Table 2 Bioinformatics analysis of high throughput sequencing data from the initial RNA libraries.

From: High throughput sequencing analysis of RNA libraries reveals the influences of initial library and PCR methods on SELEX efficiency

 

A-derived Initial RNA pool

B-derived Initial RNA pool

Solution PCR

ddPCR

Solution PCR

ddPCR

Total Reads

28,942,595

27,863,589

40,174,712

55,173,334

Usable reads

27,411,096

26,104,315

37,951,292

51,997,175

% Usable

94.71%

93.69%

94.47%

94.24%

Total reads of top 1000 unique sequences

5,984

6,596

3,169

3,233

% top 1000 in usable reads

0.022%

0.025%

0.008%

0.006%

  1. ssDNA libraries purchased from different companies (A and B) were used to generate dsDNA libraries by either solution PCR or ddPCR amplification. The total reads and useful reads were defined. The most frequent 1,000 unique sequences and their percent in all the usable reads were identified.
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