least one intron in fish |
| IN_BIRD | Binary value, equals 1 if the pattern contains at least one intron in birds |
| IN_FUNGI | Binary value, equals 1 if the pattern contains at least one intron in fungi |
| IN_PLANT | Binary value, equals 1 if the pattern contains at least one intron in plants |
| IN_PROTIST | Binary value, equals 1 if the pattern contains at least one intron in protists |
| LCA_AGE | The age of the last common ancestor of all introns in the pattern, as inferred by Dollo parsimony |
| MED_POSITION | Median of the number of bases between the CDS start and the exon-exon junction |
| MED_REL_POSITION | Median of the number of bases between the CDS start and the exon-exon junction, divided by the total CDS length |