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Table 3 Matched and un-matched Vitis EST contig and singletons.

From: Comparative expression profiling in grape (Vitis vinifera) berries derived from frequency analysis of ESTs and MPSS signatures

 

17-mer

20-mer

A. EST contigs.

Category a

Count

Freq

Count

Freq

5' and 3'

942

6.4%

736

5.0%

5' or 3'

5,488

37.4%

5,095

34.8%

Subtotal

6,430

43.9%

5,831

39.8%

With tag but no match

6,875

46.9%

7,474

51.0%

Without tags

1,353

9.2%

1,353

9.2%

Subtotal

8,228

56.1%

8,827

60.2%

Total

14,658

100.0%

14,658

100.0%

B. EST singletons.

 

17-mer

20-mer

Category a

Count

Freq

Count

Freq

5' and 3'

238

1.6%

263

1.8%

5' or 3'

1,952

13.3%

1,834

12.5%

Subtotal

2,190

14.9%

2,097

14.3%

With tag but no match

9,074

61.8%

9,167

62.4%

Without tags

3,667

25.0%

3,667

25.0%

Subtotal

12,741

86.8%

12,834

87.4%

Total

14,931

100.0%

14,931

100.0%

  1. a Categories are as follows: "5' and 3"' indicates contigs matched by reliable and significant (RS) tags in both sense and antisense orientation simultaneously; "5' or 3"' indicates contigs matched in their sense or antisense orientation but not both; "with tag but no match" indicates contigs with in silico identified GATC tag sites but without sequenced signatures (the presence of a DpnII site but no matching MPSS tag, see materials and methods for details); and "without tags" indicates contigs lacking GATC sites.
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BMC Plant Biology

ISSN: 1471-2229

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