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Table 1 The difference in average BPP values and G+C content in 6th – 30th CDS positions of human and mouse cDNAs characterized by optimal and suboptimal start codon contexts (purine (Pu) and pyrimidine (Py) in pos. -3 upstream AUG, respectively)†

From: AUG_hairpin: prediction of a downstream secondary structure influencing the recognition of a translation start site

CDS pos. human mouse
  BPPPy-BPPPu GCPy-GCPu,% BPPPy-BPPPu GCPy-GCPu,%
6 -0.014 -3.93 0.007 -1.16
7 0.005 -2.23 -0.016 -3.14
8 0.011 1.34 -0.002 0
9 0.006 -2.36 -0.006 -1.07
10 0.006 1.15 -0.014 -1.21
11 -0.008 2.14 -0.004 -1.47
12 -0.007 -3.79 0.005 2.46
13 0.015* -0.41 -0.004 -0.38
14 0.012** 1.65 0.020* 4.47
15 0.015*** -1.99 0.018** -1.08
16 0.014* -0.93 0.036*** -1.48
17 0.012* 4.21 0.019* 7.53
18 -0.003 -3.23 -0.005 -5.46
19 0.004 0.59 0.010 1.31
20 0.005 0.68 -0.008 2.8
21 -0.025 -4.94 -0.012 -1.29
22 -0.005 -0.50 -0.013 -1.6
23 -0.018 3.79 -0.020 5.15
24 -0.020 -3.51 0.001 -3.21
25 0.007 -0.70 -0.013 -0.32
26 0.017* 2.14 -0.003 4.01
27 0.006 -3.66 -0.022 -4.23
28 -0.001 -0.03 -0.022 1.02
29 0.007 5.30 -0.022 5.21
30 -0.016 -3.68 -0.035 -5.06
  1. † CDS positions where mean BPP values were significantly higher in mRNA samples with a suboptimal start codon context are marked (BPPPy-BPPPu values are bolded; the significance level (according to Mann-Whitney U-test) is shown by numbers: * p < 0.05; ** p < 0.01;*** p < 0.001)