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Table 1 Performance evaluation. NSN: nucleotide sensitivity, NSP: nucleotide specificity, ESN: exon sensitivity, ESP: exon specificity, ME: missed exons, WE: wrong exons. NSN is defined as the percentage of annotated coding bases predicted as coding and NSP as the percentage of predicted coding bases annotated as as coding. ESN and ESP reflect analogously how well the methods predict exons exactly right. Superscripts on the species names indicate the type of generated gene model. 1: Full model. 2: 3' UTR exons and introns not modelled. 3: No UTR exons and introns modelled. 4: UTR exons and introns as well as UTR part of first and last exons not modelled. Subscripts indicate whether shared length distributions are used. 1: No shared distributions. 2: Internal and single coding exons share distribution. 3: all coding coding exons share distribution

From: Automatic generation of gene finders for eukaryotic species

Species

Predictor

NSN

NSP

ESN

ESP

ME

WE

C . e l e g a n s 2 3 MathType@MTEF@5@5@+=feaafiart1ev1aaatCvAUfKttLearuWrP9MDH5MBPbIqV92AaeXatLxBI9gBaebbnrfifHhDYfgasaacH8akY=wiFfYdH8Gipec8Eeeu0xXdbba9frFj0=OqFfea0dXdd9vqai=hGuQ8kuc9pgc9s8qqaq=dirpe0xb9q8qiLsFr0=vr0=vr0dc8meaabaqaciaacaGaaeqabaqabeGadaaakeaacqWGdbWqcqGGUaGlcaaMc8UaemyzauMaemiBaWMaemyzauMaem4zaCMaemyyaeMaemOBa4Maem4Cam3aa0baaSqaaiabikdaYaqaaiabiodaZaaaaaa@3BBA@

Agene

95

92

86

85

5

9

 

GeneID

95

86

75

68

6

16

D . m e l a n o g a s t e r 1 1 MathType@MTEF@5@5@+=feaafiart1ev1aaatCvAUfKttLearuWrP9MDH5MBPbIqV92AaeXatLxBI9gBaebbnrfifHhDYfgasaacH8akY=wiFfYdH8Gipec8Eeeu0xXdbba9frFj0=OqFfea0dXdd9vqai=hGuQ8kuc9pgc9s8qqaq=dirpe0xb9q8qiLsFr0=vr0=vr0dc8meaabaqaciaacaGaaeqabaqabeGadaaakeaacqWGebarcqGGUaGlcaaMc8UaemyBa0MaemyzauMaemiBaWMaemyyaeMaemOBa4Maem4Ba8Maem4zaCMaemyyaeMaem4CamNaemiDaqNaemyzauMaemOCai3aa0baaSqaaiabigdaXaqaaiabigdaXaaaaaa@42A9@

Agene

87

87

64

68

13

15

 

Augustus

85

91

67

72

15

11

A . t h a l i a n a 1 1 MathType@MTEF@5@5@+=feaafiart1ev1aaatCvAUfKttLearuWrP9MDH5MBPbIqV92AaeXatLxBI9gBaebbnrfifHhDYfgasaacH8akY=wiFfYdH8Gipec8Eeeu0xXdbba9frFj0=OqFfea0dXdd9vqai=hGuQ8kuc9pgc9s8qqaq=dirpe0xb9q8qiLsFr0=vr0=vr0dc8meaabaqaciaacaGaaeqabaqabeGadaaakeaacqWGbbqqcqGGUaGlcaaMc8UaemiDaqNaemiAaGMaemyyaeMaemiBaWMaemyAaKMaemyyaeMaemOBa4Maemyyae2aa0baaSqaaiabigdaXaqaaiabigdaXaaaaaa@3CFF@

Agene

85

89

67

74

14

11

 

Genscan

82

83

49

51

17

18

N . c r a s s a 1 4 MathType@MTEF@5@5@+=feaafiart1ev1aaatCvAUfKttLearuWrP9MDH5MBPbIqV92AaeXatLxBI9gBaebbnrfifHhDYfgasaacH8akY=wiFfYdH8Gipec8Eeeu0xXdbba9frFj0=OqFfea0dXdd9vqai=hGuQ8kuc9pgc9s8qqaq=dirpe0xb9q8qiLsFr0=vr0=vr0dc8meaabaqaciaacaGaaeqabaqabeGadaaakeaacqWGobGtcqGGUaGlcaaMc8Uaem4yamMaemOCaiNaemyyaeMaem4CamNaem4CamNaemyyae2aa0baaSqaaiabigdaXaqaaiabisda0aaaaaa@3A83@

Agene

76

95

57

76

25

7

 

GeneID

24

95

14

83

76

8

A . n i d u l a n s 2 4 MathType@MTEF@5@5@+=feaafiart1ev1aaatCvAUfKttLearuWrP9MDH5MBPbIqV92AaeXatLxBI9gBaebbnrfifHhDYfgasaacH8akY=wiFfYdH8Gipec8Eeeu0xXdbba9frFj0=OqFfea0dXdd9vqai=hGuQ8kuc9pgc9s8qqaq=dirpe0xb9q8qiLsFr0=vr0=vr0dc8meaabaqaciaacaGaaeqabaqabeGadaaakeaacqWGbbqqcqGGUaGlcaaMc8UaemOBa4MaemyAaKMaemizaqMaemyDauNaemiBaWMaemyyaeMaemOBa4Maem4Cam3aa0baaSqaaiabikdaYaqaaiabisda0aaaaaa@3D3F@

Agene

84

93

59

70

19

9

 

GeneID

88

86

49

50

18

19

H . s a p i e n s 1 1 MathType@MTEF@5@5@+=feaafiart1ev1aaatCvAUfKttLearuWrP9MDH5MBPbIqV92AaeXatLxBI9gBaebbnrfifHhDYfgasaacH8akY=wiFfYdH8Gipec8Eeeu0xXdbba9frFj0=OqFfea0dXdd9vqai=hGuQ8kuc9pgc9s8qqaq=dirpe0xb9q8qiLsFr0=vr0=vr0dc8meaabaqaciaacaGaaeqabaqabeGadaaakeaacqWGibascqGGUaGlcaaMc8Uaem4CamNaemyyaeMaemiCaaNaemyAaKMaemyzauMaemOBa4Maem4Cam3aa0baaSqaaiabigdaXaqaaiabigdaXaaaaaa@3BE6@

Agene

63

56

47

40

38

48

 

Genscan

87

60

63

47

14

39

M . m u s c u l u s 1 2 MathType@MTEF@5@5@+=feaafiart1ev1aaatCvAUfKttLearuWrP9MDH5MBPbIqV92AaeXatLxBI9gBaebbnrfifHhDYfgasaacH8akY=wiFfYdH8Gipec8Eeeu0xXdbba9frFj0=OqFfea0dXdd9vqai=hGuQ8kuc9pgc9s8qqaq=dirpe0xb9q8qiLsFr0=vr0=vr0dc8meaabaqaciaacaGaaeqabaqabeGadaaakeaacqWGnbqtcqGGUaGlcaaMc8UaemyBa0MaemyDauNaem4CamNaem4yamMaemyDauNaemiBaWMaemyDauNaem4Cam3aa0baaSqaaiabigdaXaqaaiabikdaYaaaaaa@3D97@

Agene

73

88

56

68

28

14

 

Genscan

88

82

69

68

14

17

D . r e r i o 2 3 MathType@MTEF@5@5@+=feaafiart1ev1aaatCvAUfKttLearuWrP9MDH5MBPbIqV92AaeXatLxBI9gBaebbnrfifHhDYfgasaacH8akY=wiFfYdH8Gipec8Eeeu0xXdbba9frFj0=OqFfea0dXdd9vqai=hGuQ8kuc9pgc9s8qqaq=dirpe0xb9q8qiLsFr0=vr0=vr0dc8meaabaqaciaacaGaaeqabaqabeGadaaakeaacqWGebarcqGGUaGlcaaMc8UaemOCaiNaemyzauMaemOCaiNaemyAaKMaem4Ba82aa0baaSqaaiabikdaYaqaaiabiodaZaaaaaa@392E@

Agene

88

89

67

70

13

13

 

Genscan

91

87

67

69

12

10

A . g a m b i a e 1 3 MathType@MTEF@5@5@+=feaafiart1ev1aaatCvAUfKttLearuWrP9MDH5MBPbIqV92AaeXatLxBI9gBaebbnrfifHhDYfgasaacH8akY=wiFfYdH8Gipec8Eeeu0xXdbba9frFj0=OqFfea0dXdd9vqai=hGuQ8kuc9pgc9s8qqaq=dirpe0xb9q8qiLsFr0=vr0=vr0dc8meaabaqaciaacaGaaeqabaqabeGadaaakeaacqWGbbqqcqGGUaGlcaaMc8Uaem4zaCMaemyyaeMaemyBa0MaemOyaiMaemyAaKMaemyyaeMaemyzau2aa0baaSqaaiabigdaXaqaaiabiodaZaaaaaa@3B82@

Agene

81

83

52

63

18

15

D . h a n s e n i i 2 4 MathType@MTEF@5@5@+=feaafiart1ev1aaatCvAUfKttLearuWrP9MDH5MBPbIqV92AaeXatLxBI9gBaebbnrfifHhDYfgasaacH8akY=wiFfYdH8Gipec8Eeeu0xXdbba9frFj0=OqFfea0dXdd9vqai=hGuQ8kuc9pgc9s8qqaq=dirpe0xb9q8qiLsFr0=vr0=vr0dc8meaabaqaciaacaGaaeqabaqabeGadaaakeaacqWGebarcqGGUaGlcaaMc8UaemiAaGMaemyyaeMaemOBa4Maem4CamNaemyzauMaemOBa4MaemyAaKMaemyAaK2aa0baaSqaaiabikdaYaqaaiabisda0aaaaaa@3D27@

Agene

82

85

64

68

17

19

K . l a c t i s 3 4 MathType@MTEF@5@5@+=feaafiart1ev1aaatCvAUfKttLearuWrP9MDH5MBPbIqV92AaeXatLxBI9gBaebbnrfifHhDYfgasaacH8akY=wiFfYdH8Gipec8Eeeu0xXdbba9frFj0=OqFfea0dXdd9vqai=hGuQ8kuc9pgc9s8qqaq=dirpe0xb9q8qiLsFr0=vr0=vr0dc8meaabaqaciaacaGaaeqabaqabeGadaaakeaacqWGlbWscqGGUaGlcaaMc8UaemiBaWMaemyyaeMaem4yamMaemiDaqNaemyAaKMaem4Cam3aa0baaSqaaiabiodaZaqaaiabisda0aaaaaa@3A87@

Agene

78

91

69

79

21

11

C . g l a b r a t a 3 4 MathType@MTEF@5@5@+=feaafiart1ev1aaatCvAUfKttLearuWrP9MDH5MBPbIqV92AaeXatLxBI9gBaebbnrfifHhDYfgasaacH8akY=wiFfYdH8Gipec8Eeeu0xXdbba9frFj0=OqFfea0dXdd9vqai=hGuQ8kuc9pgc9s8qqaq=dirpe0xb9q8qiLsFr0=vr0=vr0dc8meaabaqaciaacaGaaeqabaqabeGadaaakeaacqWGdbWqcqGGUaGlcaaMc8Uaem4zaCMaemiBaWMaemyyaeMaemOyaiMaemOCaiNaemyyaeMaemiDaqNaemyyae2aa0baaSqaaiabiodaZaqaaiabisda0aaaaaa@3D05@

Agene

91

94

82

82

9

9

U . m a y d i s 1 4 MathType@MTEF@5@5@+=feaafiart1ev1aaatCvAUfKttLearuWrP9MDH5MBPbIqV92AaeXatLxBI9gBaebbnrfifHhDYfgasaacH8akY=wiFfYdH8Gipec8Eeeu0xXdbba9frFj0=OqFfea0dXdd9vqai=hGuQ8kuc9pgc9s8qqaq=dirpe0xb9q8qiLsFr0=vr0=vr0dc8meaabaqaciaacaGaaeqabaqabeGadaaakeaacqWGvbqvcqGGUaGlcaaMc8UaemyBa0MaemyyaeMaemyEaKNaemizaqMaemyAaKMaem4Cam3aa0baaSqaaiabigdaXaqaaiabisda0aaaaaa@3AA5@

Agene

87

94

61

69

14

9