Table 2 Comparison of expected and observed di-nucleotide frequencies and di-nucleotide PWM
From: Optimizing the GATA-3 position weight matrix to improve the identification of novel binding sites
| Â | 1 | 2 | 3 | 4 | 5 |
|---|---|---|---|---|---|
AA | 0 | 0 | 0 | 0 | 14 |
| Â | 0 | 0 | 0 | 0 | 11.75 |
AT | 0 | 0 | 72 | 0 | 10 |
| Â | 0 | 0 | 71.04 | 0 | 5.88 |
AG | 32 | 0 | 5 | 0 | 20 |
| Â | 30.91 | 0 | 5.64 | 0 | 30.12 |
AC | 0 | 0 | 0 | 0 | 4 |
| Â | 0.46 | 0 | 0 | 0 | 2.2 |
TA | 0 | 0 | 0 | 45 | 9 |
| Â | 0 | 0 | 0 | 46.28 | 5.47 |
TT | 0 | 0 | 1 | 24 | 0 |
| Â | 0 | 0 | 1.08 | 21.53 | 2.73 |
TG | 25 | 0 | 0 | 4 | 17 |
| Â | 25.18 | 0 | 0.09 | 4.31 | 14.01 |
TC | 0 | 0 | 0 | 1 | 0 |
| Â | 0.38 | 0 | 0 | 1.08 | 1.03 |
GA | 0 | 76 | 0 | 3 | 0 |
| Â | 0 | 75.55 | 0 | 3.67 | 1.09 |
GT | 0 | 1 | 1 | 2 | 0 |
| Â | 0 | 1.14 | 1.08 | 1.71 | 0.55 |
GG | 3 | 1 | 0 | 0 | 3 |
| Â | 4.58 | 1.14 | 0.09 | 0.34 | 2.8 |
GC | 1 | 0 | 0 | 0 | 1 |
| Â | 0.07 | 0 | 0 | 0.09 | 0.21 |
CA | 0 | 1 | 0 | 0 | 0 |
| Â | 0 | 1.13 | 0 | 0 | 0.27 |
CT | 0 | 0 | 0 | 0 | 0 |
| Â | 0 | 0.02 | 0 | 0 | 0.14 |
CG | 18 | 0 | 0 | 0 | 1 |
| Â | 17.17 | 0.02 | 0 | 0 | 0.7 |
CC | 0 | 0 | 0 | 0 | 0 |
| Â | 0.26 | 0 | 0 | 0 | 0.05 |
AA | -4.62 | -5.66 | -6.16 | -5.81 | -0.16 |
AT | -4.14 | -5.18 | 0.00 | -5.33 | -0.02 |
AG | 0.00 | -5.91 | -3.39 | -6.06 | -0.05 |
AC | -4.41 | -5.45 | -5.94 | -5.60 | -1.20 |
TA | -4.02 | -5.06 | -5.55 | 0.00 | 0.00 |
TT | -4.58 | -5.62 | -4.72 | -1.20 | -4.17 |
TG | -0.09 | -5.75 | -6.24 | -3.11 | -0.06 |
TC | -4.69 | -5.73 | -6.22 | -4.48 | -4.27 |
GA | -4.69 | 0.00 | -6.22 | -3.38 | -4.27 |
GT | -4.44 | -4.08 | -4.57 | -3.54 | -4.02 |
GG | -2.69 | -4.83 | -6.72 | -6.38 | -2.27 |
GC | -3.70 | -6.14 | -6.63 | -6.29 | -3.29 |
CA | -4.70 | -4.34 | -6.24 | -5.89 | -4.28 |
CT | -4.84 | -5.89 | -6.38 | -6.04 | -4.43 |
CG | -0.47 | -5.80 | -6.29 | -5.95 | -2.95 |
CC | -5.17 | -6.22 | -6.71 | -6.37 | -4.76 |
| Â | AG/TG/CG | GA | AT | TA | TA/AT/AG/TG/AA |