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Table 2 PAVE assembly results

From: PAVE: Program for assembling and viewing ESTs

 

Sanger maize

454 trichome

ESTs

797,619

415,559

Mate-pairs

127,452

n/a

Contigsa

51,202

24,437

Singletons

36,780

46,162

Contigs joined by n's

14,946

n/a

Mates joined by n's

5,930

n/a

Buried ESTsb

105,574

144,349

Timec

6.7 days

6 days

ESTs in contigs:

  

= 2

13,465

9,926

3–5

13,526

8,249

6–10

8,493

2,860

11–20

6,514

1,463

21–50

6,125

1,049

51–100

2,090

445

101–1000

986

412

>1000

3

33

Length of contigs:

  

1–100

0

4,769

101–500

22941

61,593

501–1000

33509

3,302

1001–2000

27569

867

2001–3000

3794

60

3001–4000

165

4

4001–5000

3

2

>5000

1

2

  1. a Does not include singletons.
  2. b No mismatches were allowed for the initial BLAST bury for the Sanger, whereas one mismatch was allowed for the 454.
  3. c The initial self-BLAST of the maize and trichomes ESTs took 33 CPU hours 9 CPU hours on a super-computer, respectively, which is not included in the time.
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BMC Genomics

ISSN: 1471-2164

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