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Table 1 RNAseq metrics and alignments

From: Substantial reprogramming of the Eutrema salsugineum (Thellungiella salsuginea) transcriptome in response to UV and silver nitrate challenge

  

n.i.

UV

AgNO 3

B.c.

reads

total fragments

33,445,682

45,326,703

33,278,110

35,924,995

 

uncounted

8,100,893

22,525,573

7,470,863

12,091,407

 

counted

25,344,789

22,801,130

25,807,247

23,833,588

 

- uniquely

17,567,426

14,322,990

19,065,875

16,287,764

 

- non-specific

7,777,363

8,478,140

6,741,372

7,545,824

transcripts

hit (reads > 0)

23,237

23,730

23,985

23,655

 

uniquely hit

21,589

21,875

22,216

22,048

 

(% of total)

(73,7%)

(74,7%)

(75,9%)

(75,3%)

  1. Reads were mapped to the JGI genome (Yang et al., [8]), 29284 reference transcripts (2 mismatches allowed); uncounted/counted: number of unmapped/mapped reads; uniquely: number of uniquely mapped reads; non-specific: number of reads with multiple locations in the reference.