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Table 1 Metrics for reads, alignments and levels of rRNA in Eutrema

From: RNA-Seq effectively monitors gene expression in Eutrema salsugineum plants growing in an extreme natural habitat and in controlled growth cabinet conditions

Library

Reads

Before trimming

After trimming

Length (mean ± SD)

Alignment to JGI genome

rRNA

Unique

Non-unique

 
 

n

N

bp

%

%

%

SC1

1,505,998

1,410,766

315 ± 115

97.4

1.7

0.63

SC2

654,380

594,219

289 ± 111

95.3

3.1

2.0

SC3

733,305

648,435

268 ± 109

93.9

2.7

0.85

YC1

1,322,008

1,233,425

288 ± 105

94.8

2.7

0.90

YC2

726,603

685,135

312 ± 113

96.1

1.7

0.53

YC3

1,529,004

1,372,930

227 ± 84

95.4

2.9

1.4

YF1

1,501,857

1,415,995

292 ± 103

95.1

2.7

1.7

YF2

1,411,966

1,309,781

318 ± 111

94.8

3.0

2.2

YF3

1,349,259

1,088,138

236 ± 100

92.3

3.6

0.94

All 9 libraries

10,734,380

9,758,824

282 ± 110

95.1

2.7

1.3

  1. Non-unique reads map to more than one locus in the JGI Genome. The last column indicates the proportion of trimmed reads derived from the expression of rRNA genes in each library.