Synonymous Codon Usage Analysis of Thirty Two Mycobacteriophage Genomes
Table 7
Relative Synonymous Codon Usage for the highly and lowly expressed genes.
AA
Codon
AA
Codon
Phe
UUU
0.08
(34)
0.57
(185)
Ser
UCU
0.11
(27)
0.94
(178)
UUC*
1.92
(839)
1.43
(466)
UCC*
1.20
(284)
0.88
(166)
Leu
UUA
0.00
(0)
0.16
(41)
UCA
0.10
(23)
0.84
(160)
UUG
0.09
(33)
1.55
(390)
UCG
1.76
(417)
1.67
(317)
CUU
0.07
(26)
0.93
(235)
Pro
CCU
0.16
(60)
0.85
(249)
CUC*
1.38
(518)
1.16
(292)
CCC*
1.49
(545)
0.88
(257)
CUA
0.01
(5)
0.49
(123)
CCA
0.12
(43)
0.71
(209)
CUG*
4.45
(1676)
1.70
(429)
CCG*
2.23
(813)
1.56
(459)
Ile
AUU
0.19
(78)
1.01
(288)
Thr
ACU
0.09
(47)
0.78
(217)
AUC*
2.81
(1181)
1.74
(495)
ACC*
3.11
(1573)
1.20
(333)
AUA
0.00
(1)
0.25
(72)
ACA
0.07
(33)
0.70
(193)
Met
AUG
1.00
(648)
1.00
(427)
ACG
0.73
(367)
1.32
(364)
Val
GUU
0.15
(88)
0.92
(332)
Ala
GCU
0.22
(183)
0.91
(428)
GUC*
1.97
(1131)
1.04
(373)
GCC*
2.50
(2078)
1.03
(483)
GUA
0.08
(48)
0.34
(123)
GCA
0.22
(181)
0.76
(355)
GUG
1.79
(1025)
1.69
(608)
GCG
1.06
(882)
1.30
(611)
Tyr
UAU
0.10
(41)
0.69
(185)
Cys
UGU
0.06
(7)
0.83
(123)
UAC*
1.90
(767)
1.31
(350)
UGC*
1.94
(212)
1.17
(175)
TER
UAA
0.56
(20)
0.79
(28)
TER
UGA
1.77
(63)
1.63
(58)
UAG
0.67
(24)
0.59
(21)
Trp
UGG
1.00
(531)
1.00
(468)
His
CAU
0.12
(36)
0.89
(236)
Arg
CGU
0.52
(164)
1.37
(364)
CAC*
1.88
(570)
1.11
(296)
CGC*
3.79
(1189)
1.50
(399)
Gln
CAA
0.06
(29)
0.63
(221)
CGA
0.18
(55)
0.85
(227)
CAG*
1.94
(1021)
1.37
(480)
CGG
1.41
(442)
1.23
(328)
Asn
AAU
1.10
(50)
0.75
(265)
Ser
AGU
0.11
(27)
0.73
(139)
AAC*
1.90
(926)
1.25
(446)
AGC*
2.71
(642)
0.94
(178)
Lys
AAA
0.06
(33)
0.60
(229)
Arg
AGA
0.00
(1)
0.41
(109)
AAG*
1.94
(1046)
1.40
(539)
AGG
0.11
(33)
0.64
(170)
Asp
GAU
0.15
(151)
0.89
(564)
Gly
GGU
0.54
(305)
1.04
(414)
GAC*
1.85
(1868)
1.11
(706)
GGC*
2.90
(1646)
1.19
(471)
Glu
GAA
0.29
(270)
0.84
(513)
GGA
0.14
(81)
0.91
(363)
GAG*
1.71
(1609)
1.16
(704)
GGG
0.41
(235)
0.86
(341)
Codons whose occurrences are significantly higher () in the extreme left side of axis 1 than the genes present on the extreme right of the first major axis. Each group contains 10% of sequences at either extreme of the major axis generated by correspondence analysis. AA: amino acid; N: number of codon; on extreme left of axis 1; on extreme right of axis 1.