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Table 6 The number of the Subset 1 alignments at various levels of the overall 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

 

85%

90%

95%

99%

99.5%

99.9%

100%

Splign

72047

71922

71568

68890

65666

43046

25931

Sim4

72013

71830

71316

68055

63919

39272

23249

 

-0.05

-0.13

-0.35

-1.16

-2.42

-5.23

-3.72

Spidey

71562

70833

69744

66128

62461

40456

24578

 

-0.67

-1.51

-2.53

-3.83

-4.44

-3.59

-1.88

BLAT

72010

71842

71393

67508

63319

41693

25357

 

-0.05

-0.11

-0.24

-1.92

-3.25

-1.88

-0.80

GMAP

72001

71843

71459

68446

64787

42263

25335

 

-0.06

-0.11

-0.15

-0.62

-1.22

-1.09

-0.83

SPA

71993

71823

71406

68578

65368

43043

25736

 

-0.07

-0.14

-0.22

-0.43

-0.41

0.00

-0.27