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Table 2 Timings. The average CPU times for each query from the SCOP-FSSP set using each of the 6 programs is shown. The Meta Gash program CPU can be closely approximated by summing the GASH default, DaliLite, and CE columns.

From: GASH: An improved algorithm for maximizing the number of equivalent residues between two protein structures

Query

Average CPU (seconds)

  

GASH

  

Global

GASH

GASH

ID

Nres

Default

Dalilite

CE

ASH

No Cross

High Cross

1bwwA

110

4

4

13

4

3

8

1qgtB

144

7

6

17

10

6

10

1mniA

154

4

4

13

5

4

9

1ab8A

178

5

3

15

6

5

9

1dwuA

214

13

9

18

17

13

20

1u02A

223

13

10

19

15

13

18

1frvA

263

14

10

18

16

13

20

1kyqB

268

15

10

20

20

15

21

1r6fA

273

7

5

17

10

7

11

1obaA

339

27

23

24

31

25

34

1gqeA

355

15

10

22

19

14

20

1sftB

381

25

22

24

28

24

32

1udyA

386

14

12

24

20

13

19

1nvbB

392

25

16

23

30

25

32

1e03L

424

22

22

18

31

21

36

1bgw

680

40

25

45

53

39

48

1bxrA

1074

60

28

61

83

58

69