|
Accumulated Affinity between Codons |
||||||||||||||||||||||
| CF |
1 |
1 |
2 |
2 |
2 |
2 |
2 |
2 |
2 |
2 |
2 |
3 |
3 |
4 |
4 |
4 |
4 |
4 |
6 |
6 |
6 |
|
|
|
||||||||||||||||||||||
| AA |
Met |
Trp |
Lys |
Glu |
Phe |
Asn |
Gln |
His |
Tyr |
Asp |
Cys |
End |
Ile |
Pro |
Gly |
Thr |
Ala |
Val |
Leu |
Arg |
Ser |
|
|
|
||||||||||||||||||||||
| 1 |
Met |
2.8 |
2.6 |
0.0 |
0.0 |
3.2 |
3.2 |
3.3 |
3.6 |
3.1 |
2.9 |
3.1 |
3.2 |
3.7 |
3.4 |
2.8 |
3.4 |
3.2 |
3.6 |
3.7 |
3.4 |
3.9 |
| 1 |
Trp |
2.6 |
1.0 |
0.0 |
0.0 |
3.1 |
3.2 |
3.3 |
3.7 |
3.6 |
3.2 |
3.4 |
2.9 |
3.5 |
3.9 |
3.0 |
3.9 |
3.8 |
3.0 |
4.0 |
3.7 |
3.7 |
| 2 |
Lys |
0.0 |
0.0 |
0.0 |
0.0 |
3.8 |
0.0 |
0.0 |
3.1 |
3.3 |
0.0 |
3.3 |
0.0 |
3.4 |
3.1 |
0.0 |
2.9 |
2.9 |
3.4 |
3.9 |
3.1 |
3.9 |
| 2 |
Glu |
0.0 |
0.0 |
0.0 |
0.0 |
3.9 |
0.0 |
0.0 |
3.6 |
3.4 |
0.0 |
3.4 |
0.0 |
3.5 |
3.9 |
0.0 |
3.5 |
3.5 |
3.5 |
4.2 |
3.6 |
4.2 |
| 2 |
Phe |
3.2 |
3.1 |
3.8 |
3.9 |
0.0 |
3.4 |
3.3 |
0.0 |
0.0 |
3.5 |
0.0 |
3.6 |
3.1 |
0.0 |
4.0 |
3.5 |
3.3 |
3.3 |
0.0 |
4.0 |
3.2 |
| 2 |
Asn |
3.2 |
3.2 |
0.0 |
0.0 |
3.4 |
2.9 |
0.0 |
2.8 |
3.5 |
3.2 |
3.7 |
3.6 |
3.6 |
0.0 |
3.2 |
2.9 |
3.0 |
3.9 |
4.0 |
3.2 |
3.8 |
| 2 |
Gln |
3.3 |
3.3 |
0.0 |
0.0 |
3.3 |
0.0 |
3.2 |
0.0 |
3.2 |
3.3 |
4.0 |
3.6 |
2.8 |
3.3 |
3.5 |
2.9 |
3.9 |
4.0 |
4.1 |
3.7 |
3.9 |
| 2 |
His |
3.6 |
3.7 |
3.1 |
3.6 |
0.0 |
2.8 |
0.0 |
2.7 |
2.7 |
3.7 |
3.6 |
3.8 |
3.2 |
0.0 |
4.0 |
3.1 |
3.6 |
4.0 |
3.7 |
3.9 |
3.7 |
| 2 |
Tyr |
3.1 |
3.6 |
3.3 |
3.4 |
0.0 |
3.5 |
3.2 |
2.7 |
3.5 |
3.2 |
3.2 |
3.9 |
3.7 |
0.0 |
3.9 |
3.4 |
3.3 |
4.0 |
3.7 |
3.8 |
4.0 |
| 2 |
Asp |
2.9 |
3.2 |
0.0 |
0.0 |
3.5 |
3.2 |
3.3 |
3.7 |
3.2 |
3.2 |
3.5 |
3.4 |
3.8 |
3.7 |
3.4 |
3.5 |
3.5 |
4.0 |
4.0 |
3.9 |
4.2 |
| 2 |
Cys |
3.1 |
3.4 |
3.3 |
3.4 |
0.0 |
3.7 |
4.0 |
3.6 |
3.2 |
3.5 |
3.5 |
3.7 |
3.6 |
3.6 |
4.0 |
3.9 |
4.2 |
3.8 |
3.7 |
4.1 |
3.9 |
| 3 |
End |
3.2 |
2.9 |
0.0 |
0.0 |
3.6 |
3.6 |
3.6 |
3.8 |
3.9 |
3.4 |
3.7 |
3.8 |
4.0 |
3.7 |
3.3 |
3.9 |
3.8 |
3.9 |
4.3 |
3.8 |
4.2 |
| 3 |
Ile |
3.7 |
3.5 |
3.4 |
3.5 |
3.1 |
3.6 |
2.8 |
3.2 |
3.7 |
3.8 |
3.6 |
4.0 |
3.9 |
0.0 |
3.8 |
3.6 |
3.2 |
4.0 |
4.0 |
3.8 |
4.0 |
| 4 |
Pro |
3.4 |
3.9 |
3.1 |
3.9 |
0.0 |
0.0 |
3.3 |
0.0 |
0.0 |
3.7 |
3.6 |
3.7 |
0.0 |
3.2 |
4.5 |
3.3 |
4.1 |
4.2 |
3.6 |
4.3 |
3.9 |
| 4 |
Gly |
2.8 |
3.0 |
0.0 |
0.0 |
4.0 |
3.2 |
3.5 |
4.0 |
3.9 |
3.4 |
4.0 |
3.3 |
3.8 |
4.5 |
3.5 |
4.2 |
4.3 |
4.0 |
4.5 |
4.2 |
4.4 |
| 4 |
Thr |
3.4 |
3.9 |
2.9 |
3.5 |
3.5 |
2.9 |
2.9 |
3.7 |
3.4 |
3.5 |
3.9 |
3.9 |
3.6 |
3.3 |
4.2 |
3.2 |
3.9 |
4.4 |
4.2 |
4.2 |
4.3 |
| 4 |
Ala |
3.2 |
3.8 |
2.9 |
3.5 |
3.3 |
3.0 |
3.9 |
3.6 |
3.3 |
3.5 |
4.2 |
3.8 |
3.2 |
4.1 |
4.3 |
3.9 |
4.5 |
4.4 |
4.3 |
4.4 |
4.3 |
| 4 |
Val |
3.6 |
3.0 |
3.4 |
3.5 |
3.3 |
3.9 |
4.0 |
4.0 |
4.0 |
4.0 |
3.8 |
3.9 |
4.0 |
4.2 |
4.0 |
4.4 |
4.4 |
3.6 |
4.3 |
4.4 |
4.1 |
| 6 |
Leu |
3.7 |
4.0 |
3.9 |
4.2 |
0.0 |
4.0 |
4.1 |
3.7 |
3.7 |
4.0 |
3.7 |
4.3 |
4.0 |
3.6 |
4.5 |
4.2 |
4.3 |
4.3 |
4.0 |
4.5 |
4.3 |
| 6 |
Arg |
3.4 |
3.7 |
3.1 |
3.6 |
4.0 |
3.2 |
3.7 |
3.9 |
3.8 |
3.9 |
4.1 |
3.8 |
3.8 |
4.3 |
4.2 |
4.2 |
4.4 |
4.4 |
4.5 |
4.5 |
4.6 |
| 6 |
Ser |
4.0 |
3.8 |
3.9 |
4.2 |
3.2 |
3.7 |
3.9 |
3.5 |
3.8 |
4.2 |
4.0 |
4.2 |
3.8 |
3.8 |
4.5 |
4.2 |
4.4 |
4.2 |
4.3 |
4.6 |
4.1 |
|
Each value is the accumulated affinity (dG) between synonymous codons corresponding to the indicated amino acids (log-kcal/mol); CF: codon frequency/number of synonymous codons/amino acid. Highest (>4) and lowest (<3) values are indicated. | ||||||||||||||||||||||
Biro Theoretical Biology and Medical Modelling 2008 5:14 doi:10.1186/1742-4682-5-14 |
||||||||||||||||||||||