id	sid	tid	token	lemma	pos
j9601z43x49	1	1	synonymous	synonymous	ADJ
j9601z43x49	1	2	codons	codon	NOUN
j9601z43x49	1	3	(	(	PUNCT
j9601z43x49	1	4	i.e.	i.e.	X
j9601z43x49	1	5	,	,	PUNCT
j9601z43x49	1	6	codons	codon	NOUN
j9601z43x49	1	7	that	that	PRON
j9601z43x49	1	8	code	code	NOUN
j9601z43x49	1	9	for	for	ADP
j9601z43x49	1	10	the	the	DET
j9601z43x49	1	11	same	same	ADJ
j9601z43x49	1	12	amino	amino	NOUN
j9601z43x49	1	13	acid	acid	NOUN
j9601z43x49	1	14	)	)	PUNCT
j9601z43x49	1	15	are	be	AUX
j9601z43x49	1	16	not	not	PART
j9601z43x49	1	17	used	use	VERB
j9601z43x49	1	18	uniformly	uniformly	ADV
j9601z43x49	1	19	within	within	ADP
j9601z43x49	1	20	a	a	DET
j9601z43x49	1	21	species	specie	NOUN
j9601z43x49	1	22	'	'	PART
j9601z43x49	1	23	genome	genome	NOUN
j9601z43x49	1	24	,	,	PUNCT
j9601z43x49	1	25	resulting	result	VERB
j9601z43x49	1	26	in	in	ADP
j9601z43x49	1	27	measurable	measurable	ADJ
j9601z43x49	1	28	codon	codon	NOUN
j9601z43x49	1	29	usage	usage	NOUN
j9601z43x49	1	30	bias	bias	NOUN
j9601z43x49	1	31	(	(	PUNCT
j9601z43x49	1	32	cub	cub	NOUN
j9601z43x49	1	33	)	)	PUNCT
j9601z43x49	1	34	for	for	ADP
j9601z43x49	1	35	each	each	DET
j9601z43x49	1	36	species	specie	NOUN
j9601z43x49	1	37	.	.	PUNCT
j9601z43x49	2	1	despite	despite	SCONJ
j9601z43x49	2	2	not	not	PART
j9601z43x49	2	3	affecting	affect	VERB
j9601z43x49	2	4	the	the	DET
j9601z43x49	2	5	resulting	result	VERB
j9601z43x49	2	6	amino	amino	ADJ
j9601z43x49	2	7	acid	acid	NOUN
j9601z43x49	2	8	sequence	sequence	NOUN
j9601z43x49	2	9	,	,	PUNCT
j9601z43x49	2	10	alterations	alteration	NOUN
j9601z43x49	2	11	to	to	ADP
j9601z43x49	2	12	synonymous	synonymous	ADJ
j9601z43x49	2	13	codon	codon	NOUN
j9601z43x49	2	14	usage	usage	NOUN
j9601z43x49	2	15	in	in	ADP
j9601z43x49	2	16	a	a	DET
j9601z43x49	2	17	gene	gene	NOUN
j9601z43x49	2	18	have	have	AUX
j9601z43x49	2	19	been	be	AUX
j9601z43x49	2	20	shown	show	VERB
j9601z43x49	2	21	to	to	PART
j9601z43x49	2	22	affect	affect	VERB
j9601z43x49	2	23	the	the	DET
j9601z43x49	2	24	expression	expression	NOUN
j9601z43x49	2	25	,	,	PUNCT
j9601z43x49	2	26	folding	fold	VERB
j9601z43x49	2	27	,	,	PUNCT
j9601z43x49	2	28	and	and	CCONJ
j9601z43x49	2	29	function	function	NOUN
j9601z43x49	2	30	of	of	ADP
j9601z43x49	2	31	the	the	DET
j9601z43x49	2	32	resulting	result	VERB
j9601z43x49	2	33	protein	protein	NOUN
j9601z43x49	2	34	.	.	PUNCT
j9601z43x49	3	1	one	one	NUM
j9601z43x49	3	2	prominent	prominent	ADJ
j9601z43x49	3	3	hypothesis	hypothesis	NOUN
j9601z43x49	3	4	about	about	ADP
j9601z43x49	3	5	why	why	SCONJ
j9601z43x49	3	6	this	this	PRON
j9601z43x49	3	7	occurs	occur	VERB
j9601z43x49	3	8	is	be	AUX
j9601z43x49	3	9	that	that	SCONJ
j9601z43x49	3	10	a	a	DET
j9601z43x49	3	11	codon	codon	NOUN
j9601z43x49	3	12	's	's	PART
j9601z43x49	3	13	translation	translation	NOUN
j9601z43x49	3	14	rate	rate	NOUN
j9601z43x49	3	15	is	be	AUX
j9601z43x49	3	16	directly	directly	ADV
j9601z43x49	3	17	related	relate	VERB
j9601z43x49	3	18	to	to	ADP
j9601z43x49	3	19	how	how	SCONJ
j9601z43x49	3	20	"	"	PUNCT
j9601z43x49	3	21	preferred	prefer	VERB
j9601z43x49	3	22	"	"	PUNCT
j9601z43x49	3	23	the	the	DET
j9601z43x49	3	24	codon	codon	NOUN
j9601z43x49	3	25	is	be	AUX
j9601z43x49	3	26	in	in	ADP
j9601z43x49	3	27	a	a	DET
j9601z43x49	3	28	given	give	VERB
j9601z43x49	3	29	species	specie	NOUN
j9601z43x49	3	30	,	,	PUNCT
j9601z43x49	3	31	and	and	CCONJ
j9601z43x49	3	32	that	that	PRON
j9601z43x49	3	33	altered	alter	VERB
j9601z43x49	3	34	translation	translation	NOUN
j9601z43x49	3	35	rates	rate	NOUN
j9601z43x49	3	36	can	can	AUX
j9601z43x49	3	37	potentially	potentially	ADV
j9601z43x49	3	38	affect	affect	VERB
j9601z43x49	3	39	co	co	ADJ
j9601z43x49	3	40	-	-	ADJ
j9601z43x49	3	41	translational	translational	ADJ
j9601z43x49	3	42	protein	protein	NOUN
j9601z43x49	3	43	folding	folding	NOUN
j9601z43x49	3	44	.	.	PUNCT
j9601z43x49	4	1	however	however	ADV
j9601z43x49	4	2	,	,	PUNCT
j9601z43x49	4	3	there	there	PRON
j9601z43x49	4	4	is	be	VERB
j9601z43x49	4	5	debate	debate	NOUN
j9601z43x49	4	6	about	about	ADP
j9601z43x49	4	7	how	how	SCONJ
j9601z43x49	4	8	best	well	ADV
j9601z43x49	4	9	to	to	PART
j9601z43x49	4	10	define	define	VERB
j9601z43x49	4	11	cub	cub	NOUN
j9601z43x49	4	12	so	so	SCONJ
j9601z43x49	4	13	that	that	SCONJ
j9601z43x49	4	14	it	it	PRON
j9601z43x49	4	15	most	most	ADV
j9601z43x49	4	16	accurately	accurately	ADV
j9601z43x49	4	17	depicts	depict	VERB
j9601z43x49	4	18	codon	codon	NOUN
j9601z43x49	4	19	translation	translation	NOUN
j9601z43x49	4	20	rates	rate	NOUN
j9601z43x49	4	21	.	.	PUNCT
j9601z43x49	5	1	a	a	DET
j9601z43x49	5	2	better	well	ADJ
j9601z43x49	5	3	understanding	understanding	NOUN
j9601z43x49	5	4	of	of	ADP
j9601z43x49	5	5	codon	codon	NOUN
j9601z43x49	5	6	translation	translation	NOUN
j9601z43x49	5	7	rates	rate	NOUN
j9601z43x49	5	8	is	be	AUX
j9601z43x49	5	9	imperative	imperative	ADJ
j9601z43x49	5	10	to	to	ADP
j9601z43x49	5	11	understanding	understand	VERB
j9601z43x49	5	12	the	the	DET
j9601z43x49	5	13	processes	process	NOUN
j9601z43x49	5	14	of	of	ADP
j9601z43x49	5	15	co	co	ADJ
j9601z43x49	5	16	-	-	ADJ
j9601z43x49	5	17	translational	translational	ADJ
j9601z43x49	5	18	protein	protein	NOUN
j9601z43x49	5	19	folding	folding	NOUN
j9601z43x49	5	20	and	and	CCONJ
j9601z43x49	5	21	heterologous	heterologous	ADJ
j9601z43x49	5	22	gene	gene	NOUN
j9601z43x49	5	23	expression	expression	NOUN
j9601z43x49	5	24	.	.	PUNCT
j9601z43x49	6	1	the	the	DET
j9601z43x49	6	2	debate	debate	NOUN
j9601z43x49	6	3	about	about	ADP
j9601z43x49	6	4	how	how	SCONJ
j9601z43x49	6	5	best	well	ADV
j9601z43x49	6	6	to	to	PART
j9601z43x49	6	7	define	define	VERB
j9601z43x49	6	8	cub	cub	NOUN
j9601z43x49	6	9	has	have	AUX
j9601z43x49	6	10	resulted	result	VERB
j9601z43x49	6	11	in	in	ADP
j9601z43x49	6	12	the	the	DET
j9601z43x49	6	13	development	development	NOUN
j9601z43x49	6	14	of	of	ADP
j9601z43x49	6	15	numerous	numerous	ADJ
j9601z43x49	6	16	codon	codon	NOUN
j9601z43x49	6	17	usage	usage	NOUN
j9601z43x49	6	18	models	model	NOUN
j9601z43x49	6	19	,	,	PUNCT
j9601z43x49	6	20	all	all	PRON
j9601z43x49	6	21	of	of	ADP
j9601z43x49	6	22	which	which	PRON
j9601z43x49	6	23	define	define	VERB
j9601z43x49	6	24	preferred	preferred	ADJ
j9601z43x49	6	25	codons	codon	NOUN
j9601z43x49	6	26	in	in	ADP
j9601z43x49	6	27	a	a	DET
j9601z43x49	6	28	distinct	distinct	ADJ
j9601z43x49	6	29	way	way	NOUN
j9601z43x49	6	30	.	.	PUNCT
j9601z43x49	7	1	however	however	ADV
j9601z43x49	7	2	,	,	PUNCT
j9601z43x49	7	3	a	a	DET
j9601z43x49	7	4	rigorous	rigorous	ADJ
j9601z43x49	7	5	comparison	comparison	NOUN
j9601z43x49	7	6	of	of	ADP
j9601z43x49	7	7	these	these	DET
j9601z43x49	7	8	codon	codon	NOUN
j9601z43x49	7	9	usage	usage	NOUN
j9601z43x49	7	10	models	model	NOUN
j9601z43x49	7	11	has	have	AUX
j9601z43x49	7	12	not	not	PART
j9601z43x49	7	13	yet	yet	ADV
j9601z43x49	7	14	been	be	AUX
j9601z43x49	7	15	completed	complete	VERB
j9601z43x49	7	16	.	.	PUNCT
j9601z43x49	8	1	to	to	ADP
j9601z43x49	8	2	that	that	DET
j9601z43x49	8	3	end	end	NOUN
j9601z43x49	8	4	,	,	PUNCT
j9601z43x49	8	5	this	this	DET
j9601z43x49	8	6	work	work	NOUN
j9601z43x49	8	7	discusses	discuss	VERB
j9601z43x49	8	8	a	a	DET
j9601z43x49	8	9	novel	novel	ADJ
j9601z43x49	8	10	,	,	PUNCT
j9601z43x49	8	11	rigorous	rigorous	ADJ
j9601z43x49	8	12	comparison	comparison	NOUN
j9601z43x49	8	13	of	of	ADP
j9601z43x49	8	14	these	these	DET
j9601z43x49	8	15	codon	codon	NOUN
j9601z43x49	8	16	usage	usage	NOUN
j9601z43x49	8	17	models	model	NOUN
j9601z43x49	8	18	relative	relative	ADJ
j9601z43x49	8	19	to	to	ADP
j9601z43x49	8	20	two	two	NUM
j9601z43x49	8	21	different	different	ADJ
j9601z43x49	8	22	types	type	NOUN
j9601z43x49	8	23	of	of	ADP
j9601z43x49	8	24	experimental	experimental	ADJ
j9601z43x49	8	25	data	datum	NOUN
j9601z43x49	8	26	,	,	PUNCT
j9601z43x49	8	27	as	as	ADV
j9601z43x49	8	28	well	well	ADV
j9601z43x49	8	29	as	as	ADP
j9601z43x49	8	30	the	the	DET
j9601z43x49	8	31	development	development	NOUN
j9601z43x49	8	32	of	of	ADP
j9601z43x49	8	33	two	two	NUM
j9601z43x49	8	34	hybrid	hybrid	ADJ
j9601z43x49	8	35	codon	codon	NOUN
j9601z43x49	8	36	usage	usage	NOUN
j9601z43x49	8	37	models	model	NOUN
j9601z43x49	8	38	that	that	PRON
j9601z43x49	8	39	address	address	VERB
j9601z43x49	8	40	a	a	DET
j9601z43x49	8	41	weakness	weakness	NOUN
j9601z43x49	8	42	of	of	ADP
j9601z43x49	8	43	one	one	NUM
j9601z43x49	8	44	of	of	ADP
j9601z43x49	8	45	the	the	DET
j9601z43x49	8	46	most	most	ADV
j9601z43x49	8	47	popular	popular	ADJ
j9601z43x49	8	48	cub	cub	NOUN
j9601z43x49	8	49	models	model	NOUN
j9601z43x49	8	50	.	.	PUNCT
j9601z43x49	9	1	additionally	additionally	ADV
j9601z43x49	9	2	,	,	PUNCT
j9601z43x49	9	3	a	a	DET
j9601z43x49	9	4	novel	novel	NOUN
j9601z43x49	9	5	"	"	PUNCT
j9601z43x49	9	6	codon	codon	NOUN
j9601z43x49	9	7	harmonization	harmonization	NOUN
j9601z43x49	9	8	"	"	PUNCT
j9601z43x49	9	9	algorithm	algorithm	PROPN
j9601z43x49	9	10	is	be	AUX
j9601z43x49	9	11	developed	develop	VERB
j9601z43x49	9	12	,	,	PUNCT
j9601z43x49	9	13	whose	whose	DET
j9601z43x49	9	14	aim	aim	NOUN
j9601z43x49	9	15	is	be	AUX
j9601z43x49	9	16	to	to	PART
j9601z43x49	9	17	replicate	replicate	VERB
j9601z43x49	9	18	the	the	DET
j9601z43x49	9	19	cub	cub	NOUN
j9601z43x49	9	20	of	of	ADP
j9601z43x49	9	21	a	a	DET
j9601z43x49	9	22	native	native	ADJ
j9601z43x49	9	23	gene	gene	NOUN
j9601z43x49	9	24	sequence	sequence	NOUN
j9601z43x49	9	25	in	in	ADP
j9601z43x49	9	26	a	a	DET
j9601z43x49	9	27	synonymous	synonymous	ADJ
j9601z43x49	9	28	mutant	mutant	NOUN
j9601z43x49	9	29	(	(	PUNCT
j9601z43x49	9	30	for	for	ADP
j9601z43x49	9	31	heterologous	heterologous	ADJ
j9601z43x49	9	32	gene	gene	NOUN
j9601z43x49	9	33	expression	expression	NOUN
j9601z43x49	9	34	)	)	PUNCT
j9601z43x49	9	35	.	.	PUNCT
j9601z43x49	10	1	this	this	DET
j9601z43x49	10	2	algorithm	algorithm	PROPN
j9601z43x49	10	3	has	have	VERB
j9601z43x49	10	4	the	the	DET
j9601z43x49	10	5	ability	ability	NOUN
j9601z43x49	10	6	to	to	PART
j9601z43x49	10	7	incorporate	incorporate	VERB
j9601z43x49	10	8	a	a	DET
j9601z43x49	10	9	number	number	NOUN
j9601z43x49	10	10	of	of	ADP
j9601z43x49	10	11	codon	codon	NOUN
j9601z43x49	10	12	usage	usage	NOUN
j9601z43x49	10	13	models	model	NOUN
j9601z43x49	10	14	,	,	PUNCT
j9601z43x49	10	15	and	and	CCONJ
j9601z43x49	10	16	therefore	therefore	ADV
j9601z43x49	10	17	allows	allow	VERB
j9601z43x49	10	18	each	each	DET
j9601z43x49	10	19	model	model	NOUN
j9601z43x49	10	20	's	's	PART
j9601z43x49	10	21	biological	biological	ADJ
j9601z43x49	10	22	efficacy	efficacy	NOUN
j9601z43x49	10	23	to	to	PART
j9601z43x49	10	24	be	be	AUX
j9601z43x49	10	25	tested	test	VERB
j9601z43x49	10	26	in	in	ADP
j9601z43x49	10	27	vivo	vivo	PROPN
j9601z43x49	10	28	.	.	PUNCT
j9601z43x49	11	1	finally	finally	ADV
j9601z43x49	11	2	,	,	PUNCT
j9601z43x49	11	3	a	a	DET
j9601z43x49	11	4	novel	novel	ADJ
j9601z43x49	11	5	framework	framework	NOUN
j9601z43x49	11	6	for	for	ADP
j9601z43x49	11	7	evaluating	evaluate	VERB
j9601z43x49	11	8	the	the	DET
j9601z43x49	11	9	effects	effect	NOUN
j9601z43x49	11	10	of	of	ADP
j9601z43x49	11	11	cub	cub	NOUN
j9601z43x49	11	12	on	on	ADP
j9601z43x49	11	13	three	three	NUM
j9601z43x49	11	14	-	-	PUNCT
j9601z43x49	11	15	dimensional	dimensional	ADJ
j9601z43x49	11	16	protein	protein	NOUN
j9601z43x49	11	17	structures	structure	NOUN
j9601z43x49	11	18	is	be	AUX
j9601z43x49	11	19	discussed	discuss	VERB
j9601z43x49	11	20	.	.	PUNCT
j9601z43x49	12	1	this	this	DET
j9601z43x49	12	2	framework	framework	NOUN
j9601z43x49	12	3	aims	aim	VERB
j9601z43x49	12	4	to	to	PART
j9601z43x49	12	5	illuminate	illuminate	VERB
j9601z43x49	12	6	of	of	ADP
j9601z43x49	12	7	the	the	DET
j9601z43x49	12	8	effects	effect	NOUN
j9601z43x49	12	9	of	of	ADP
j9601z43x49	12	10	hypothesized	hypothesize	VERB
j9601z43x49	12	11	co	co	ADJ
j9601z43x49	12	12	-	-	ADJ
j9601z43x49	12	13	translational	translational	ADJ
j9601z43x49	12	14	folding	folding	NOUN
j9601z43x49	12	15	on	on	ADP
j9601z43x49	12	16	resulting	result	VERB
j9601z43x49	12	17	protein	protein	NOUN
j9601z43x49	12	18	structures	structure	NOUN
j9601z43x49	12	19	.	.	PUNCT