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Table 1 de novo assembly statistics

From: A draft of the genome and four transcriptomes of a medicinal and pesticidal angiosperm Azadirachta indica

a.

Longest Contig

10111

Contig N50

740

Contig N90

172

Longest Scaffold

3641215

Scaffold N50

452028

Scaffold N90

56222

Number of Scaffolds

9714

b.

 

Root

Leaf

Stem

Flower

Reads

4566554

4372192

5429138

5058312

kmers

57670643

55530204

67596347

60219435

Inchworm contigs

148819

148700

172507

150126

Total transcripts

27916

27369

34518

31223

c.

Features

Average

S.D.

Number of genes

20169

-

Gene length

1695.95

1526.01

Exon length

208.28

210.62

Intron length

388.62

393.41

Number of exons

3.5

2.96

Number of introns

2.5

2.96

Exonic GC%

42.74

5

Intronic GC%

30.04

7.09

  1. The respective assembly statistics are summarized from various sequencing libraries using (a) SOAPdenovo[16] for the genome and (b) Trinity[35] for the transcriptomes. Various annotation statistics for genes, exons and introns are also provided (c).
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BMC Genomics

ISSN: 1471-2164

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