Table 1

Statistics of small RNA sequences from Chlamydomonas reinhardtii + S and -S libraries

Sequences generated

%


+S library

Total reads

11284767

High quality

10762852

100%

Adaptor3 null

3304

0.03%

Insert null

2815

0.03%

Adaptor5 contaminants

63608

0.59%

Smaller than 18 nt

663116

6.16%

PolyA

17

0.00%

Clean reads

10029992

93.19%

-S library

Total reads

11080539

High quality

10572756

100%

Adaptor3_null

3499

0.03%

Insert null

3575

0.03%

Adaptor5 contaminants

58280

0.55%

Smaller than 18 nt

588466

5.57%

PolyA

6

0.00%

Clean reads

9918931

93.82%


Total reads: total sequenced reads; High quality: number of high quality reads with no N, no more than 4 bases whose quality score is lower than 10 and no more than 6 bases whose quality is lower than 13; Adaptor3 null: number of reads with no 3' adaptor; Insert null: number of reads with no insertion; Adaptor5 contaminants: number of 5' contaminants; Smaller than 18 nt: number of reads less than 18 nt. Generally, small RNA tags are between 18 ~ 30 nt long. So too short tags should be removed from data for future analysis; polyA: number of reads wih polyA; Clean reads: number of clean reads after adaptors and contaminants are removed which are used in the following analysis.

Shu and Hu BMC Genomics 2012 13:108   doi:10.1186/1471-2164-13-108

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