Table 3 Clustering analysis of RNA libraries derived from company A was used to identify related sequence groups.

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

Group

30-nt random sequences

A-derived initial RNA libraries

Reads of each groups in top 50 unique sequences

Frequency of each groups in top 1000 unique sequences

Frequency of each groups in total usable reads

Solution PCR

ddPCR

Solution PCR

ddPCR

Solution PCR

ddPCR

1

AATTTCCTCAACCGCGTCCATTGTCGTGTG

3,207

3,705

87.22%

88.91%

0.0117%

0.0142%

2

TCCCAACATCGTTTTAATTGTCGTAGTGTG

349

343

9.49%

8.23%

0.0013%

0.0013%

3

TTTCCCAACGCACTTCCTCGAGTTGTTGGC

87

44

2.37%

1.06%

0.0003%

0.0002%

4

AAATGTTTTTCGATCCTTTTAGTCGCTGCA

18

6

0.49%

0.14%

0.0001%

0.0000%

Others

Orphan sequences

16

69

0.44%

1.66%

0.0001%

0.0003%

 

Total reads of top 50 unique sequences

3,677

4,167

    
  1. After alignment of the top 50 unique sequences, several sequence groups were identified. The representative sequences of each group, and their reads and frequencies, are listed. Only the 30-nt random sequences of the RNA core regions (5′-3′) are indicated.
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