| getNucLocation(Feature, FeatureLoc) |  | 0% |  | 0% | 10 | 10 | 29 | 29 | 1 | 1 |
| deleteFeature(Feature) |  | 0% |  | 0% | 7 | 7 | 37 | 37 | 1 | 1 |
| autoGenerateSplicedFeatureName(String) |  | 0% |  | 0% | 9 | 9 | 26 | 26 | 1 | 1 |
| isFirstUtr(String, boolean) |  | 0% |  | 0% | 15 | 15 | 28 | 28 | 1 | 1 |
| autoGeneratePepName(String) |  | 0% |  | 0% | 7 | 7 | 22 | 22 | 1 | 1 |
| autoGenerateFeatureName(String, String) |  | 0% |  | 0% | 5 | 5 | 15 | 15 | 1 | 1 |
| getTranscriptFromName(String) |   | 44% |   | 33% | 10 | 13 | 25 | 42 | 0 | 1 |
| isSplicedFeatures(String) |  | 0% |  | 0% | 7 | 7 | 21 | 21 | 1 | 1 |
| getFeatureFromId(String) |  | 0% |  | 0% | 7 | 7 | 29 | 29 | 1 | 1 |
| isUniqueName(String) |  | 0% |  | 0% | 9 | 9 | 22 | 22 | 1 | 1 |
| deleteTranscript(String) |  | 0% |  | 0% | 3 | 3 | 13 | 13 | 1 | 1 |
| autoGenerateTanscriptName(String) |  | 0% |  | 0% | 3 | 3 | 8 | 8 | 1 | 1 |
| getFeatureFromHash(String, Hashtable) |  | 0% |  | 0% | 4 | 4 | 9 | 9 | 1 | 1 |
| correctSpliceSiteAssignments() |   | 59% |   | 58% | 3 | 7 | 9 | 23 | 0 | 1 |
| updateUniqueName(String, String, Set) |  | 0% |  | 0% | 2 | 2 | 8 | 8 | 1 | 1 |
| isTranscript(String) |  | 0% |  | 0% | 3 | 3 | 7 | 7 | 1 | 1 |
| add3PrimeUtr(String, Feature) |  | 0% |  | 0% | 2 | 2 | 6 | 6 | 1 | 1 |
| add5PrimeUtr(String, Feature) |  | 0% |  | 0% | 2 | 2 | 6 | 6 | 1 | 1 |
| addOtherFeatures(String, Feature) |  | 0% |  | 0% | 2 | 2 | 6 | 6 | 1 | 1 |
| getProtein(String) |  | 0% |  | 0% | 3 | 3 | 10 | 10 | 1 | 1 |
| updateNames(Hashtable, String, String) |  | 0% |  | 0% | 2 | 2 | 5 | 5 | 1 | 1 |
| getGeneUniqueName() |  | 0% | | n/a | 1 | 1 | 3 | 3 | 1 | 1 |
| searchForChildren(Hashtable, String, Set) |   | 85% |   | 66% | 3 | 7 | 1 | 13 | 0 | 1 |
| getSplicedFeatures(String) |   | 86% |   | 83% | 1 | 4 | 4 | 12 | 0 | 1 |
| getTranscriptFeatureFromName(String) |   | 83% |   | 66% | 2 | 4 | 3 | 9 | 0 | 1 |
| get3UtrOfTranscript(String) |   | 53% |   | 50% | 1 | 2 | 1 | 3 | 0 | 1 |
| get5UtrOfTranscript(String) |   | 53% |   | 50% | 1 | 2 | 1 | 3 | 0 | 1 |
| getOtherFeaturesOfTranscript(String) |   | 53% |   | 50% | 1 | 2 | 1 | 3 | 0 | 1 |
| getChildren(Feature) |   | 95% |   | 90% | 1 | 6 | 3 | 25 | 0 | 1 |
| setSeqlen(int) |  | 0% | | n/a | 1 | 1 | 2 | 2 | 1 | 1 |
| setSrcfeature_id(int) |  | 0% | | n/a | 1 | 1 | 2 | 2 | 1 | 1 |
| getTranscriptNames() |   | 91% |  | 100% | 0 | 2 | 2 | 8 | 0 | 1 |
| containsTranscript(StringVector) |   | 90% |  | 100% | 0 | 3 | 2 | 8 | 0 | 1 |
| getSeqlen() |  | 0% | | n/a | 1 | 1 | 1 | 1 | 1 | 1 |
| getSrcfeature_id() |  | 0% | | n/a | 1 | 1 | 1 | 1 | 1 | 1 |
| getSplicedFeatures() |  | 0% | | n/a | 1 | 1 | 1 | 1 | 1 | 1 |
| getSpliceSitesOfTranscript(String, String) |   | 95% |   | 83% | 1 | 4 | 1 | 9 | 0 | 1 |
| getSpliceTypes(String) |   | 94% |   | 75% | 1 | 3 | 1 | 8 | 0 | 1 |
| getSplicedFeaturesOfTranscript(String) |   | 84% |   | 50% | 1 | 2 | 1 | 3 | 0 | 1 |
| ChadoCanonicalGene() |  | 100% | | n/a | 0 | 1 | 0 | 7 | 0 | 1 |
| addSplicedFeatures(String, Feature) |  | 100% |  | 100% | 0 | 2 | 0 | 6 | 0 | 1 |
| getQualifier(Feature, String) |  | 100% |  | 100% | 0 | 2 | 0 | 4 | 0 | 1 |
| getProteinOfTranscript(String) |  | 100% |  | 100% | 0 | 2 | 0 | 3 | 0 | 1 |
| addSplicedFeatures(String, Feature, boolean) |  | 100% |   | 50% | 1 | 2 | 0 | 4 | 0 | 1 |
| addProtein(String, Feature) |  | 100% | | n/a | 0 | 1 | 0 | 2 | 0 | 1 |
| addTranscript(Feature) |  | 100% | | n/a | 0 | 1 | 0 | 2 | 0 | 1 |
| setGene(Feature) |  | 100% | | n/a | 0 | 1 | 0 | 2 | 0 | 1 |
| getGene() |  | 100% | | n/a | 0 | 1 | 0 | 1 | 0 | 1 |
| getTranscripts() |  | 100% | | n/a | 0 | 1 | 0 | 1 | 0 | 1 |