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Table 4 The number of RefSeq 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

 

80%

85%

90%

95%

99%

99.5%

99.9%

100%

Splign

24255

24254

24243

24218

23947

23420

19337

14898

Sim4

24242

24233

24201

24109

23566

22815

17774

12894

 

-0.05

-0.09

-0.17

-0.45

-1.57

-2.49

-6.44

-8.26

Spidey

23648

23491

23270

22972

22408

21789

17782

13488

 

-2.50

-3.14

-4.01

-5.13

-6.34

-6.72

-6.41

-5.81

BLAT

24240

24230

24201

24145

23701

23046

19043

14676

 

-0.06

-0.10

-0.17

-0.30

-1.01

-1.54

-1.21

-0.91

GMAP

24249

24242

24225

24198

23876

23294

19217

14513

 

-0.02

-0.05

-0.07

-0.08

-0.29

-0.52

-0.49

-1.59

SPA

24213

24202

24180

24148

23830

23303

19204

14698

 

-0.17

-0.21

-0.26

-0.29

-0.48

-0.48

-0.55

-0.82