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Table 8 The number of the Subset 1 alignments at various levels of the in-frame identity. Fractions give the differences in the number of alignments by each method and Splign expressed as percentage of the total of sequences in the set.

From: Splign: algorithms for computing spliced alignments with identification of paralogs

 

80%

85%

90%

95%

99%

99.5%

99.9%

100%

Splign

67342

67241

67105

66766

65767

64938

50968

35839

Sim4

63968

63723

63465

62986

61668

60622

47820

34033

 

-4.68

-4.88

-5.05

-5.24

-5.68

-5.99

-4.37

-2.50

Spidey

65276

65182

65066

64766

63844

62867

48714

34451

 

-2.86

-2.86

-2.83

-2.77

-2.67

-2.87

-3.13

-1.92

BLAT

64017

63932

63817

63545

62747

62115

49946

35632

 

-4.61

-4.59

-4.56

-4.47

-4.19

-3.91

-1.42

-0.29

GMAP

66568

66463

66317

65956

64856

64058

50589

35680

 

-1.07

-1.08

-1.09

-1.12

-1.26

-1.22

-0.53

-0.22

SPA

66777

66669

66516

66152

65042

64186

50669

35679

 

-0.78

-0.79

-0.82

-0.85

-1.01

-1.04

-0.41

-0.22