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Table 2 Percentage of dinucleotide at the starting position of all mapped reads.

From: Bias detection and correction in RNA-Sequencing data

   Mamanova et al. Marioni et al. Bullard et al. Lee et al Nagalakshmi et al.
Dinuc Read type STD-Seq FRT- Seq Marioni kidney Marioni liver MAQC2 brain MAQC2 UHR MAQC3 UHR yeast RH yeast oligodT yeast RH
AA unique 4.5 9.3 6.1 8.4 2.1 2.2 2.7 5.2 10.8 10.3
AA multi 4.5 10.3 6.7 7.9 2.5 2.6 3.0 4.0 10.1 7.9
AC unique 1.5 5.2 1.4 1.4 0.9 1.0 0.8 1.4 6.4 5.4
AC multi 2.1 5.8 1.3 1.3 1.0 1.0 0.9 1.3 6.0 5.2
AG unique 2.5 7.1 3.0 3.2 2.2 2.2 2.2 2.3 7.8 5.9
AG multi 3.3 6.6 2.8 3.0 2.1 2.2 2.1 2.0 6.9 4.8
AT unique 3.4 7.2 5.7 6.8 1.9 2.0 2.4 4.7 7.4 5.7
AT multi 3.9 5.4 6.0 7.0 2.3 2.4 2.7 4.3 7.8 5.0
CA unique 8.9 5.4 7.7 7.0 10.7 10.6 10.5 8.7 10.6 11.1
CA multi 7.3 5.2 6.2 5.6 10.0 11.0 10.9 7.8 10.9 10.2
CC unique 9.6 4.0 7.8 5.8 10.8 10.2 10.4 5.6 6.0 6.3
CC multi 9.0 4.2 7.2 5.4 9.6 8.8 9.4 7.3 5.5 7.7
CG unique 5.5 2.3 4.4 3.4 10.0 10.1 10.4 7.2 2.0 2.9
CG multi 5.8 2.9 5.2 4.6 9.9 8.7 9.1 8.6 2.2 4.3
CT unique 12.2 5.8 13.3 11.6 13.1 13.0 13.3 12.2 7.9 7.4
CT multi 13.0 6.0 13.0 11.2 13.4 13.5 13.7 13.1 7.8 9.1
GA unique 4.0 6.7 4.9 5.3 5.2 5.4 4.5 7.0 4.9 5.4
GA multi 4.5 6.1 4.7 5.2 5.3 5.8 4.7 6.2 5.0 5.3
GC unique 12.5 5.7 7.7 6.9 11.7 12.0 10.0 8.6 2.2 3.0
GC multi 11.2 6.2 8.1 7.6 11.1 11.6 9.8 10.3 1.8 3.2
GG unique 13.0 5.0 9.2 8.8 12.0 11.9 11.8 8.7 3.8 4.2
GG multi 11.7 6.0 9.8 9.6 11.7 11.4 11.1 8.6 4.1 5.2
GT unique 9.8 5.7 10.1 9.5 8.4 8.6 8.4 12.3 4.2 5.2
GT multi 9.2 5.0 10.4 10.0 9.2 9.1 9.1 11.8 4.6 6.9
TA unique 1.6 5.2 3.7 4.4 1.1 1.1 1.3 2.2 10.8 10.8
TA multi 1.7 3.8 4.3 5.0 1.4 1.1 1.4 2.1 11.2 10.3
TC unique 2.1 6.8 3.0 3.2 2.1 2.2 2.3 2.9 3.9 4.8
TC multi 2.8 6.0 2.7 3.0 2.1 2.2 2.3 3.0 3.8 4.2
TG unique 6.1 6.9 5.6 5.6 4.7 4.9 5.4 5.1 7.9 8.4
TG multi 5.7 8.2 5.5 5.6 4.8 5.3 5.8 4.7 8.7 7.8
TT unique 2.7 11.4 6.3 8.4 2.5 2.5 3.6 5.9 3.5 3.3
TT multi 4.1 12.1 6.2 7.9 2.9 2.9 4.0 4.8 3.4 2.7
  1. Percentage was calculated by SAMStat [33]. Uniquely mapped reads and multi-mapped reads were separated in the calculation but showed similar pattern. Bold numbers indicates significantly over-represented dinucleotide with p-values less than or equal to 10-100 from a Binomial test described in [34].