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Table 1 Sequence sources and statistics for the three sequential ESTIMA:Songbird assemblies

From: The Songbird Neurogenomics (SoNG) Initiative: Community-based tools and strategies for study of brain gene function and evolution

   

ESTIMA:Songbird

   

BUILD 1

BUILD 2

BUILD 3

Sequence Source

Raw reads

After filtering

20 K cDNA microarray

Lund/Affy microarray

 

SB01

2,880

1,840

√

√

√

SB02

18,720

16,360

√

√

√

SB03 (a)

19,104

17,032

√

√

√

SB03 (b)

9,120

5,717

 

√

√

Duke chromatograms

36,469

23,225

 

√

 

Duke from NCBI

17,312

16,442

  

√

SB05

11,328

10,056

  

√

SB06

11,040

9,760

  

√

Rockefeller

9,845

9,764

  

√

Raw reads

40,704

86,293

99,349

# SEQS INTO PTA

35,232

58,457

86,784

Pure singlets

10,123

11,823

13,908

Clustered singlets

1,900

2,457

3,662

Total singlets

12,023

14,280

17,570

Contigs

5,855

8,348

14,088

Total unique sequences

17,878

22,628

31,658

Total redundant sequences

17,354

35,829

55,126

Redundancy

49%

61%

64%