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Table 9 The number of the Subset 1 RefSeq 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

13757

13747

13740

13733

13723

13688

12426

10323

Sim4

13214

13179

13145

13110

13044

12958

11662

9680

 

-3.91

-4.09

-4.29

-4.49

-4.89

-5.26

-5.50

-4.63

Spidey

13185

13176

13169

13162

13146

13089

11720

9706

 

-4.12

-4.11

-4.11

-4.11

-4.16

-4.31

-5.09

-4.44

BLAT

13507

13498

13491

13484

13473

13441

12271

10284

 

-1.80

-1.79

-1.79

-1.79

-1.80

-1.78

-1.12

-0.28

GMAP

13744

13733

13726

13718

13706

13671

12408

10307

 

-0.09

-0.10

-0.10

-0.11

-0.12

-0.12

-0.13

-0.12

SPA

13715

13706

13698

13691

13676

13635

12373

10275

 

-0.30

-0.30

-0.30

-0.30

-0.34

-0.38

-0.38

-0.35