Table 3. Codon usage and codon-anticodon recognition pattern for tRNA in the mitochondrial genome of Ganoderma lucidum.

AA	Codon	% of all codons(non-intronic proteins)	% of all codons(intronic proteins)	tRNA genefound	AA	Codon	% of all codons(non-intronic proteins)	% of all codons(intronic proteins)	tRNA genefound
Ala	GCA	2.47	1.04	+	Pro	CCC	0.09	0.08	−
Ala	GCC	0.52	0.24	−	Pro	CCG	0.11	0	−
Ala	GCG	0.04	0	−	Pro	CCU	1.9	2.25	−
Ala	GCU	3.26	1.20	−	Gln	CAA	2.47	1.85	+
Cys	UGC	0.07	0.16	+	Gln	CAG	0.07	0.40	−
Cys	UGU	0.44	0.80	−	Arg	AGA	1.99	3.53	+
Asp	GAC	0.2	0.32	+	Arg	AGG	0.02	0.16	−
Asp	GAU	2.03	3.69	−	Arg	CGA	0.02	0.08	+
Glu	GAA	2.43	5.78	+	Arg	CGC	0	0	−
Glu	GAG	0.09	0.72	−	Arg	CGG	0	0.08	−
Phe	UUC	3.04	0.32	+	Arg	CGU	0	0.24	−
Phe	UUU	5.27	4.82	−	Ser	AGC	0.04	0.32	++
Gly	GGA	2.69	1.36	+	Ser	AGU	2.88	1.93	−
Gly	GGC	0.02	0.24	−	Ser	UCA	2.97	1.77	+
Gly	GGG	0.68	0.48	−	Ser	UCC	0.11	0	−
Gly	GGU	3.08	3.29	−	Ser	UCG	0.04	0.16	−
His	CAC	0.61	0.64	+	Ser	UCU	2.51	3.13	−
His	CAU	1.31	2.01	−	Thr	ACA	2.6	2.25	+
Ile	AUA	5.11	3.85	−	Thr	ACC	0.22	0.32	−
Ile	AUC	1.4	0.72	+	Thr	ACG	0.04	0.08	−
Ile	AUU	5.03	3.37	−	Thr	ACU	2.69	2.33	−
Lys	AAA	2.93	10.03	+	Val	GUA	3.8	2.09	+
Lys	AAG	0	1.12	−	Val	GUC	0.22	0.24	−
Leu	CUA	0.63	1.52	+	Val	GUG	0.72	0	−
Leu	CUC	0	0.16	−	Val	GUU	1.94	1.93	−
Leu	CUG	0.09	0.16	−	Trp	UGG	1.2	1.20	+
Leu	CUU	0.66	1.36	−	Trp	UGA	0	0.08	−
Leu	UUA	13.4	7.06	+	Tyr	UAC	1.01	0.40	+
Leu	UUG	0.44	0.56	−	Tyr	UAU	3.72	5.54	−
Met	AUG	1.99	1.44	+++	SeC	UGA	0	0	+
Met	GUG	0.02	0	−	*	UAA	0.33	0.16	−
Asn	AAC	0.63	0.80	+	*	UAG	0.04	0.16	−
Asn	AAU	4.11	7.22	−	*	UGA	0	0	−
Pro	CCA	1.57	0.24	+

Abbreviations: “AA”: amino acid; “+”: one copy of tRNA gene is found; “++”: two copies of tRNA genes are found; “+++”: three copies of tRNA genes are found; “−”: no corresponding tRNA genes are found; “*”: stop codons.