12 ↑ codon pairs
|
%
|
log2(obs/exp)
|
A – B
|
type
|
---|
| |
ORFeome (A)
|
genome (B)
| | |
---|
GGGCUU
|
76
|
0.99
|
0.44
|
0.55
|
1P
|
GAGCAG
|
70
|
0.51
|
0.64
|
-0.13
|
1P
|
GGGCAU
|
69
|
0.83
|
0.39
|
0.44
|
1P
|
UUUGAA
|
66
|
0.31
|
0.12
|
0.19
| |
GACAGC
|
64
|
0.70
|
0.21
|
0.49
|
2P
|
UUUGCC
|
64
|
0.51
|
0.07
|
0.44
|
4P
|
GGAACA
|
64
|
0.82
|
0.52
|
0.30
| |
UACAAC
|
64
|
0.58
|
0.36
|
0.22
|
2P
|
AUCAUC
|
64
|
0.42
|
0.53
|
-0.11
|
2P
|
CUUUCU
|
61
|
0.91
|
0.29
|
0.61
|
3P
|
- Codon pair containing out-frame UAA or UAG triplets on the sense and/or antisense strand are marked in bold. The observed/expected ratios in logarithmic scale for each codon pair in the ORFeome and genome are shown. % – the percentage of organisms in which the codon pair is significantly preferred. A – B – difference between log2 (obs/exp) ratios in the ORFeome and the genome. A – B > 0 represents a stronger effect on the ORFeome level. For the preferred pattern types see Table 4. For the full lists of codon pairs preferred in at least 50% of the organisms studied see [additional file 2].