id	sid	tid	token	lemma	pos
cord-260508-z11exbyu	1	1	key	key	JJ
cord-260508-z11exbyu	2	1	:	:	:
cord-260508-z11exbyu	2	2	cord-260508-z11exbyu	cord-260508-z11exbyu	NN
cord-260508-z11exbyu	2	3	authors	author	NNS
cord-260508-z11exbyu	2	4	:	:	:
cord-260508-z11exbyu	2	5	Wang	Wang	NNP
cord-260508-z11exbyu	2	6	,	,	,
cord-260508-z11exbyu	2	7	Hongru	Hongru	NNP
cord-260508-z11exbyu	2	8	;	;	:
cord-260508-z11exbyu	2	9	Pipes	Pipes	NNP
cord-260508-z11exbyu	2	10	,	,	,
cord-260508-z11exbyu	2	11	Lenore	Lenore	NNP
cord-260508-z11exbyu	2	12	;	;	:
cord-260508-z11exbyu	2	13	Nielsen	Nielsen	NNP
cord-260508-z11exbyu	2	14	,	,	,
cord-260508-z11exbyu	3	1	Rasmus	Rasmus	NNP
cord-260508-z11exbyu	3	2	title	title	NN
cord-260508-z11exbyu	3	3	:	:	:
cord-260508-z11exbyu	4	1	Synonymous	synonymous	JJ
cord-260508-z11exbyu	4	2	mutations	mutation	NNS
cord-260508-z11exbyu	4	3	and	and	CC
cord-260508-z11exbyu	4	4	the	the	DT
cord-260508-z11exbyu	4	5	molecular	molecular	JJ
cord-260508-z11exbyu	4	6	evolution	evolution	NN
cord-260508-z11exbyu	4	7	of	of	IN
cord-260508-z11exbyu	4	8	SARS	SARS	NNP
cord-260508-z11exbyu	4	9	-	-	HYPH
cord-260508-z11exbyu	4	10	Cov-2	Cov-2	NNP
cord-260508-z11exbyu	4	11	origins	origin	NNS
cord-260508-z11exbyu	4	12	date	date	NN
cord-260508-z11exbyu	4	13	:	:	:
cord-260508-z11exbyu	4	14	2020	2020	CD
cord-260508-z11exbyu	4	15	-	-	SYM
cord-260508-z11exbyu	4	16	10	10	CD
cord-260508-z11exbyu	4	17	-	-	SYM
cord-260508-z11exbyu	4	18	12	12	CD
cord-260508-z11exbyu	4	19	journal	journal	NN
cord-260508-z11exbyu	4	20	:	:	:
cord-260508-z11exbyu	5	1	bioRxiv	biorxiv	IN
cord-260508-z11exbyu	5	2	DOI	DOI	NNP
cord-260508-z11exbyu	5	3	:	:	:
cord-260508-z11exbyu	6	1	10.1101/2020.04.20.052019	10.1101/2020.04.20.052019	NNP
cord-260508-z11exbyu	6	2	sha	sha	NNP
cord-260508-z11exbyu	6	3	:	:	:
cord-260508-z11exbyu	7	1	de775425b3ddfa079066d35340786adde062408f	de775425b3ddfa079066d35340786adde062408f	NNP
cord-260508-z11exbyu	7	2	doc_id	doc_id	CD
cord-260508-z11exbyu	7	3	:	:	:
cord-260508-z11exbyu	8	1	260508	260508	CD
cord-260508-z11exbyu	8	2	cord_uid	cord_uid	NNS
cord-260508-z11exbyu	8	3	:	:	:
cord-260508-z11exbyu	9	1	z11exbyu	z11exbyu	NNP
cord-260508-z11exbyu	10	1	Human	human	JJ
cord-260508-z11exbyu	10	2	severe	severe	JJ
cord-260508-z11exbyu	10	3	acute	acute	JJ
cord-260508-z11exbyu	10	4	respiratory	respiratory	JJ
cord-260508-z11exbyu	10	5	syndrome	syndrome	NN
cord-260508-z11exbyu	10	6	coronavirus	coronavirus	NN
cord-260508-z11exbyu	10	7	2	2	CD
cord-260508-z11exbyu	11	1	(	(	-LRB-
cord-260508-z11exbyu	11	2	SARS	SARS	NNP
cord-260508-z11exbyu	11	3	-	-	HYPH
cord-260508-z11exbyu	11	4	CoV-2	CoV-2	NNP
cord-260508-z11exbyu	11	5	)	)	-RRB-
cord-260508-z11exbyu	11	6	is	be	VBZ
cord-260508-z11exbyu	11	7	most	most	RBS
cord-260508-z11exbyu	11	8	closely	closely	RB
cord-260508-z11exbyu	11	9	related	relate	VBN
cord-260508-z11exbyu	11	10	,	,	,
cord-260508-z11exbyu	11	11	by	by	IN
cord-260508-z11exbyu	11	12	average	average	JJ
cord-260508-z11exbyu	11	13	genetic	genetic	JJ
cord-260508-z11exbyu	11	14	distance	distance	NN
cord-260508-z11exbyu	11	15	,	,	,
cord-260508-z11exbyu	11	16	to	to	IN
cord-260508-z11exbyu	11	17	two	two	CD
cord-260508-z11exbyu	11	18	coronaviruses	coronaviruse	NNS
cord-260508-z11exbyu	11	19	isolated	isolate	VBN
cord-260508-z11exbyu	11	20	from	from	IN
cord-260508-z11exbyu	11	21	bats	bat	NNS
cord-260508-z11exbyu	11	22	,	,	,
cord-260508-z11exbyu	11	23	RaTG13	ratg13	NN
cord-260508-z11exbyu	11	24	and	and	CC
cord-260508-z11exbyu	11	25	RmYN02	rmyn02	UH
cord-260508-z11exbyu	11	26	.	.	.
cord-260508-z11exbyu	12	1	However	however	RB
cord-260508-z11exbyu	12	2	,	,	,
cord-260508-z11exbyu	12	3	there	there	EX
cord-260508-z11exbyu	12	4	is	be	VBZ
cord-260508-z11exbyu	12	5	a	a	DT
cord-260508-z11exbyu	12	6	segment	segment	NN
cord-260508-z11exbyu	12	7	of	of	IN
cord-260508-z11exbyu	12	8	high	high	JJ
cord-260508-z11exbyu	12	9	amino	amino	NN
cord-260508-z11exbyu	12	10	acid	acid	NN
cord-260508-z11exbyu	12	11	similarity	similarity	NN
cord-260508-z11exbyu	12	12	between	between	IN
cord-260508-z11exbyu	12	13	human	human	JJ
cord-260508-z11exbyu	12	14	SARS	SARS	NNP
cord-260508-z11exbyu	12	15	-	-	HYPH
cord-260508-z11exbyu	12	16	CoV-2	CoV-2	NNP
cord-260508-z11exbyu	12	17	and	and	CC
cord-260508-z11exbyu	12	18	a	a	DT
cord-260508-z11exbyu	12	19	pangolin	pangolin	NN
cord-260508-z11exbyu	12	20	isolated	isolate	VBN
cord-260508-z11exbyu	12	21	strain	strain	NN
cord-260508-z11exbyu	12	22	,	,	,
cord-260508-z11exbyu	12	23	GD410721	GD410721	NNP
cord-260508-z11exbyu	12	24	,	,	,
cord-260508-z11exbyu	12	25	in	in	IN
cord-260508-z11exbyu	12	26	the	the	DT
cord-260508-z11exbyu	12	27	receptor	receptor	NN
cord-260508-z11exbyu	12	28	binding	bind	VBG
cord-260508-z11exbyu	12	29	domain	domain	NN
cord-260508-z11exbyu	12	30	(	(	-LRB-
cord-260508-z11exbyu	12	31	RBD	RBD	NNP
cord-260508-z11exbyu	12	32	)	)	-RRB-
cord-260508-z11exbyu	12	33	of	of	IN
cord-260508-z11exbyu	12	34	the	the	DT
cord-260508-z11exbyu	12	35	spike	spike	NN
cord-260508-z11exbyu	12	36	protein	protein	NN
cord-260508-z11exbyu	12	37	,	,	,
cord-260508-z11exbyu	12	38	a	a	DT
cord-260508-z11exbyu	12	39	pattern	pattern	NN
cord-260508-z11exbyu	12	40	that	that	WDT
cord-260508-z11exbyu	12	41	can	can	MD
cord-260508-z11exbyu	12	42	be	be	VB
cord-260508-z11exbyu	12	43	caused	cause	VBN
cord-260508-z11exbyu	12	44	by	by	IN
cord-260508-z11exbyu	12	45	either	either	DT
cord-260508-z11exbyu	12	46	recombination	recombination	NN
cord-260508-z11exbyu	12	47	or	or	CC
cord-260508-z11exbyu	12	48	by	by	IN
cord-260508-z11exbyu	12	49	convergent	convergent	JJ
cord-260508-z11exbyu	12	50	amino	amino	NN
cord-260508-z11exbyu	12	51	acid	acid	NN
cord-260508-z11exbyu	12	52	evolution	evolution	NN
cord-260508-z11exbyu	12	53	driven	drive	VBN
cord-260508-z11exbyu	12	54	by	by	IN
cord-260508-z11exbyu	12	55	natural	natural	JJ
cord-260508-z11exbyu	12	56	selection	selection	NN
cord-260508-z11exbyu	12	57	.	.	.
cord-260508-z11exbyu	13	1	We	-PRON-	PRP
cord-260508-z11exbyu	13	2	perform	perform	VBP
cord-260508-z11exbyu	13	3	a	a	DT
cord-260508-z11exbyu	13	4	detailed	detailed	JJ
cord-260508-z11exbyu	13	5	analysis	analysis	NN
cord-260508-z11exbyu	13	6	of	of	IN
cord-260508-z11exbyu	13	7	the	the	DT
cord-260508-z11exbyu	13	8	synonymous	synonymous	JJ
cord-260508-z11exbyu	13	9	divergence	divergence	NN
cord-260508-z11exbyu	13	10	,	,	,
cord-260508-z11exbyu	13	11	which	which	WDT
cord-260508-z11exbyu	13	12	is	be	VBZ
cord-260508-z11exbyu	13	13	less	less	RBR
cord-260508-z11exbyu	13	14	likely	likely	JJ
cord-260508-z11exbyu	13	15	to	to	TO
cord-260508-z11exbyu	13	16	be	be	VB
cord-260508-z11exbyu	13	17	affected	affect	VBN
cord-260508-z11exbyu	13	18	by	by	IN
cord-260508-z11exbyu	13	19	selection	selection	NN
cord-260508-z11exbyu	13	20	than	than	IN
cord-260508-z11exbyu	13	21	amino	amino	NN
cord-260508-z11exbyu	13	22	acid	acid	NN
cord-260508-z11exbyu	13	23	divergence	divergence	NN
cord-260508-z11exbyu	13	24	,	,	,
cord-260508-z11exbyu	13	25	between	between	IN
cord-260508-z11exbyu	13	26	human	human	JJ
cord-260508-z11exbyu	13	27	SARS	SARS	NNP
cord-260508-z11exbyu	13	28	-	-	HYPH
cord-260508-z11exbyu	13	29	CoV-2	CoV-2	NNP
cord-260508-z11exbyu	13	30	and	and	CC
cord-260508-z11exbyu	13	31	related	related	JJ
cord-260508-z11exbyu	13	32	strains	strain	NNS
cord-260508-z11exbyu	13	33	.	.	.
cord-260508-z11exbyu	14	1	We	-PRON-	PRP
cord-260508-z11exbyu	14	2	show	show	VBP
cord-260508-z11exbyu	14	3	that	that	IN
cord-260508-z11exbyu	14	4	the	the	DT
cord-260508-z11exbyu	14	5	synonymous	synonymous	JJ
cord-260508-z11exbyu	14	6	divergence	divergence	NN
cord-260508-z11exbyu	14	7	between	between	IN
cord-260508-z11exbyu	14	8	the	the	DT
cord-260508-z11exbyu	14	9	bat	bat	NN
cord-260508-z11exbyu	14	10	derived	derive	VBN
cord-260508-z11exbyu	14	11	viruses	virus	NNS
cord-260508-z11exbyu	14	12	and	and	CC
cord-260508-z11exbyu	14	13	SARS	SARS	NNP
cord-260508-z11exbyu	14	14	-	-	HYPH
cord-260508-z11exbyu	14	15	CoV-2	CoV-2	NNP
cord-260508-z11exbyu	14	16	is	be	VBZ
cord-260508-z11exbyu	14	17	larger	large	JJR
cord-260508-z11exbyu	14	18	than	than	IN
cord-260508-z11exbyu	14	19	between	between	IN
cord-260508-z11exbyu	14	20	GD410721	GD410721	NNP
cord-260508-z11exbyu	14	21	and	and	CC
cord-260508-z11exbyu	14	22	SARS	SARS	NNP
cord-260508-z11exbyu	14	23	-	-	HYPH
cord-260508-z11exbyu	14	24	CoV-2	CoV-2	NNP
cord-260508-z11exbyu	14	25	in	in	IN
cord-260508-z11exbyu	14	26	the	the	DT
cord-260508-z11exbyu	14	27	RBD	RBD	NNP
cord-260508-z11exbyu	14	28	,	,	,
cord-260508-z11exbyu	14	29	providing	provide	VBG
cord-260508-z11exbyu	14	30	strong	strong	JJ
cord-260508-z11exbyu	14	31	additional	additional	JJ
cord-260508-z11exbyu	14	32	support	support	NN
cord-260508-z11exbyu	14	33	for	for	IN
cord-260508-z11exbyu	14	34	the	the	DT
cord-260508-z11exbyu	14	35	recombination	recombination	NN
cord-260508-z11exbyu	14	36	hypothesis	hypothesis	NN
cord-260508-z11exbyu	14	37	.	.	.
cord-260508-z11exbyu	15	1	However	however	RB
cord-260508-z11exbyu	15	2	,	,	,
cord-260508-z11exbyu	15	3	the	the	DT
cord-260508-z11exbyu	15	4	synonymous	synonymous	JJ
cord-260508-z11exbyu	15	5	divergence	divergence	NN
cord-260508-z11exbyu	15	6	between	between	IN
cord-260508-z11exbyu	15	7	pangolin	pangolin	NN
cord-260508-z11exbyu	15	8	strain	strain	NN
cord-260508-z11exbyu	15	9	and	and	CC
cord-260508-z11exbyu	15	10	SARS	SARS	NNP
cord-260508-z11exbyu	15	11	-	-	HYPH
cord-260508-z11exbyu	15	12	CoV-2	CoV-2	NNP
cord-260508-z11exbyu	15	13	is	be	VBZ
cord-260508-z11exbyu	15	14	also	also	RB
cord-260508-z11exbyu	15	15	relatively	relatively	RB
cord-260508-z11exbyu	15	16	high	high	JJ
cord-260508-z11exbyu	15	17	,	,	,
cord-260508-z11exbyu	15	18	which	which	WDT
cord-260508-z11exbyu	15	19	is	be	VBZ
cord-260508-z11exbyu	15	20	not	not	RB
cord-260508-z11exbyu	15	21	consistent	consistent	JJ
cord-260508-z11exbyu	15	22	with	with	IN
cord-260508-z11exbyu	15	23	a	a	DT
cord-260508-z11exbyu	15	24	recent	recent	JJ
cord-260508-z11exbyu	15	25	recombination	recombination	NN
cord-260508-z11exbyu	15	26	between	between	IN
cord-260508-z11exbyu	15	27	them	-PRON-	PRP
cord-260508-z11exbyu	15	28	,	,	,
cord-260508-z11exbyu	15	29	instead	instead	RB
cord-260508-z11exbyu	15	30	it	-PRON-	PRP
cord-260508-z11exbyu	15	31	suggests	suggest	VBZ
cord-260508-z11exbyu	15	32	a	a	DT
cord-260508-z11exbyu	15	33	recombination	recombination	NN
cord-260508-z11exbyu	15	34	into	into	IN
cord-260508-z11exbyu	15	35	RaTG13	RaTG13	NNP
cord-260508-z11exbyu	15	36	.	.	.
cord-260508-z11exbyu	16	1	We	-PRON-	PRP
cord-260508-z11exbyu	16	2	also	also	RB
cord-260508-z11exbyu	16	3	find	find	VBP
cord-260508-z11exbyu	16	4	a	a	DT
cord-260508-z11exbyu	16	5	14-fold	14-fold	CD
cord-260508-z11exbyu	16	6	increase	increase	NN
cord-260508-z11exbyu	16	7	in	in	IN
cord-260508-z11exbyu	16	8	the	the	DT
cord-260508-z11exbyu	16	9	dN	dN	NNP
cord-260508-z11exbyu	16	10	/	/	SYM
cord-260508-z11exbyu	16	11	dS	ds	NN
cord-260508-z11exbyu	16	12	ratio	ratio	NN
cord-260508-z11exbyu	16	13	from	from	IN
cord-260508-z11exbyu	16	14	the	the	DT
cord-260508-z11exbyu	16	15	lineage	lineage	NN
cord-260508-z11exbyu	16	16	leading	lead	VBG
cord-260508-z11exbyu	16	17	to	to	IN
cord-260508-z11exbyu	16	18	SARS	SARS	NNP
cord-260508-z11exbyu	16	19	-	-	HYPH
cord-260508-z11exbyu	16	20	CoV-2	CoV-2	NNP
cord-260508-z11exbyu	16	21	to	to	IN
cord-260508-z11exbyu	16	22	the	the	DT
cord-260508-z11exbyu	16	23	strains	strain	NNS
cord-260508-z11exbyu	16	24	of	of	IN
cord-260508-z11exbyu	16	25	the	the	DT
cord-260508-z11exbyu	16	26	current	current	JJ
cord-260508-z11exbyu	16	27	pandemic	pandemic	NN
cord-260508-z11exbyu	16	28	,	,	,
cord-260508-z11exbyu	16	29	suggesting	suggest	VBG
cord-260508-z11exbyu	16	30	that	that	IN
cord-260508-z11exbyu	16	31	the	the	DT
cord-260508-z11exbyu	16	32	vast	vast	JJ
cord-260508-z11exbyu	16	33	majority	majority	NN
cord-260508-z11exbyu	16	34	of	of	IN
cord-260508-z11exbyu	16	35	non	non	JJ
cord-260508-z11exbyu	16	36	-	-	JJ
cord-260508-z11exbyu	16	37	synonymous	synonymous	JJ
cord-260508-z11exbyu	16	38	mutations	mutation	NNS
cord-260508-z11exbyu	16	39	currently	currently	RB
cord-260508-z11exbyu	16	40	segregating	segregate	VBG
cord-260508-z11exbyu	16	41	within	within	IN
cord-260508-z11exbyu	16	42	the	the	DT
cord-260508-z11exbyu	16	43	human	human	JJ
cord-260508-z11exbyu	16	44	strains	strain	NNS
cord-260508-z11exbyu	16	45	have	have	VBP
cord-260508-z11exbyu	16	46	a	a	DT
cord-260508-z11exbyu	16	47	negative	negative	JJ
cord-260508-z11exbyu	16	48	impact	impact	NN
cord-260508-z11exbyu	16	49	on	on	IN
cord-260508-z11exbyu	16	50	viral	viral	JJ
cord-260508-z11exbyu	16	51	fitness	fitness	NN
cord-260508-z11exbyu	16	52	.	.	.
cord-260508-z11exbyu	17	1	Finally	finally	RB
cord-260508-z11exbyu	17	2	,	,	,
cord-260508-z11exbyu	17	3	we	-PRON-	PRP
cord-260508-z11exbyu	17	4	estimate	estimate	VBP
cord-260508-z11exbyu	17	5	that	that	IN
cord-260508-z11exbyu	17	6	the	the	DT
cord-260508-z11exbyu	17	7	time	time	NN
cord-260508-z11exbyu	17	8	to	to	IN
cord-260508-z11exbyu	17	9	the	the	DT
cord-260508-z11exbyu	17	10	most	most	RBS
cord-260508-z11exbyu	17	11	recent	recent	JJ
cord-260508-z11exbyu	17	12	common	common	JJ
cord-260508-z11exbyu	17	13	ancestor	ancestor	NN
cord-260508-z11exbyu	17	14	of	of	IN
cord-260508-z11exbyu	17	15	SARS	SARS	NNP
cord-260508-z11exbyu	17	16	-	-	HYPH
cord-260508-z11exbyu	17	17	CoV-2	CoV-2	NNP
cord-260508-z11exbyu	17	18	and	and	CC
cord-260508-z11exbyu	17	19	RaTG13	RaTG13	NNP
cord-260508-z11exbyu	17	20	or	or	CC
cord-260508-z11exbyu	17	21	RmYN02	RmYN02	VBD
cord-260508-z11exbyu	17	22	based	base	VBN
cord-260508-z11exbyu	17	23	on	on	IN
cord-260508-z11exbyu	17	24	synonymous	synonymous	JJ
cord-260508-z11exbyu	17	25	divergence	divergence	NN
cord-260508-z11exbyu	17	26	,	,	,
cord-260508-z11exbyu	17	27	is	be	VBZ
cord-260508-z11exbyu	17	28	51.71	51.71	CD
cord-260508-z11exbyu	17	29	years	year	NNS
cord-260508-z11exbyu	17	30	(	(	-LRB-
cord-260508-z11exbyu	17	31	95	95	CD
cord-260508-z11exbyu	17	32	%	%	NN
cord-260508-z11exbyu	17	33	C.I.	C.I.	NNP
cord-260508-z11exbyu	17	34	,	,	,
cord-260508-z11exbyu	17	35	28.11	28.11	CD
cord-260508-z11exbyu	17	36	-	-	SYM
cord-260508-z11exbyu	17	37	75.31	75.31	CD
cord-260508-z11exbyu	17	38	)	)	-RRB-
cord-260508-z11exbyu	17	39	and	and	CC
cord-260508-z11exbyu	17	40	37.02	37.02	CD
cord-260508-z11exbyu	17	41	years	year	NNS
cord-260508-z11exbyu	17	42	(	(	-LRB-
cord-260508-z11exbyu	17	43	95	95	CD
cord-260508-z11exbyu	17	44	%	%	NN
cord-260508-z11exbyu	17	45	C.I.	C.I.	NNP
cord-260508-z11exbyu	17	46	,	,	,
cord-260508-z11exbyu	17	47	18.19	18.19	CD
cord-260508-z11exbyu	17	48	-	-	SYM
cord-260508-z11exbyu	17	49	55.85	55.85	CD
cord-260508-z11exbyu	17	50	)	)	-RRB-
cord-260508-z11exbyu	17	51	,	,	,
cord-260508-z11exbyu	17	52	respectively	respectively	RB
cord-260508-z11exbyu	17	53	.	.	.
cord-260508-z11exbyu	18	1	The	the	DT
cord-260508-z11exbyu	18	2	Covid19	Covid19	NNP
cord-260508-z11exbyu	18	3	pandemic	pandemic	NN
cord-260508-z11exbyu	18	4	is	be	VBZ
cord-260508-z11exbyu	18	5	perhaps	perhaps	RB
cord-260508-z11exbyu	18	6	the	the	DT
cord-260508-z11exbyu	18	7	biggest	big	JJS
cord-260508-z11exbyu	18	8	public	public	JJ
cord-260508-z11exbyu	18	9	health	health	NN
cord-260508-z11exbyu	18	10	and	and	CC
cord-260508-z11exbyu	18	11	economic	economic	JJ
cord-260508-z11exbyu	18	12	threat	threat	NN
cord-260508-z11exbyu	18	13	that	that	WDT
cord-260508-z11exbyu	18	14	the	the	DT
cord-260508-z11exbyu	18	15	world	world	NN
cord-260508-z11exbyu	18	16	23	23	CD
cord-260508-z11exbyu	18	17	has	have	VBZ
cord-260508-z11exbyu	18	18	faced	face	VBN
cord-260508-z11exbyu	18	19	for	for	IN
cord-260508-z11exbyu	18	20	decades	decade	NNS
cord-260508-z11exbyu	18	21	(	(	-LRB-
cord-260508-z11exbyu	18	22	Li	Li	NNP
cord-260508-z11exbyu	18	23	,	,	,
cord-260508-z11exbyu	18	24	Guan	Guan	NNP
cord-260508-z11exbyu	18	25	,	,	,
cord-260508-z11exbyu	18	26	et	et	NNP
cord-260508-z11exbyu	18	27	al	al	NNP
cord-260508-z11exbyu	18	28	.	.	NNP
cord-260508-z11exbyu	18	29	2020	2020	CD
cord-260508-z11exbyu	18	30	;	;	:
cord-260508-z11exbyu	18	31	;	;	:
cord-260508-z11exbyu	18	32	Zhou	Zhou	NNP
cord-260508-z11exbyu	18	33	,	,	,
cord-260508-z11exbyu	18	34	Yang	Yang	NNP
cord-260508-z11exbyu	18	35	,	,	,
cord-260508-z11exbyu	18	36	et	et	NNP
cord-260508-z11exbyu	18	37	al	al	NNP
cord-260508-z11exbyu	18	38	.	.	NNP
cord-260508-z11exbyu	18	39	2020	2020	CD
cord-260508-z11exbyu	18	40	)	)	-RRB-
cord-260508-z11exbyu	18	41	.	.	.
cord-260508-z11exbyu	19	1	It	-PRON-	PRP
cord-260508-z11exbyu	19	2	is	be	VBZ
cord-260508-z11exbyu	19	3	24	24	CD
cord-260508-z11exbyu	19	4	caused	cause	VBN
cord-260508-z11exbyu	19	5	by	by	IN
cord-260508-z11exbyu	19	6	a	a	DT
cord-260508-z11exbyu	19	7	coronavirus	coronavirus	NN
cord-260508-z11exbyu	19	8	(	(	-LRB-
cord-260508-z11exbyu	19	9	Lu	Lu	NNP
cord-260508-z11exbyu	19	10	,	,	,
cord-260508-z11exbyu	19	11	et	et	NNP
cord-260508-z11exbyu	19	12	al	al	NNP
cord-260508-z11exbyu	19	13	.	.	NNP
cord-260508-z11exbyu	19	14	2020	2020	CD
cord-260508-z11exbyu	19	15	;	;	:
cord-260508-z11exbyu	19	16	Zhang	Zhang	NNP
cord-260508-z11exbyu	19	17	and	and	CC
cord-260508-z11exbyu	19	18	Holmes	Holmes	NNP
cord-260508-z11exbyu	19	19	2020	2020	CD
cord-260508-z11exbyu	19	20	)	)	-RRB-
cord-260508-z11exbyu	19	21	,	,	,
cord-260508-z11exbyu	19	22	Severe	severe	JJ
cord-260508-z11exbyu	19	23	acute	acute	JJ
cord-260508-z11exbyu	19	24	respiratory	respiratory	NN
cord-260508-z11exbyu	20	1	The	the	DT
cord-260508-z11exbyu	20	2	genome	genome	NN
cord-260508-z11exbyu	20	3	of	of	IN
cord-260508-z11exbyu	20	4	human	human	JJ
cord-260508-z11exbyu	20	5	coronavirus	coronavirus	NN
cord-260508-z11exbyu	20	6	can	can	MD
cord-260508-z11exbyu	20	7	effectively	effectively	RB
cord-260508-z11exbyu	20	8	recombine	recombine	VB
cord-260508-z11exbyu	20	9	with	with	IN
cord-260508-z11exbyu	20	10	other	other	JJ
cord-260508-z11exbyu	20	11	viruses	virus	NNS
cord-260508-z11exbyu	20	12	to	to	TO
cord-260508-z11exbyu	20	13	form	form	VB
cord-260508-z11exbyu	20	14	a	a	DT
cord-260508-z11exbyu	20	15	1	1	CD
cord-260508-z11exbyu	20	16	chimeric	chimeric	JJ
cord-260508-z11exbyu	20	17	new	new	JJ
cord-260508-z11exbyu	20	18	strain	strain	NN
cord-260508-z11exbyu	20	19	when	when	WRB
cord-260508-z11exbyu	20	20	they	-PRON-	PRP
cord-260508-z11exbyu	20	21	co	co	VBD
cord-260508-z11exbyu	20	22	-	-	VBP
cord-260508-z11exbyu	20	23	infect	infect	VB
cord-260508-z11exbyu	20	24	the	the	DT
cord-260508-z11exbyu	20	25	same	same	JJ
cord-260508-z11exbyu	20	26	host	host	NN
cord-260508-z11exbyu	20	27	(	(	-LRB-
cord-260508-z11exbyu	20	28	Forni	Forni	NNP
cord-260508-z11exbyu	20	29	,	,	,
cord-260508-z11exbyu	20	30	et	et	NNP
cord-260508-z11exbyu	20	31	al	al	NNP
cord-260508-z11exbyu	20	32	.	.	.
cord-260508-z11exbyu	20	33	2017	2017	CD
cord-260508-z11exbyu	20	34	;	;	:
cord-260508-z11exbyu	20	35	Boni	Boni	NNP
cord-260508-z11exbyu	20	36	,	,	,
cord-260508-z11exbyu	20	37	et	et	FW
cord-260508-z11exbyu	20	38	al	al	NNP
cord-260508-z11exbyu	20	39	.	.	NNP
cord-260508-z11exbyu	20	40	2020	2020	CD
cord-260508-z11exbyu	20	41	)	)	-RRB-
cord-260508-z11exbyu	20	42	.	.	.
cord-260508-z11exbyu	21	1	2	2	LS
cord-260508-z11exbyu	22	1	Complicated	complicated	JJ
cord-260508-z11exbyu	22	2	recombination	recombination	NN
cord-260508-z11exbyu	22	3	histories	history	NNS
cord-260508-z11exbyu	22	4	have	have	VBP
cord-260508-z11exbyu	22	5	been	be	VBN
cord-260508-z11exbyu	22	6	observed	observe	VBN
cord-260508-z11exbyu	22	7	in	in	IN
cord-260508-z11exbyu	22	8	the	the	DT
cord-260508-z11exbyu	22	9	receptor	receptor	NN
cord-260508-z11exbyu	22	10	binding	bind	VBG
cord-260508-z11exbyu	22	11	motif	motif	NN
cord-260508-z11exbyu	22	12	region	region	NN
cord-260508-z11exbyu	22	13	of	of	IN
cord-260508-z11exbyu	22	14	3	3	CD
cord-260508-z11exbyu	22	15	the	the	DT
cord-260508-z11exbyu	22	16	spike	spike	NN
cord-260508-z11exbyu	22	17	protein	protein	NN
cord-260508-z11exbyu	22	18	Xiao	Xiao	NNP
cord-260508-z11exbyu	22	19	,	,	,
cord-260508-z11exbyu	22	20	et	et	NNP
cord-260508-z11exbyu	22	21	al	al	NNP
cord-260508-z11exbyu	22	22	.	.	.
cord-260508-z11exbyu	23	1	2020	2020	CD
cord-260508-z11exbyu	23	2	;	;	:
cord-260508-z11exbyu	23	3	Zhang	Zhang	NNP
cord-260508-z11exbyu	23	4	,	,	,
cord-260508-z11exbyu	23	5	et	et	NNP
cord-260508-z11exbyu	23	6	al	al	NNP
cord-260508-z11exbyu	23	7	.	.	NNP
cord-260508-z11exbyu	23	8	2020	2020	CD
cord-260508-z11exbyu	23	9	)	)	-RRB-
cord-260508-z11exbyu	23	10	and	and	CC
cord-260508-z11exbyu	23	11	several	several	JJ
cord-260508-z11exbyu	23	12	other	other	JJ
cord-260508-z11exbyu	23	13	4	4	CD
cord-260508-z11exbyu	23	14	regions	region	NNS
cord-260508-z11exbyu	23	15	(	(	-LRB-
cord-260508-z11exbyu	23	16	Boni	Boni	NNP
cord-260508-z11exbyu	23	17	,	,	,
cord-260508-z11exbyu	23	18	et	et	FW
cord-260508-z11exbyu	23	19	al	al	NNP
cord-260508-z11exbyu	23	20	.	.	NNP
cord-260508-z11exbyu	23	21	2020	2020	CD
cord-260508-z11exbyu	23	22	)	)	-RRB-
cord-260508-z11exbyu	23	23	of	of	IN
cord-260508-z11exbyu	23	24	the	the	DT
cord-260508-z11exbyu	23	25	SARS	SARS	NNP
cord-260508-z11exbyu	23	26	-	-	HYPH
cord-260508-z11exbyu	23	27	CoV-2	CoV-2	NNP
cord-260508-z11exbyu	23	28	,	,	,
cord-260508-z11exbyu	23	29	it	-PRON-	PRP
cord-260508-z11exbyu	23	30	is	be	VBZ
cord-260508-z11exbyu	23	31	thus	thus	RB
cord-260508-z11exbyu	23	32	important	important	JJ
cord-260508-z11exbyu	23	33	to	to	TO
cord-260508-z11exbyu	23	34	exhaustively	exhaustively	RB
cord-260508-z11exbyu	23	35	search	search	VB
cord-260508-z11exbyu	23	36	along	along	IN
cord-260508-z11exbyu	23	37	5	5	CD
cord-260508-z11exbyu	23	38	the	the	DT
cord-260508-z11exbyu	23	39	viral	viral	JJ
cord-260508-z11exbyu	23	40	genome	genome	NN
cord-260508-z11exbyu	23	41	for	for	IN
cord-260508-z11exbyu	23	42	other	other	JJ
cord-260508-z11exbyu	23	43	regions	region	NNS
cord-260508-z11exbyu	23	44	potentially	potentially	RB
cord-260508-z11exbyu	23	45	of	of	IN
cord-260508-z11exbyu	23	46	recombination	recombination	NN
cord-260508-z11exbyu	23	47	origin	origin	NN
cord-260508-z11exbyu	23	48	and	and	CC
cord-260508-z11exbyu	23	49	identify	identify	VB
cord-260508-z11exbyu	23	50	possible	possible	JJ
cord-260508-z11exbyu	23	51	6	6	CD
cord-260508-z11exbyu	23	52	donors	donor	NNS
cord-260508-z11exbyu	23	53	associated	associate	VBN
cord-260508-z11exbyu	23	54	with	with	IN
cord-260508-z11exbyu	23	55	them	-PRON-	PRP
cord-260508-z11exbyu	23	56	.	.	.
cord-260508-z11exbyu	24	1	To	to	TO
cord-260508-z11exbyu	24	2	identify	identify	VB
cord-260508-z11exbyu	24	3	possible	possible	JJ
cord-260508-z11exbyu	24	4	viral	viral	JJ
cord-260508-z11exbyu	24	5	strains	strain	NNS
cord-260508-z11exbyu	24	6	that	that	WDT
cord-260508-z11exbyu	24	7	may	may	MD
cord-260508-z11exbyu	24	8	have	have	VB
cord-260508-z11exbyu	24	9	contributed	contribute	VBN
cord-260508-z11exbyu	24	10	,	,	,
cord-260508-z11exbyu	24	11	by	by	IN
cord-260508-z11exbyu	24	12	7	7	CD
cord-260508-z11exbyu	24	13	recombination	recombination	NN
cord-260508-z11exbyu	24	14	,	,	,
cord-260508-z11exbyu	24	15	to	to	IN
cord-260508-z11exbyu	24	16	the	the	DT
cord-260508-z11exbyu	24	17	formation	formation	NN
cord-260508-z11exbyu	24	18	of	of	IN
cord-260508-z11exbyu	24	19	human	human	JJ
cord-260508-z11exbyu	24	20	SARS	SARS	NNP
cord-260508-z11exbyu	24	21	-	-	HYPH
cord-260508-z11exbyu	24	22	CoV-2	CoV-2	NNP
cord-260508-z11exbyu	24	23	,	,	,
cord-260508-z11exbyu	24	24	we	-PRON-	PRP
cord-260508-z11exbyu	24	25	searched	search	VBD
cord-260508-z11exbyu	24	26	NCBI	NCBI	NNP
cord-260508-z11exbyu	24	27	and	and	CC
cord-260508-z11exbyu	24	28	EMBL	EMBL	NNP
cord-260508-z11exbyu	24	29	virus	virus	NN
cord-260508-z11exbyu	24	30	8	8	CD
cord-260508-z11exbyu	24	31	entries	entry	NNS
cord-260508-z11exbyu	24	32	along	along	IN
cord-260508-z11exbyu	24	33	with	with	IN
cord-260508-z11exbyu	24	34	GISAID	GISAID	NNP
cord-260508-z11exbyu	24	35	Epiflu	Epiflu	NNP
cord-260508-z11exbyu	24	36	and	and	CC
cord-260508-z11exbyu	24	37	EpiCov	EpiCov	NNP
cord-260508-z11exbyu	24	38	databases	database	NNS
cord-260508-z11exbyu	24	39	for	for	IN
cord-260508-z11exbyu	24	40	similar	similar	JJ
cord-260508-z11exbyu	24	41	sequences	sequence	NNS
cord-260508-z11exbyu	24	42	using	use	VBG
cord-260508-z11exbyu	24	43	BLAST	blast	NN
cord-260508-z11exbyu	24	44	in	in	IN
cord-260508-z11exbyu	24	45	9	9	CD
cord-260508-z11exbyu	24	46	100bp	100bp	JJ
cord-260508-z11exbyu	24	47	windows	window	NNS
cord-260508-z11exbyu	24	48	stepping	step	VBG
cord-260508-z11exbyu	24	49	every	every	DT
cord-260508-z11exbyu	24	50	10bp	10bp	NN
cord-260508-z11exbyu	24	51	(	(	-LRB-
cord-260508-z11exbyu	24	52	Fig	fig	NN
cord-260508-z11exbyu	24	53	.	.	.
cord-260508-z11exbyu	24	54	1b	1b	CD
cord-260508-z11exbyu	24	55	)	)	-RRB-
cord-260508-z11exbyu	24	56	.	.	.
cord-260508-z11exbyu	25	1	The	the	DT
cord-260508-z11exbyu	25	2	majority	majority	NN
cord-260508-z11exbyu	25	3	of	of	IN
cord-260508-z11exbyu	25	4	the	the	DT
cord-260508-z11exbyu	25	5	genome	genome	NN
cord-260508-z11exbyu	25	6	(	(	-LRB-
cord-260508-z11exbyu	25	7	78.1	78.1	CD
cord-260508-z11exbyu	25	8	%	%	NN
cord-260508-z11exbyu	25	9	,	,	,
cord-260508-z11exbyu	25	10	2330/2982	2330/2982	CD
cord-260508-z11exbyu	25	11	10	10	CD
cord-260508-z11exbyu	25	12	of	of	IN
cord-260508-z11exbyu	25	13	the	the	DT
cord-260508-z11exbyu	25	14	windows	window	NNS
cord-260508-z11exbyu	25	15	)	)	-RRB-
cord-260508-z11exbyu	25	16	has	have	VBZ
cord-260508-z11exbyu	25	17	one	one	CD
cord-260508-z11exbyu	25	18	unique	unique	RB
cord-260508-z11exbyu	25	19	best	well	RBS
cord-260508-z11exbyu	25	20	hit	hit	VBN
cord-260508-z11exbyu	25	21	,	,	,
cord-260508-z11exbyu	25	22	likely	likely	RB
cord-260508-z11exbyu	25	23	reflecting	reflect	VBG
cord-260508-z11exbyu	25	24	the	the	DT
cord-260508-z11exbyu	25	25	high	high	JJ
cord-260508-z11exbyu	25	26	genetic	genetic	JJ
cord-260508-z11exbyu	25	27	diversity	diversity	NN
cord-260508-z11exbyu	25	28	of	of	IN
cord-260508-z11exbyu	25	29	the	the	DT
cord-260508-z11exbyu	25	30	11	11	CD
cord-260508-z11exbyu	25	31	coronavirus	coronavirus	NN
cord-260508-z11exbyu	25	32	.	.	.
cord-260508-z11exbyu	26	1	21.9	21.9	CD
cord-260508-z11exbyu	26	2	%	%	NN
cord-260508-z11exbyu	26	3	of	of	IN
cord-260508-z11exbyu	26	4	the	the	DT
cord-260508-z11exbyu	26	5	genomic	genomic	JJ
cord-260508-z11exbyu	26	6	regions	region	NNS
cord-260508-z11exbyu	26	7	has	have	VBZ
cord-260508-z11exbyu	26	8	multiple	multiple	JJ
cord-260508-z11exbyu	26	9	best	good	JJS
cord-260508-z11exbyu	26	10	hits	hit	NNS
cord-260508-z11exbyu	26	11	,	,	,
cord-260508-z11exbyu	26	12	which	which	WDT
cord-260508-z11exbyu	26	13	suggests	suggest	VBZ
cord-260508-z11exbyu	26	14	that	that	IN
cord-260508-z11exbyu	26	15	these	these	DT
cord-260508-z11exbyu	26	16	12	12	CD
cord-260508-z11exbyu	26	17	regions	region	NNS
cord-260508-z11exbyu	26	18	might	may	MD
cord-260508-z11exbyu	26	19	be	be	VB
cord-260508-z11exbyu	26	20	more	more	RBR
cord-260508-z11exbyu	26	21	conserved	conserve	VBN
cord-260508-z11exbyu	26	22	.	.	.
cord-260508-z11exbyu	27	1	Among	among	IN
cord-260508-z11exbyu	27	2	the	the	DT
cord-260508-z11exbyu	27	3	windows	window	NNS
cord-260508-z11exbyu	27	4	with	with	IN
cord-260508-z11exbyu	27	5	unique	unique	JJ
cord-260508-z11exbyu	27	6	best	good	JJS
cord-260508-z11exbyu	27	7	hits	hit	NNS
cord-260508-z11exbyu	27	8	,	,	,
cord-260508-z11exbyu	27	9	97.0	97.0	CD
cord-260508-z11exbyu	27	10	%	%	NN
cord-260508-z11exbyu	27	11	(	(	-LRB-
cord-260508-z11exbyu	27	12	2260/2330	2260/2330	CD
cord-260508-z11exbyu	27	13	)	)	-RRB-
cord-260508-z11exbyu	27	14	13	13	CD
cord-260508-z11exbyu	27	15	of	of	IN
cord-260508-z11exbyu	27	16	them	-PRON-	PRP
cord-260508-z11exbyu	27	17	were	be	VBD
cord-260508-z11exbyu	27	18	the	the	DT
cord-260508-z11exbyu	27	19	RaTG13	ratg13	NN
cord-260508-z11exbyu	27	20	or	or	CC
cord-260508-z11exbyu	27	21	RmYN02	rmyn02	JJ
cord-260508-z11exbyu	27	22	bat	bat	NN
cord-260508-z11exbyu	27	23	strains	strain	NNS
cord-260508-z11exbyu	27	24	and	and	CC
cord-260508-z11exbyu	27	25	1.9	1.9	CD
cord-260508-z11exbyu	27	26	%	%	NN
cord-260508-z11exbyu	27	27	of	of	IN
cord-260508-z11exbyu	27	28	them	-PRON-	PRP
cord-260508-z11exbyu	27	29	,	,	,
cord-260508-z11exbyu	27	30	including	include	VBG
cord-260508-z11exbyu	27	31	the	the	DT
cord-260508-z11exbyu	27	32	ACE2	ACE2	NNP
cord-260508-z11exbyu	27	33	14	14	CD
cord-260508-z11exbyu	27	34	contact	contact	NN
cord-260508-z11exbyu	27	35	residues	residue	NNS
cord-260508-z11exbyu	27	36	region	region	NN
cord-260508-z11exbyu	27	37	of	of	IN
cord-260508-z11exbyu	27	38	the	the	DT
cord-260508-z11exbyu	27	39	S	S	NNP
cord-260508-z11exbyu	27	40	protein	protein	NN
cord-260508-z11exbyu	27	41	,	,	,
cord-260508-z11exbyu	27	42	were	be	VBD
cord-260508-z11exbyu	27	43	the	the	DT
cord-260508-z11exbyu	27	44	pangolin	pangolin	NNP
cord-260508-z11exbyu	27	45	SARS	SARS	NNP
cord-260508-z11exbyu	27	46	-	-	HYPH
cord-260508-z11exbyu	27	47	CoV-2	CoV-2	NNP
cord-260508-z11exbyu	27	48	virus	virus	NN
cord-260508-z11exbyu	27	49	.	.	.
cord-260508-z11exbyu	28	1	These	these	DT
cord-260508-z11exbyu	28	2	15	15	CD
cord-260508-z11exbyu	28	3	observations	observation	NNS
cord-260508-z11exbyu	28	4	are	be	VBP
cord-260508-z11exbyu	28	5	consistent	consistent	JJ
cord-260508-z11exbyu	28	6	with	with	IN
cord-260508-z11exbyu	28	7	previous	previous	JJ
cord-260508-z11exbyu	28	8	results	result	NNS
cord-260508-z11exbyu	28	9	that	that	WDT
cord-260508-z11exbyu	28	10	RaTG13	ratg13	VBP
cord-260508-z11exbyu	28	11	and	and	CC
cord-260508-z11exbyu	28	12	RmYN02	rmyn02	VBP
cord-260508-z11exbyu	28	13	are	be	VBP
cord-260508-z11exbyu	28	14	the	the	DT
cord-260508-z11exbyu	28	15	most	most	JJS
cord-260508-z11exbyu	28	16	16	16	CD
cord-260508-z11exbyu	28	17	closely	closely	RB
cord-260508-z11exbyu	28	18	related	related	JJ
cord-260508-z11exbyu	28	19	viral	viral	JJ
cord-260508-z11exbyu	28	20	strains	strain	NNS
cord-260508-z11exbyu	28	21	,	,	,
cord-260508-z11exbyu	28	22	while	while	IN
cord-260508-z11exbyu	28	23	the	the	DT
cord-260508-z11exbyu	28	24	region	region	NN
cord-260508-z11exbyu	28	25	containing	contain	VBG
cord-260508-z11exbyu	28	26	the	the	DT
cord-260508-z11exbyu	28	27	ACE2	ACE2	NNP
cord-260508-z11exbyu	28	28	contact	contact	NN
cord-260508-z11exbyu	28	29	residues	residue	NNS
cord-260508-z11exbyu	28	30	is	be	VBZ
cord-260508-z11exbyu	28	31	more	more	JJR
cord-260508-z11exbyu	28	32	17	17	CD
cord-260508-z11exbyu	28	33	closely	closely	RB
cord-260508-z11exbyu	28	34	related	relate	VBN
cord-260508-z11exbyu	28	35	to	to	IN
cord-260508-z11exbyu	28	36	the	the	DT
cord-260508-z11exbyu	28	37	pangolin	pangolin	NNP
cord-260508-z11exbyu	28	38	virus	virus	NN
cord-260508-z11exbyu	28	39	strain	strain	NN
cord-260508-z11exbyu	28	40	Table	Table	NNP
cord-260508-z11exbyu	28	41	4	4	CD
cord-260508-z11exbyu	28	42	)	)	-RRB-
cord-260508-z11exbyu	28	43	.	.	.
cord-260508-z11exbyu	29	1	The	the	DT
cord-260508-z11exbyu	29	2	mosaic	mosaic	JJ
cord-260508-z11exbyu	29	3	pattern	pattern	NN
cord-260508-z11exbyu	29	4	that	that	IN
cord-260508-z11exbyu	29	5	different	different	JJ
cord-260508-z11exbyu	29	6	regions	region	NNS
cord-260508-z11exbyu	29	7	of	of	IN
cord-260508-z11exbyu	29	8	23	23	CD
cord-260508-z11exbyu	29	9	the	the	DT
cord-260508-z11exbyu	29	10	genome	genome	NN
cord-260508-z11exbyu	29	11	show	show	NN
cord-260508-z11exbyu	29	12	highest	high	JJS
cord-260508-z11exbyu	29	13	identity	identity	NN
cord-260508-z11exbyu	29	14	to	to	IN
cord-260508-z11exbyu	29	15	different	different	JJ
cord-260508-z11exbyu	29	16	virus	virus	NN
cord-260508-z11exbyu	29	17	strains	strain	NNS
cord-260508-z11exbyu	29	18	is	be	VBZ
cord-260508-z11exbyu	29	19	likely	likely	JJ
cord-260508-z11exbyu	29	20	to	to	TO
cord-260508-z11exbyu	29	21	have	have	VB
cord-260508-z11exbyu	29	22	been	be	VBN
cord-260508-z11exbyu	29	23	caused	cause	VBN
cord-260508-z11exbyu	29	24	by	by	IN
cord-260508-z11exbyu	29	25	the	the	DT
cord-260508-z11exbyu	29	26	24	24	CD
cord-260508-z11exbyu	29	27	rich	rich	JJ
cord-260508-z11exbyu	29	28	recombination	recombination	NN
cord-260508-z11exbyu	29	29	history	history	NN
cord-260508-z11exbyu	29	30	of	of	IN
cord-260508-z11exbyu	29	31	the	the	DT
cord-260508-z11exbyu	29	32	SARS	SARS	NNP
cord-260508-z11exbyu	29	33	-	-	HYPH
cord-260508-z11exbyu	29	34	CoV-2	CoV-2	NNP
cord-260508-z11exbyu	29	35	lineage	lineage	NN
cord-260508-z11exbyu	29	36	(	(	-LRB-
cord-260508-z11exbyu	29	37	Boni	Boni	NNP
cord-260508-z11exbyu	29	38	,	,	,
cord-260508-z11exbyu	29	39	et	et	FW
cord-260508-z11exbyu	29	40	al	al	NNP
cord-260508-z11exbyu	29	41	.	.	NNP
cord-260508-z11exbyu	29	42	2020	2020	CD
cord-260508-z11exbyu	29	43	;	;	:
cord-260508-z11exbyu	29	44	Li	Li	NNP
cord-260508-z11exbyu	29	45	,	,	,
cord-260508-z11exbyu	29	46	Giorgi	Giorgi	NNP
cord-260508-z11exbyu	29	47	,	,	,
cord-260508-z11exbyu	29	48	et	et	NNP
cord-260508-z11exbyu	29	49	al	al	NNP
cord-260508-z11exbyu	29	50	.	.	NNP
cord-260508-z11exbyu	29	51	2020	2020	CD
cord-260508-z11exbyu	29	52	;	;	:
cord-260508-z11exbyu	29	53	 	 	_SP
cord-260508-z11exbyu	29	54	in	in	IN
cord-260508-z11exbyu	29	55	some	some	DT
cord-260508-z11exbyu	29	56	genomic	genomic	JJ
cord-260508-z11exbyu	29	57	regions	region	NNS
cord-260508-z11exbyu	29	58	may	may	MD
cord-260508-z11exbyu	29	59	suggest	suggest	VB
cord-260508-z11exbyu	29	60	recombination	recombination	NN
cord-260508-z11exbyu	29	61	between	between	IN
cord-260508-z11exbyu	29	62	the	the	DT
cord-260508-z11exbyu	29	63	ancestral	ancestral	JJ
cord-260508-z11exbyu	29	64	lineage	lineage	NN
cord-260508-z11exbyu	29	65	of	of	IN
cord-260508-z11exbyu	29	66	SARS-1	SARS-1	NNP
cord-260508-z11exbyu	29	67	CoV-2	CoV-2	NNP
cord-260508-z11exbyu	29	68	and	and	CC
cord-260508-z11exbyu	29	69	distantly	distantly	RB
cord-260508-z11exbyu	29	70	related	related	JJ
cord-260508-z11exbyu	29	71	virus	virus	NN
cord-260508-z11exbyu	29	72	lineages	lineage	NNS
cord-260508-z11exbyu	29	73	,	,	,
cord-260508-z11exbyu	29	74	although	although	IN
cord-260508-z11exbyu	29	75	more	more	JJR
cord-260508-z11exbyu	29	76	formal	formal	JJ
cord-260508-z11exbyu	29	77	analyses	analysis	NNS
cord-260508-z11exbyu	29	78	are	be	VBP
cord-260508-z11exbyu	29	79	needed	need	VBN
cord-260508-z11exbyu	29	80	to	to	IN
cord-260508-z11exbyu	29	81	2	2	CD
cord-260508-z11exbyu	29	82	determine	determine	VB
cord-260508-z11exbyu	29	83	the	the	DT
cord-260508-z11exbyu	29	84	recombination	recombination	NN
cord-260508-z11exbyu	29	85	history	history	NN
cord-260508-z11exbyu	29	86	(	(	-LRB-
cord-260508-z11exbyu	29	87	see	see	VB
cord-260508-z11exbyu	29	88	also	also	RB
cord-260508-z11exbyu	29	89	Boni	Boni	NNP
cord-260508-z11exbyu	29	90	,	,	,
cord-260508-z11exbyu	29	91	et	et	FW
cord-260508-z11exbyu	29	92	al	al	NNP
cord-260508-z11exbyu	29	93	.	.	.
cord-260508-z11exbyu	30	1	2020	2020	CD
cord-260508-z11exbyu	30	2	for	for	IN
cord-260508-z11exbyu	30	3	further	further	JJ
cord-260508-z11exbyu	30	4	discussion	discussion	NN
cord-260508-z11exbyu	30	5	)	)	-RRB-
cord-260508-z11exbyu	30	6	.	.	.
cord-260508-z11exbyu	31	1	3	3	LS
cord-260508-z11exbyu	31	2	Searching	searching	NN
cord-260508-z11exbyu	31	3	databases	database	NNS
cord-260508-z11exbyu	31	4	with	with	IN
cord-260508-z11exbyu	31	5	BLAST	blast	NN
cord-260508-z11exbyu	31	6	using	use	VBG
cord-260508-z11exbyu	31	7	the	the	DT
cord-260508-z11exbyu	31	8	most	most	RBS
cord-260508-z11exbyu	31	9	closely	closely	RB
cord-260508-z11exbyu	31	10	related	related	JJ
cord-260508-z11exbyu	31	11	viral	viral	JJ
cord-260508-z11exbyu	31	12	strains	strain	NNS
cord-260508-z11exbyu	31	13	,	,	,
cord-260508-z11exbyu	31	14	RaTG13	ratg13	NN
cord-260508-z11exbyu	31	15	and	and	CC
cord-260508-z11exbyu	31	16	4	4	CD
cord-260508-z11exbyu	31	17	RmYN02	rmyn02	UH
cord-260508-z11exbyu	31	18	,	,	,
cord-260508-z11exbyu	31	19	we	-PRON-	PRP
cord-260508-z11exbyu	31	20	observe	observe	VBP
cord-260508-z11exbyu	31	21	a	a	DT
cord-260508-z11exbyu	31	22	very	very	RB
cord-260508-z11exbyu	31	23	similar	similar	JJ
cord-260508-z11exbyu	31	24	pattern	pattern	NN
cord-260508-z11exbyu	31	25	,	,	,
cord-260508-z11exbyu	31	26	as	as	IN
cord-260508-z11exbyu	31	27	that	that	DT
cord-260508-z11exbyu	31	28	observed	observe	VBD
cord-260508-z11exbyu	31	29	for	for	IN
cord-260508-z11exbyu	31	30	SARS	SARS	NNP
cord-260508-z11exbyu	31	31	-	-	HYPH
cord-260508-z11exbyu	31	32	CoV-2	CoV-2	NNP
cord-260508-z11exbyu	31	33	,	,	,
cord-260508-z11exbyu	31	34	in	in	IN
cord-260508-z11exbyu	31	35	terms	term	NNS
cord-260508-z11exbyu	31	36	of	of	IN
cord-260508-z11exbyu	31	37	top	top	JJ
cord-260508-z11exbyu	31	38	5	5	CD
cord-260508-z11exbyu	31	39	hits	hit	NNS
cord-260508-z11exbyu	31	40	across	across	IN
cord-260508-z11exbyu	31	41	the	the	DT
cord-260508-z11exbyu	31	42	genome	genome	NN
cord-260508-z11exbyu	31	43	(	(	-LRB-
cord-260508-z11exbyu	31	44	Fig	Fig	NNP
cord-260508-z11exbyu	31	45	.	.	.
cord-260508-z11exbyu	31	46	1b	1b	CD
cord-260508-z11exbyu	31	47	)	)	-RRB-
cord-260508-z11exbyu	31	48	,	,	,
cord-260508-z11exbyu	31	49	suggesting	suggest	VBG
cord-260508-z11exbyu	31	50	that	that	IN
cord-260508-z11exbyu	31	51	these	these	DT
cord-260508-z11exbyu	31	52	possible	possible	JJ
cord-260508-z11exbyu	31	53	recombination	recombination	NN
cord-260508-z11exbyu	31	54	events	event	NNS
cord-260508-z11exbyu	31	55	with	with	IN
cord-260508-z11exbyu	31	56	6	6	CD
cord-260508-z11exbyu	31	57	distantly	distantly	RB
cord-260508-z11exbyu	31	58	related	related	JJ
cord-260508-z11exbyu	31	59	lineages	lineage	NNS
cord-260508-z11exbyu	31	60	are	be	VBP
cord-260508-z11exbyu	31	61	not	not	RB
cord-260508-z11exbyu	31	62	unique	unique	JJ
cord-260508-z11exbyu	31	63	to	to	IN
cord-260508-z11exbyu	31	64	the	the	DT
cord-260508-z11exbyu	31	65	SARS	SARS	NNP
cord-260508-z11exbyu	31	66	-	-	HYPH
cord-260508-z11exbyu	31	67	CoV-2	CoV-2	NNP
cord-260508-z11exbyu	31	68	lineage	lineage	NN
cord-260508-z11exbyu	31	69	,	,	,
cord-260508-z11exbyu	31	70	but	but	CC
cord-260508-z11exbyu	31	71	happened	happen	VBD
cord-260508-z11exbyu	31	72	on	on	IN
cord-260508-z11exbyu	31	73	the	the	DT
cord-260508-z11exbyu	31	74	7	7	CD
cord-260508-z11exbyu	31	75	ancestral	ancestral	JJ
cord-260508-z11exbyu	31	76	lineage	lineage	NN
cord-260508-z11exbyu	31	77	of	of	IN
cord-260508-z11exbyu	31	78	SARS	SARS	NNP
cord-260508-z11exbyu	31	79	-	-	HYPH
cord-260508-z11exbyu	31	80	CoV-2	CoV-2	NNP
cord-260508-z11exbyu	31	81	,	,	,
cord-260508-z11exbyu	31	82	RaTG13	RaTG13	NNP
cord-260508-z11exbyu	31	83	,	,	,
cord-260508-z11exbyu	31	84	and	and	CC
cord-260508-z11exbyu	31	85	RmYN02	rmyn02	UH
cord-260508-z11exbyu	31	86	.	.	.
cord-260508-z11exbyu	32	1	A	a	DT
cord-260508-z11exbyu	32	2	notable	notable	JJ
cord-260508-z11exbyu	32	3	exception	exception	NN
cord-260508-z11exbyu	32	4	is	be	VBZ
cord-260508-z11exbyu	32	5	a	a	DT
cord-260508-z11exbyu	32	6	large	large	JJ
cord-260508-z11exbyu	32	7	region	region	NN
cord-260508-z11exbyu	32	8	8	8	CD
cord-260508-z11exbyu	32	9	around	around	IN
cord-260508-z11exbyu	32	10	the	the	DT
cord-260508-z11exbyu	32	11	S	S	NNP
cord-260508-z11exbyu	32	12	gene	gene	NN
cord-260508-z11exbyu	32	13	,	,	,
cord-260508-z11exbyu	32	14	where	where	WRB
cord-260508-z11exbyu	32	15	RmYN02	rmyn02	UH
cord-260508-z11exbyu	32	16	show	show	VB
cord-260508-z11exbyu	32	17	little	little	JJ
cord-260508-z11exbyu	32	18	similarity	similarity	NN
cord-260508-z11exbyu	32	19	to	to	IN
cord-260508-z11exbyu	32	20	both	both	DT
cord-260508-z11exbyu	32	21	SARS	SARS	NNP
cord-260508-z11exbyu	32	22	-	-	HYPH
cord-260508-z11exbyu	32	23	CoV-2	CoV-2	NNP
cord-260508-z11exbyu	32	24	and	and	CC
cord-260508-z11exbyu	32	25	RaTG13	RaTG13	NNP
cord-260508-z11exbyu	32	26	.	.	.
cord-260508-z11exbyu	33	1	9	9	CD
cord-260508-z11exbyu	33	2	10	10	CD
cord-260508-z11exbyu	33	3	Sequence	sequence	NN
cord-260508-z11exbyu	33	4	similarity	similarity	NN
cord-260508-z11exbyu	33	5	and	and	CC
cord-260508-z11exbyu	33	6	recombination	recombination	NN
cord-260508-z11exbyu	33	7	11	11	CD
cord-260508-z11exbyu	33	8	We	-PRON-	PRP
cord-260508-z11exbyu	33	9	focus	focus	VBP
cord-260508-z11exbyu	33	10	further	far	RBR
cord-260508-z11exbyu	33	11	on	on	IN
cord-260508-z11exbyu	33	12	studying	study	VBG
cord-260508-z11exbyu	33	13	the	the	DT
cord-260508-z11exbyu	33	14	synonymous	synonymous	JJ
cord-260508-z11exbyu	33	15	evolution	evolution	NN
cord-260508-z11exbyu	33	16	of	of	IN
cord-260508-z11exbyu	33	17	SARS	SARS	NNP
cord-260508-z11exbyu	33	18	-	-	HYPH
cord-260508-z11exbyu	33	19	CoV-2	CoV-2	NNP
cord-260508-z11exbyu	33	20	,	,	,
cord-260508-z11exbyu	33	21	and	and	CC
cord-260508-z11exbyu	33	22	analyzing	analyze	VBG
cord-260508-z11exbyu	33	23	Wuhan-12	wuhan-12	PRP
cord-260508-z11exbyu	33	24	Hu-1	Hu-1	NNP
cord-260508-z11exbyu	33	25	as	as	IN
cord-260508-z11exbyu	33	26	the	the	DT
cord-260508-z11exbyu	33	27	human	human	JJ
cord-260508-z11exbyu	33	28	nCoV19	nCoV19	NNP
cord-260508-z11exbyu	33	29	reference	reference	NN
cord-260508-z11exbyu	33	30	strain	strain	NN
cord-260508-z11exbyu	33	31	We	-PRON-	PRP
cord-260508-z11exbyu	33	32	performed	perform	VBD
cord-260508-z11exbyu	33	33	recombination	recombination	NN
cord-260508-z11exbyu	33	34	analyses	analysis	NNS
cord-260508-z11exbyu	33	35	across	across	IN
cord-260508-z11exbyu	33	36	the	the	DT
cord-260508-z11exbyu	33	37	five	five	CD
cord-260508-z11exbyu	33	38	viral	viral	JJ
cord-260508-z11exbyu	33	39	genomes	genome	NNS
cord-260508-z11exbyu	33	40	based	base	VBN
cord-260508-z11exbyu	33	41	on	on	IN
cord-260508-z11exbyu	33	42	the	the	DT
cord-260508-z11exbyu	33	43	23	23	CD
cord-260508-z11exbyu	33	44	concensus	concensus	NN
cord-260508-z11exbyu	33	45	of	of	IN
cord-260508-z11exbyu	33	46	the	the	DT
cord-260508-z11exbyu	33	47	seven	seven	CD
cord-260508-z11exbyu	33	48	recombination	recombination	NN
cord-260508-z11exbyu	33	49	-	-	HYPH
cord-260508-z11exbyu	33	50	detection	detection	NN
cord-260508-z11exbyu	33	51	methods	method	NNS
cord-260508-z11exbyu	33	52	implemented	implement	VBN
cord-260508-z11exbyu	33	53	in	in	IN
cord-260508-z11exbyu	33	54	RDP5	RDP5	NNP
cord-260508-z11exbyu	33	55	(	(	-LRB-
cord-260508-z11exbyu	33	56	see	see	VB
cord-260508-z11exbyu	33	57	Methods	Methods	NNPS
cord-260508-z11exbyu	33	58	)	)	-RRB-
cord-260508-z11exbyu	33	59	.	.	.
cord-260508-z11exbyu	34	1	24	24	CD
cord-260508-z11exbyu	35	1	We	-PRON-	PRP
cord-260508-z11exbyu	35	2	identified	identify	VBD
cord-260508-z11exbyu	35	3	nine	nine	CD
cord-260508-z11exbyu	35	4	recombination	recombination	NN
cord-260508-z11exbyu	35	5	regions	region	NNS
cord-260508-z11exbyu	35	6	affecting	affect	VBG
cord-260508-z11exbyu	35	7	at	at	RB
cord-260508-z11exbyu	35	8	least	least	RBS
cord-260508-z11exbyu	35	9	one	one	CD
cord-260508-z11exbyu	35	10	of	of	IN
cord-260508-z11exbyu	35	11	the	the	DT
cord-260508-z11exbyu	35	12	sequences	sequence	NNS
cord-260508-z11exbyu	35	13	incongruence	incongruence	NN
cord-260508-z11exbyu	35	14	when	when	WRB
cord-260508-z11exbyu	35	15	compared	compare	VBN
cord-260508-z11exbyu	35	16	with	with	IN
cord-260508-z11exbyu	35	17	genome	genome	NN
cord-260508-z11exbyu	35	18	-	-	HYPH
cord-260508-z11exbyu	35	19	wide	wide	JJ
cord-260508-z11exbyu	35	20	trees	tree	NNS
cord-260508-z11exbyu	35	21	(	(	-LRB-
cord-260508-z11exbyu	35	22	Fig	Fig	NNP
cord-260508-z11exbyu	35	23	.	.	NNP
cord-260508-z11exbyu	35	24	2	2	CD
cord-260508-z11exbyu	35	25	and	and	CC
cord-260508-z11exbyu	35	26	Supplementary	Supplementary	NNP
cord-260508-z11exbyu	35	27	Figure	Figure	NNP
cord-260508-z11exbyu	35	28	1	1	CD
cord-260508-z11exbyu	35	29	-	-	SYM
cord-260508-z11exbyu	35	30	3	3	CD
cord-260508-z11exbyu	35	31	)	)	-RRB-
cord-260508-z11exbyu	35	32	.	.	.
cord-260508-z11exbyu	36	1	1	1	LS
cord-260508-z11exbyu	37	1	Particularly	particularly	RB
cord-260508-z11exbyu	37	2	,	,	,
cord-260508-z11exbyu	37	3	a	a	DT
cord-260508-z11exbyu	37	4	recombination	recombination	NN
cord-260508-z11exbyu	37	5	signal	signal	NN
cord-260508-z11exbyu	37	6	is	be	VBZ
cord-260508-z11exbyu	37	7	found	find	VBN
cord-260508-z11exbyu	37	8	in	in	IN
cord-260508-z11exbyu	37	9	a	a	DT
cord-260508-z11exbyu	37	10	region	region	NN
cord-260508-z11exbyu	37	11	encompassing	encompass	VBG
cord-260508-z11exbyu	37	12	the	the	DT
cord-260508-z11exbyu	37	13	RBD	RBD	NNP
cord-260508-z11exbyu	37	14	of	of	IN
cord-260508-z11exbyu	37	15	the	the	DT
cord-260508-z11exbyu	37	16	S	S	NNP
cord-260508-z11exbyu	37	17	protein	protein	NN
cord-260508-z11exbyu	37	18	,	,	,
cord-260508-z11exbyu	37	19	2	2	CD
cord-260508-z11exbyu	37	20	suggesting	suggest	VBG
cord-260508-z11exbyu	37	21	that	that	IN
cord-260508-z11exbyu	37	22	the	the	DT
cord-260508-z11exbyu	37	23	human	human	JJ
cord-260508-z11exbyu	37	24	SARS	SARS	NNP
cord-260508-z11exbyu	37	25	-	-	HYPH
cord-260508-z11exbyu	37	26	CoV-2	CoV-2	NNP
cord-260508-z11exbyu	37	27	(	(	-LRB-
cord-260508-z11exbyu	37	28	Wuhan	Wuhan	NNP
cord-260508-z11exbyu	37	29	-	-	HYPH
cord-260508-z11exbyu	37	30	Hu-1	Hu-1	NNP
cord-260508-z11exbyu	37	31	)	)	-RRB-
cord-260508-z11exbyu	37	32	sequence	sequence	NN
cord-260508-z11exbyu	37	33	is	be	VBZ
cord-260508-z11exbyu	37	34	a	a	DT
cord-260508-z11exbyu	37	35	recombinant	recombinant	NN
cord-260508-z11exbyu	37	36	with	with	IN
cord-260508-z11exbyu	37	37	the	the	DT
cord-260508-z11exbyu	37	38	3	3	CD
cord-260508-z11exbyu	37	39	Pangolin	Pangolin	NNP
cord-260508-z11exbyu	37	40	-	-	HYPH
cord-260508-z11exbyu	37	41	CoV	CoV	NNP
cord-260508-z11exbyu	37	42	(	(	-LRB-
cord-260508-z11exbyu	37	43	GD410721	GD410721	NNP
cord-260508-z11exbyu	37	44	)	)	-RRB-
cord-260508-z11exbyu	37	45	as	as	IN
cord-260508-z11exbyu	37	46	the	the	DT
cord-260508-z11exbyu	37	47	donor	donor	NN
cord-260508-z11exbyu	37	48	(	(	-LRB-
cord-260508-z11exbyu	37	49	Supplementary	Supplementary	NNP
cord-260508-z11exbyu	37	50	Table	Table	NNP
cord-260508-z11exbyu	37	51	5	5	CD
cord-260508-z11exbyu	37	52	)	)	-RRB-
cord-260508-z11exbyu	37	53	.	.	.
cord-260508-z11exbyu	38	1	Phylogenetic	phylogenetic	JJ
cord-260508-z11exbyu	38	2	analyses	analysis	NNS
cord-260508-z11exbyu	38	3	also	also	RB
cord-260508-z11exbyu	38	4	4	4	CD
cord-260508-z11exbyu	38	5	support	support	NN
cord-260508-z11exbyu	38	6	that	that	IN
cord-260508-z11exbyu	38	7	Wuhan	Wuhan	NNP
cord-260508-z11exbyu	38	8	-	-	HYPH
cord-260508-z11exbyu	38	9	Hu-1	Hu-1	NNP
cord-260508-z11exbyu	38	10	and	and	CC
cord-260508-z11exbyu	38	11	GD410721	GD410721	NNP
cord-260508-z11exbyu	38	12	form	form	VB
cord-260508-z11exbyu	38	13	a	a	DT
cord-260508-z11exbyu	38	14	clade	clade	NN
cord-260508-z11exbyu	38	15	relative	relative	JJ
cord-260508-z11exbyu	38	16	to	to	IN
cord-260508-z11exbyu	38	17	RaTG13	ratg13	ADD
cord-260508-z11exbyu	39	1	(	(	-LRB-
cord-260508-z11exbyu	39	2	Supplementary	Supplementary	NNP
cord-260508-z11exbyu	39	3	5	5	CD
cord-260508-z11exbyu	39	4	Figure	figure	NN
cord-260508-z11exbyu	39	5	1c	1c	CD
cord-260508-z11exbyu	39	6	,	,	,
cord-260508-z11exbyu	39	7	1d	1d	CD
cord-260508-z11exbyu	39	8	)	)	-RRB-
cord-260508-z11exbyu	39	9	.	.	.
cord-260508-z11exbyu	40	1	Phylogenetic	phylogenetic	JJ
cord-260508-z11exbyu	40	2	analyses	analysis	NNS
cord-260508-z11exbyu	40	3	(	(	-LRB-
cord-260508-z11exbyu	40	4	Fig	fig	NN
cord-260508-z11exbyu	40	5	.	.	NNP
cord-260508-z11exbyu	40	6	2	2	CD
cord-260508-z11exbyu	40	7	)	)	-RRB-
cord-260508-z11exbyu	40	8	in	in	IN
cord-260508-z11exbyu	40	9	genomic	genomic	JJ
cord-260508-z11exbyu	40	10	regions	region	NNS
cord-260508-z11exbyu	40	11	with	with	IN
cord-260508-z11exbyu	40	12	all	all	DT
cord-260508-z11exbyu	40	13	recombination	recombination	NN
cord-260508-z11exbyu	40	14	tracts	tract	NNS
cord-260508-z11exbyu	40	15	6	6	CD
cord-260508-z11exbyu	41	1	(	(	-LRB-
cord-260508-z11exbyu	41	2	Supplementary	Supplementary	NNP
cord-260508-z11exbyu	41	3	Table	Table	NNP
cord-260508-z11exbyu	41	4	5	5	CD
cord-260508-z11exbyu	41	5	)	)	-RRB-
cord-260508-z11exbyu	42	1	masked	mask	VBN
cord-260508-z11exbyu	42	2	using	use	VBG
cord-260508-z11exbyu	42	3	Maximum	maximum	JJ
cord-260508-z11exbyu	42	4	-	-	HYPH
cord-260508-z11exbyu	42	5	likelihood	likelihood	NN
cord-260508-z11exbyu	42	6	(	(	-LRB-
cord-260508-z11exbyu	42	7	Fig	Fig	NNP
cord-260508-z11exbyu	42	8	.	.	.
cord-260508-z11exbyu	42	9	2a	2a	CD
cord-260508-z11exbyu	42	10	)	)	-RRB-
cord-260508-z11exbyu	43	1	and	and	CC
cord-260508-z11exbyu	43	2	Neighbor	neighbor	NN
cord-260508-z11exbyu	43	3	-	-	HYPH
cord-260508-z11exbyu	43	4	joining	join	VBG
cord-260508-z11exbyu	43	5	7	7	CD
cord-260508-z11exbyu	43	6	based	base	VBN
cord-260508-z11exbyu	43	7	on	on	IN
cord-260508-z11exbyu	43	8	synonymous	synonymous	JJ
cord-260508-z11exbyu	43	9	(	(	-LRB-
cord-260508-z11exbyu	43	10	Fig	Fig	NNP
cord-260508-z11exbyu	43	11	.	.	.
cord-260508-z11exbyu	43	12	2b	2b	LS
cord-260508-z11exbyu	43	13	)	)	-RRB-
cord-260508-z11exbyu	43	14	or	or	CC
cord-260508-z11exbyu	43	15	non	non	JJ
cord-260508-z11exbyu	43	16	-	-	JJ
cord-260508-z11exbyu	43	17	synoymous	synoymous	JJ
cord-260508-z11exbyu	43	18	(	(	-LRB-
cord-260508-z11exbyu	43	19	Fig	Fig	NNP
cord-260508-z11exbyu	43	20	.	.	.
cord-260508-z11exbyu	43	21	2c	2c	NNP
cord-260508-z11exbyu	43	22	)	)	-RRB-
cord-260508-z11exbyu	44	1	mutation	mutation	NN
cord-260508-z11exbyu	44	2	distance	distance	NN
cord-260508-z11exbyu	44	3	metrics	metric	NNS
cord-260508-z11exbyu	44	4	,	,	,
cord-260508-z11exbyu	44	5	8	8	CD
cord-260508-z11exbyu	44	6	consistently	consistently	RB
cord-260508-z11exbyu	44	7	support	support	VBP
cord-260508-z11exbyu	44	8	RmYN02	rmyn02	VBP
cord-260508-z11exbyu	44	9	as	as	IN
cord-260508-z11exbyu	44	10	the	the	DT
cord-260508-z11exbyu	44	11	nearest	near	JJS
cord-260508-z11exbyu	44	12	outgroup	outgroup	NN
cord-260508-z11exbyu	44	13	to	to	IN
cord-260508-z11exbyu	44	14	human	human	JJ
cord-260508-z11exbyu	44	15	SARS	SARS	NNP
cord-260508-z11exbyu	44	16	-	-	HYPH
cord-260508-z11exbyu	44	17	CoV-2	CoV-2	NNP
cord-260508-z11exbyu	44	18	,	,	,
cord-260508-z11exbyu	44	19	in	in	IN
cord-260508-z11exbyu	44	20	contrast	contrast	NN
cord-260508-z11exbyu	44	21	to	to	IN
cord-260508-z11exbyu	44	22	9	9	CD
cord-260508-z11exbyu	44	23	previous	previous	JJ
cord-260508-z11exbyu	44	24	analyses	analysis	NNS
cord-260508-z11exbyu	44	25	before	before	IN
cord-260508-z11exbyu	44	26	the	the	DT
cord-260508-z11exbyu	44	27	discovery	discovery	NN
cord-260508-z11exbyu	44	28	of	of	IN
cord-260508-z11exbyu	44	29	RmYN02	RmYN02	NNP
cord-260508-z11exbyu	44	30	,	,	,
cord-260508-z11exbyu	44	31	which	which	WDT
cord-260508-z11exbyu	44	32	instead	instead	RB
cord-260508-z11exbyu	44	33	found	find	VBD
cord-260508-z11exbyu	44	34	RaTG13	RaTG13	NNP
cord-260508-z11exbyu	44	35	to	to	TO
cord-260508-z11exbyu	44	36	be	be	VB
cord-260508-z11exbyu	44	37	the	the	DT
cord-260508-z11exbyu	44	38	10	10	CD
cord-260508-z11exbyu	44	39	nearest	near	JJS
cord-260508-z11exbyu	44	40	outgroup	outgroup	NN
cord-260508-z11exbyu	44	41	)	)	-RRB-
cord-260508-z11exbyu	44	42	.	.	.
cord-260508-z11exbyu	45	1	This	this	DT
cord-260508-z11exbyu	45	2	observation	observation	NN
cord-260508-z11exbyu	45	3	is	be	VBZ
cord-260508-z11exbyu	45	4	also	also	RB
cord-260508-z11exbyu	45	5	consistent	consistent	JJ
cord-260508-z11exbyu	45	6	with	with	IN
cord-260508-z11exbyu	45	7	the	the	DT
cord-260508-z11exbyu	45	8	11	11	CD
cord-260508-z11exbyu	45	9	genome	genome	NN
cord-260508-z11exbyu	45	10	-	-	HYPH
cord-260508-z11exbyu	45	11	wide	wide	JJ
cord-260508-z11exbyu	45	12	phylogeny	phylogeny	NN
cord-260508-z11exbyu	45	13	constructed	construct	VBN
cord-260508-z11exbyu	45	14	in	in	IN
cord-260508-z11exbyu	45	15	previous	previous	JJ
cord-260508-z11exbyu	45	16	study	study	NN
cord-260508-z11exbyu	45	17	(	(	-LRB-
cord-260508-z11exbyu	45	18	Zhou	Zhou	NNP
cord-260508-z11exbyu	45	19	,	,	,
cord-260508-z11exbyu	45	20	Chen	Chen	NNP
cord-260508-z11exbyu	45	21	,	,	,
cord-260508-z11exbyu	45	22	et	et	NNP
cord-260508-z11exbyu	45	23	al	al	NNP
cord-260508-z11exbyu	45	24	.	.	NNP
cord-260508-z11exbyu	45	25	2020	2020	CD
cord-260508-z11exbyu	45	26	)	)	-RRB-
cord-260508-z11exbyu	45	27	.	.	.
cord-260508-z11exbyu	46	1	12	12	CD
cord-260508-z11exbyu	47	1	We	-PRON-	PRP
cord-260508-z11exbyu	47	2	plot	plot	VBP
cord-260508-z11exbyu	47	3	the	the	DT
cord-260508-z11exbyu	47	4	overall	overall	JJ
cord-260508-z11exbyu	47	5	sequence	sequence	NN
cord-260508-z11exbyu	47	6	similarity	similarity	NN
cord-260508-z11exbyu	47	7	(	(	-LRB-
cord-260508-z11exbyu	47	8	%	%	NN
cord-260508-z11exbyu	47	9	nucleotides	nucleotide	NNS
cord-260508-z11exbyu	47	10	identical	identical	JJ
cord-260508-z11exbyu	47	11	)	)	-RRB-
cord-260508-z11exbyu	47	12	between	between	IN
cord-260508-z11exbyu	47	13	SARS	SARS	NNP
cord-260508-z11exbyu	47	14	-	-	:
cord-260508-z11exbyu	47	15	CoV-	CoV-	NNP
cord-260508-z11exbyu	47	16	2	2	CD
cord-260508-z11exbyu	47	17	13	13	CD
cord-260508-z11exbyu	47	18	and	and	CC
cord-260508-z11exbyu	47	19	the	the	DT
cord-260508-z11exbyu	47	20	four	four	CD
cord-260508-z11exbyu	47	21	other	other	JJ
cord-260508-z11exbyu	47	22	strains	strain	NNS
cord-260508-z11exbyu	47	23	analyzed	analyze	VBN
cord-260508-z11exbyu	47	24	in	in	IN
cord-260508-z11exbyu	47	25	windows	window	NNS
cord-260508-z11exbyu	47	26	of	of	IN
cord-260508-z11exbyu	47	27	300	300	CD
cord-260508-z11exbyu	47	28	bp	bp	NNP
cord-260508-z11exbyu	47	29	(	(	-LRB-
cord-260508-z11exbyu	47	30	Fig	Fig	NNP
cord-260508-z11exbyu	47	31	.	.	.
cord-260508-z11exbyu	47	32	1	1	CD
cord-260508-z11exbyu	47	33	)	)	-RRB-
cord-260508-z11exbyu	47	34	.	.	.
cord-260508-z11exbyu	48	1	Notice	notice	VB
cord-260508-z11exbyu	48	2	that	that	IN
cord-260508-z11exbyu	48	3	the	the	DT
cord-260508-z11exbyu	48	4	divergences	divergence	NNS
cord-260508-z11exbyu	48	5	14	14	CD
cord-260508-z11exbyu	48	6	between	between	IN
cord-260508-z11exbyu	48	7	human	human	JJ
cord-260508-z11exbyu	48	8	SARS	SARS	NNP
cord-260508-z11exbyu	48	9	-	-	HYPH
cord-260508-z11exbyu	48	10	CoV-2	CoV-2	NNP
cord-260508-z11exbyu	48	11	and	and	CC
cord-260508-z11exbyu	48	12	the	the	DT
cord-260508-z11exbyu	48	13	bat	bat	NN
cord-260508-z11exbyu	48	14	viral	viral	JJ
cord-260508-z11exbyu	48	15	sequences	sequence	NNS
cord-260508-z11exbyu	48	16	,	,	,
cord-260508-z11exbyu	48	17	RaTG13	RaTG13	NNP
cord-260508-z11exbyu	48	18	and	and	CC
cord-260508-z11exbyu	48	19	RmYN02	rmyn02	UH
cord-260508-z11exbyu	48	20	,	,	,
cord-260508-z11exbyu	48	21	in	in	IN
cord-260508-z11exbyu	48	22	most	most	JJS
cord-260508-z11exbyu	48	23	15	15	CD
cord-260508-z11exbyu	48	24	regions	region	NNS
cord-260508-z11exbyu	48	25	of	of	IN
cord-260508-z11exbyu	48	26	the	the	DT
cord-260508-z11exbyu	48	27	genome	genome	NN
cord-260508-z11exbyu	48	28	,	,	,
cord-260508-z11exbyu	48	29	are	be	VBP
cord-260508-z11exbyu	48	30	quite	quite	RB
cord-260508-z11exbyu	48	31	low	low	JJ
cord-260508-z11exbyu	48	32	compared	compare	VBN
cord-260508-z11exbyu	48	33	to	to	IN
cord-260508-z11exbyu	48	34	the	the	DT
cord-260508-z11exbyu	48	35	other	other	JJ
cord-260508-z11exbyu	48	36	comparisons	comparison	NNS
cord-260508-z11exbyu	48	37	.	.	.
cord-260508-z11exbyu	49	1	A	a	DT
cord-260508-z11exbyu	49	2	notable	notable	JJ
cord-260508-z11exbyu	49	3	exception	exception	NN
cord-260508-z11exbyu	49	4	is	be	VBZ
cord-260508-z11exbyu	49	5	16	16	CD
cord-260508-z11exbyu	49	6	the	the	DT
cord-260508-z11exbyu	49	7	suspected	suspect	VBN
cord-260508-z11exbyu	49	8	recombination	recombination	NN
cord-260508-z11exbyu	49	9	region	region	NN
cord-260508-z11exbyu	49	10	in	in	IN
cord-260508-z11exbyu	49	11	RmYN02	RmYN02	NNP
cord-260508-z11exbyu	49	12	that	that	WDT
cord-260508-z11exbyu	49	13	has	have	VBZ
cord-260508-z11exbyu	49	14	an	an	DT
cord-260508-z11exbyu	49	15	unusual	unusual	JJ
cord-260508-z11exbyu	49	16	high	high	JJ
cord-260508-z11exbyu	49	17	level	level	NN
cord-260508-z11exbyu	49	18	of	of	IN
cord-260508-z11exbyu	49	19	divergence	divergence	NN
cord-260508-z11exbyu	49	20	17	17	CD
cord-260508-z11exbyu	49	21	recombination	recombination	NN
cord-260508-z11exbyu	49	22	event	event	NN
cord-260508-z11exbyu	49	23	with	with	IN
cord-260508-z11exbyu	49	24	more	more	RBR
cord-260508-z11exbyu	49	25	distantly	distantly	RB
cord-260508-z11exbyu	49	26	related	relate	VBN
cord-260508-z11exbyu	49	27	viral	viral	JJ
cord-260508-z11exbyu	49	28	strains	strain	NNS
cord-260508-z11exbyu	49	29	(	(	-LRB-
cord-260508-z11exbyu	49	30	Fig	Fig	NNP
cord-260508-z11exbyu	49	31	.	.	.
cord-260508-z11exbyu	49	32	1e	1e	LS
cord-260508-z11exbyu	49	33	)	)	-RRB-
cord-260508-z11exbyu	49	34	.	.	.
cord-260508-z11exbyu	50	1	The	the	DT
cord-260508-z11exbyu	50	2	other	other	JJ
cord-260508-z11exbyu	50	3	four	four	CD
cord-260508-z11exbyu	50	4	sequences	sequence	NNS
cord-260508-z11exbyu	50	5	1	1	CD
cord-260508-z11exbyu	50	6	are	be	VBP
cord-260508-z11exbyu	50	7	all	all	DT
cord-260508-z11exbyu	50	8	highly	highly	RB
cord-260508-z11exbyu	50	9	,	,	,
cord-260508-z11exbyu	50	10	and	and	CC
cord-260508-z11exbyu	50	11	approximately	approximately	RB
cord-260508-z11exbyu	50	12	equally	equally	RB
cord-260508-z11exbyu	50	13	,	,	,
cord-260508-z11exbyu	50	14	divergent	divergent	JJ
cord-260508-z11exbyu	50	15	from	from	IN
cord-260508-z11exbyu	50	16	RmYN02	RmYN02	NNP
cord-260508-z11exbyu	50	17	in	in	IN
cord-260508-z11exbyu	50	18	this	this	DT
cord-260508-z11exbyu	50	19	large	large	JJ
cord-260508-z11exbyu	50	20	region	region	NN
cord-260508-z11exbyu	50	21	(	(	-LRB-
cord-260508-z11exbyu	50	22	Fig	Fig	NNP
cord-260508-z11exbyu	50	23	.	.	.
cord-260508-z11exbyu	50	24	1e	1e	NNP
cord-260508-z11exbyu	50	25	)	)	-RRB-
cord-260508-z11exbyu	50	26	,	,	,
cord-260508-z11exbyu	50	27	2	2	CD
cord-260508-z11exbyu	50	28	suggesting	suggest	VBG
cord-260508-z11exbyu	50	29	that	that	IN
cord-260508-z11exbyu	50	30	the	the	DT
cord-260508-z11exbyu	50	31	RmYN02	rmyn02	CD
cord-260508-z11exbyu	50	32	strain	strain	NN
cord-260508-z11exbyu	50	33	obtained	obtain	VBD
cord-260508-z11exbyu	50	34	a	a	DT
cord-260508-z11exbyu	50	35	divergent	divergent	JJ
cord-260508-z11exbyu	50	36	haplotype	haplotype	NN
cord-260508-z11exbyu	50	37	from	from	IN
cord-260508-z11exbyu	50	38	the	the	DT
cord-260508-z11exbyu	50	39	recombination	recombination	NN
cord-260508-z11exbyu	50	40	3	3	CD
cord-260508-z11exbyu	50	41	event	event	NN
cord-260508-z11exbyu	50	42	.	.	.
cord-260508-z11exbyu	51	1	When	when	WRB
cord-260508-z11exbyu	51	2	BLAST	blast	NN
cord-260508-z11exbyu	51	3	searching	search	VBG
cord-260508-z11exbyu	51	4	using	use	VBG
cord-260508-z11exbyu	51	5	100-bp	100-bp	CD
cord-260508-z11exbyu	51	6	windows	window	NNS
cord-260508-z11exbyu	51	7	along	along	IN
cord-260508-z11exbyu	51	8	the	the	DT
cord-260508-z11exbyu	51	9	RmYN02	RmYN02	NNP
cord-260508-z11exbyu	51	10	genome	genome	NN
cord-260508-z11exbyu	51	11	,	,	,
cord-260508-z11exbyu	51	12	we	-PRON-	PRP
cord-260508-z11exbyu	51	13	find	find	VBP
cord-260508-z11exbyu	51	14	no	no	DT
cord-260508-z11exbyu	51	15	4	4	CD
cord-260508-z11exbyu	51	16	single	single	JJ
cord-260508-z11exbyu	51	17	viral	viral	JJ
cord-260508-z11exbyu	51	18	genome	genome	NN
cord-260508-z11exbyu	51	19	as	as	IN
cord-260508-z11exbyu	51	20	the	the	DT
cord-260508-z11exbyu	51	21	top	top	NN
cord-260508-z11exbyu	51	22	hit	hit	NN
cord-260508-z11exbyu	51	23	,	,	,
cord-260508-z11exbyu	51	24	instead	instead	RB
cord-260508-z11exbyu	51	25	the	the	DT
cord-260508-z11exbyu	51	26	top	top	JJ
cord-260508-z11exbyu	51	27	hits	hit	NNS
cord-260508-z11exbyu	51	28	are	be	VBP
cord-260508-z11exbyu	51	29	found	find	VBN
cord-260508-z11exbyu	51	30	sporadically	sporadically	RB
cord-260508-z11exbyu	51	31	in	in	IN
cord-260508-z11exbyu	51	32	different	different	JJ
cord-260508-z11exbyu	51	33	viral	viral	JJ
cord-260508-z11exbyu	51	34	5	5	CD
cord-260508-z11exbyu	51	35	strains	strain	NNS
cord-260508-z11exbyu	51	36	of	of	IN
cord-260508-z11exbyu	51	37	the	the	DT
cord-260508-z11exbyu	51	38	SARS	SARS	NNP
cord-260508-z11exbyu	51	39	-	-	HYPH
cord-260508-z11exbyu	51	40	CoV	CoV	NNP
cord-260508-z11exbyu	51	41	lineage	lineage	NN
cord-260508-z11exbyu	51	42	(	(	-LRB-
cord-260508-z11exbyu	51	43	Fig	Fig	NNP
cord-260508-z11exbyu	51	44	.	.	.
cord-260508-z11exbyu	51	45	1f	1f	CD
cord-260508-z11exbyu	51	46	)	)	-RRB-
cord-260508-z11exbyu	51	47	,	,	,
cord-260508-z11exbyu	51	48	suggesting	suggest	VBG
cord-260508-z11exbyu	51	49	that	that	IN
cord-260508-z11exbyu	51	50	the	the	DT
cord-260508-z11exbyu	51	51	sequence	sequence	NN
cord-260508-z11exbyu	51	52	of	of	IN
cord-260508-z11exbyu	51	53	the	the	DT
cord-260508-z11exbyu	51	54	most	most	RBS
cord-260508-z11exbyu	51	55	proximal	proximal	JJ
cord-260508-z11exbyu	51	56	6	6	CD
cord-260508-z11exbyu	51	57	donor	donor	NN
cord-260508-z11exbyu	51	58	is	be	VBZ
cord-260508-z11exbyu	51	59	not	not	RB
cord-260508-z11exbyu	51	60	represented	represent	VBN
cord-260508-z11exbyu	51	61	in	in	IN
cord-260508-z11exbyu	51	62	the	the	DT
cord-260508-z11exbyu	51	63	database	database	NN
cord-260508-z11exbyu	51	64	.	.	.
cord-260508-z11exbyu	52	1	7	7	CD
cord-260508-z11exbyu	52	2	8	8	CD
cord-260508-z11exbyu	53	1	While	while	IN
cord-260508-z11exbyu	53	2	the	the	DT
cord-260508-z11exbyu	53	3	overall	overall	JJ
cord-260508-z11exbyu	53	4	divergence	divergence	NN
cord-260508-z11exbyu	53	5	in	in	IN
cord-260508-z11exbyu	53	6	the	the	DT
cord-260508-z11exbyu	53	7	S	S	NNP
cord-260508-z11exbyu	53	8	gene	gene	NN
cord-260508-z11exbyu	53	9	encoding	encode	VBG
cord-260508-z11exbyu	53	10	the	the	DT
cord-260508-z11exbyu	53	11	spike	spike	NN
cord-260508-z11exbyu	53	12	protein	protein	NN
cord-260508-z11exbyu	53	13	could	could	MD
cord-260508-z11exbyu	53	14	suggest	suggest	VB
cord-260508-z11exbyu	53	15	the	the	DT
cord-260508-z11exbyu	53	16	10	10	CD
cord-260508-z11exbyu	53	17	presence	presence	NN
cord-260508-z11exbyu	53	18	of	of	IN
cord-260508-z11exbyu	53	19	recombination	recombination	NN
cord-260508-z11exbyu	53	20	in	in	IN
cord-260508-z11exbyu	53	21	the	the	DT
cord-260508-z11exbyu	53	22	region	region	NN
cord-260508-z11exbyu	53	23	,	,	,
cord-260508-z11exbyu	53	24	previous	previous	JJ
cord-260508-z11exbyu	53	25	study	study	NN
cord-260508-z11exbyu	53	26	)	)	-RRB-
cord-260508-z11exbyu	53	27	reported	report	VBD
cord-260508-z11exbyu	53	28	that	that	IN
cord-260508-z11exbyu	53	29	the	the	DT
cord-260508-z11exbyu	53	30	tree	tree	NN
cord-260508-z11exbyu	53	31	11	11	CD
cord-260508-z11exbyu	53	32	based	base	VBN
cord-260508-z11exbyu	53	33	on	on	IN
cord-260508-z11exbyu	53	34	synonymous	synonymous	JJ
cord-260508-z11exbyu	53	35	substitutions	substitution	NNS
cord-260508-z11exbyu	53	36	supported	support	VBD
cord-260508-z11exbyu	53	37	RaTG13	RaTG13	NNP
cord-260508-z11exbyu	53	38	as	as	IN
cord-260508-z11exbyu	53	39	the	the	DT
cord-260508-z11exbyu	53	40	sister	sister	NN
cord-260508-z11exbyu	53	41	taxon	taxon	NN
cord-260508-z11exbyu	53	42	to	to	IN
cord-260508-z11exbyu	53	43	the	the	DT
cord-260508-z11exbyu	53	44	human	human	NN
cord-260508-z11exbyu	53	45	SARS-12	SARS-12	.
cord-260508-z11exbyu	53	46	CoV-2	CoV-2	NNP
cord-260508-z11exbyu	53	47	also	also	RB
cord-260508-z11exbyu	53	48	in	in	IN
cord-260508-z11exbyu	53	49	this	this	DT
cord-260508-z11exbyu	53	50	region	region	NN
cord-260508-z11exbyu	53	51	.	.	.
cord-260508-z11exbyu	54	1	That	that	DT
cord-260508-z11exbyu	54	2	would	would	MD
cord-260508-z11exbyu	54	3	suggest	suggest	VB
cord-260508-z11exbyu	54	4	the	the	DT
cord-260508-z11exbyu	54	5	similarity	similarity	NN
cord-260508-z11exbyu	54	6	between	between	IN
cord-260508-z11exbyu	54	7	GD410721	GD410721	NNP
cord-260508-z11exbyu	54	8	and	and	CC
cord-260508-z11exbyu	54	9	human	human	JJ
cord-260508-z11exbyu	54	10	13	13	CD
cord-260508-z11exbyu	54	11	SARS	SARS	NNP
cord-260508-z11exbyu	54	12	-	-	HYPH
cord-260508-z11exbyu	54	13	CoV-2	CoV-2	NNP
cord-260508-z11exbyu	54	14	might	may	MD
cord-260508-z11exbyu	54	15	be	be	VB
cord-260508-z11exbyu	54	16	a	a	DT
cord-260508-z11exbyu	54	17	consequence	consequence	NN
cord-260508-z11exbyu	54	18	of	of	IN
cord-260508-z11exbyu	54	19	convergent	convergent	JJ
cord-260508-z11exbyu	54	20	evolution	evolution	NN
cord-260508-z11exbyu	54	21	,	,	,
cord-260508-z11exbyu	54	22	possibly	possibly	RB
cord-260508-z11exbyu	54	23	because	because	IN
cord-260508-z11exbyu	54	24	both	both	DT
cord-260508-z11exbyu	54	25	strains	strain	NNS
cord-260508-z11exbyu	54	26	14	14	CD
cord-260508-z11exbyu	54	27	adapted	adapt	VBD
cord-260508-z11exbyu	54	28	to	to	IN
cord-260508-z11exbyu	54	29	the	the	DT
cord-260508-z11exbyu	54	30	use	use	NN
cord-260508-z11exbyu	54	31	of	of	IN
cord-260508-z11exbyu	54	32	the	the	DT
cord-260508-z11exbyu	54	33	same	same	JJ
cord-260508-z11exbyu	54	34	receptor	receptor	NN
cord-260508-z11exbyu	54	35	.	.	.
cord-260508-z11exbyu	55	1	An	an	DT
cord-260508-z11exbyu	55	2	objective	objective	NN
cord-260508-z11exbyu	55	3	of	of	IN
cord-260508-z11exbyu	55	4	the	the	DT
cord-260508-z11exbyu	55	5	current	current	JJ
cord-260508-z11exbyu	55	6	study	study	NN
cord-260508-z11exbyu	55	7	is	be	VBZ
cord-260508-z11exbyu	55	8	to	to	TO
cord-260508-z11exbyu	55	9	examine	examine	VB
cord-260508-z11exbyu	55	10	if	if	IN
cord-260508-z11exbyu	55	11	there	there	RB
cord-260508-z11exbyu	55	12	15	15	CD
cord-260508-z11exbyu	55	13	are	be	VBP
cord-260508-z11exbyu	55	14	more	more	RBR
cord-260508-z11exbyu	55	15	narrow	narrow	JJ
cord-260508-z11exbyu	55	16	regions	region	NNS
cord-260508-z11exbyu	55	17	of	of	IN
cord-260508-z11exbyu	55	18	the	the	DT
cord-260508-z11exbyu	55	19	spike	spike	NN
cord-260508-z11exbyu	55	20	protein	protein	NN
cord-260508-z11exbyu	55	21	that	that	WDT
cord-260508-z11exbyu	55	22	might	may	MD
cord-260508-z11exbyu	55	23	show	show	VB
cord-260508-z11exbyu	55	24	evidence	evidence	NN
cord-260508-z11exbyu	55	25	of	of	IN
cord-260508-z11exbyu	55	26	recombination	recombination	NN
cord-260508-z11exbyu	55	27	.	.	.
cord-260508-z11exbyu	56	1	We	-PRON-	PRP
cord-260508-z11exbyu	56	2	16	16	CD
cord-260508-z11exbyu	56	3	investigate	investigate	VBP
cord-260508-z11exbyu	56	4	this	this	DT
cord-260508-z11exbyu	56	5	issue	issue	NN
cord-260508-z11exbyu	56	6	using	use	VBG
cord-260508-z11exbyu	56	7	estimates	estimate	NNS
cord-260508-z11exbyu	56	8	of	of	IN
cord-260508-z11exbyu	56	9	synonymous	synonymous	JJ
cord-260508-z11exbyu	56	10	divergence	divergence	NN
cord-260508-z11exbyu	56	11	per	per	IN
cord-260508-z11exbyu	56	12	synonymous	synonymous	JJ
cord-260508-z11exbyu	56	13	site	site	NN
cord-260508-z11exbyu	56	14	(	(	-LRB-
cord-260508-z11exbyu	56	15	dS	dS	NNP
cord-260508-z11exbyu	56	16	)	)	-RRB-
cord-260508-z11exbyu	56	17	in	in	IN
cord-260508-z11exbyu	56	18	17	17	CD
cord-260508-z11exbyu	56	19	sliding	slide	VBG
cord-260508-z11exbyu	56	20	windows	window	NNS
cord-260508-z11exbyu	56	21	of	of	IN
cord-260508-z11exbyu	56	22	300	300	CD
cord-260508-z11exbyu	56	23	bp	bp	NN
cord-260508-z11exbyu	56	24	.	.	.
cord-260508-z11exbyu	57	1	However	however	RB
cord-260508-z11exbyu	57	2	,	,	,
cord-260508-z11exbyu	57	3	estimation	estimation	NN
cord-260508-z11exbyu	57	4	of	of	IN
cord-260508-z11exbyu	57	5	d	d	NNP
cord-260508-z11exbyu	57	6	S	S	NNP
cord-260508-z11exbyu	57	7	is	be	VBZ
cord-260508-z11exbyu	57	8	complicated	complicate	VBN
cord-260508-z11exbyu	57	9	by	by	IN
cord-260508-z11exbyu	57	10	the	the	DT
cord-260508-z11exbyu	57	11	high	high	JJ
cord-260508-z11exbyu	57	12	levels	level	NNS
cord-260508-z11exbyu	57	13	of	of	IN
cord-260508-z11exbyu	57	14	18	18	CD
cord-260508-z11exbyu	57	15	divergence	divergence	NN
cord-260508-z11exbyu	57	16	and	and	CC
cord-260508-z11exbyu	57	17	extremely	extremely	RB
cord-260508-z11exbyu	57	18	skewed	skewed	JJ
cord-260508-z11exbyu	57	19	nucleotide	nucleotide	JJ
cord-260508-z11exbyu	57	20	content	content	NN
cord-260508-z11exbyu	57	21	in	in	IN
cord-260508-z11exbyu	57	22	the	the	DT
cord-260508-z11exbyu	57	23	3rd	3rd	JJ
cord-260508-z11exbyu	57	24	position	position	NN
cord-260508-z11exbyu	57	25	of	of	IN
cord-260508-z11exbyu	57	26	the	the	DT
cord-260508-z11exbyu	57	27	sequences	sequence	NNS
cord-260508-z11exbyu	57	28	19	19	CD
cord-260508-z11exbyu	57	29	(	(	-LRB-
cord-260508-z11exbyu	57	30	Table	table	NN
cord-260508-z11exbyu	57	31	1	1	CD
cord-260508-z11exbyu	57	32	)	)	-RRB-
cord-260508-z11exbyu	57	33	which	which	WDT
cord-260508-z11exbyu	57	34	will	will	MD
cord-260508-z11exbyu	57	35	cause	cause	VB
cord-260508-z11exbyu	57	36	a	a	DT
cord-260508-z11exbyu	57	37	high	high	JJ
cord-260508-z11exbyu	57	38	degree	degree	NN
cord-260508-z11exbyu	57	39	of	of	IN
cord-260508-z11exbyu	57	40	homoplasy	homoplasy	NN
cord-260508-z11exbyu	57	41	.	.	.
cord-260508-z11exbyu	58	1	We	-PRON-	PRP
cord-260508-z11exbyu	58	2	,	,	,
cord-260508-z11exbyu	58	3	therefore	therefore	RB
cord-260508-z11exbyu	58	4	,	,	,
cord-260508-z11exbyu	58	5	entertain	entertain	VB
cord-260508-z11exbyu	58	6	methods	method	NNS
cord-260508-z11exbyu	58	7	for	for	IN
cord-260508-z11exbyu	58	8	20	20	CD
cord-260508-z11exbyu	58	9	estimation	estimation	NN
cord-260508-z11exbyu	58	10	that	that	WDT
cord-260508-z11exbyu	58	11	explicitly	explicitly	RB
cord-260508-z11exbyu	58	12	account	account	VBP
cord-260508-z11exbyu	58	13	for	for	IN
cord-260508-z11exbyu	58	14	unequal	unequal	JJ
cord-260508-z11exbyu	58	15	nucleotide	nucleotide	JJ
cord-260508-z11exbyu	58	16	content	content	NN
cord-260508-z11exbyu	58	17	and	and	CC
cord-260508-z11exbyu	58	18	multiple	multiple	JJ
cord-260508-z11exbyu	58	19	hits	hit	NNS
cord-260508-z11exbyu	58	20	in	in	IN
cord-260508-z11exbyu	58	21	the	the	DT
cord-260508-z11exbyu	58	22	same	same	JJ
cord-260508-z11exbyu	58	23	21	21	CD
cord-260508-z11exbyu	58	24	site	site	NN
cord-260508-z11exbyu	58	25	such	such	JJ
cord-260508-z11exbyu	58	26	as	as	IN
cord-260508-z11exbyu	58	27	maximum	maximum	JJ
cord-260508-z11exbyu	58	28	likelihood	likelihood	NN
cord-260508-z11exbyu	58	29	methods	method	NNS
cord-260508-z11exbyu	58	30	and	and	CC
cord-260508-z11exbyu	58	31	the	the	DT
cord-260508-z11exbyu	58	32	YN00	YN00	NNP
cord-260508-z11exbyu	58	33	method	method	NN
cord-260508-z11exbyu	58	34	(	(	-LRB-
cord-260508-z11exbyu	58	35	Yang	Yang	NNP
cord-260508-z11exbyu	58	36	and	and	CC
cord-260508-z11exbyu	58	37	Nielsen	Nielsen	NNP
cord-260508-z11exbyu	58	38	2000	2000	CD
cord-260508-z11exbyu	58	39	)	)	-RRB-
cord-260508-z11exbyu	58	40	.	.	.
cord-260508-z11exbyu	59	1	It	-PRON-	PRP
cord-260508-z11exbyu	59	2	is	be	VBZ
cord-260508-z11exbyu	59	3	22	22	CD
cord-260508-z11exbyu	59	4	shown	show	VBN
cord-260508-z11exbyu	59	5	that	that	IN
cord-260508-z11exbyu	59	6	for	for	IN
cord-260508-z11exbyu	59	7	short	short	JJ
cord-260508-z11exbyu	59	8	sequences	sequence	NNS
cord-260508-z11exbyu	59	9	,	,	,
cord-260508-z11exbyu	59	10	some	some	DT
cord-260508-z11exbyu	59	11	counting	counting	NN
cord-260508-z11exbyu	59	12	methods	method	NNS
cord-260508-z11exbyu	59	13	,	,	,
cord-260508-z11exbyu	59	14	such	such	JJ
cord-260508-z11exbyu	59	15	as	as	IN
cord-260508-z11exbyu	59	16	the	the	DT
cord-260508-z11exbyu	59	17	YN00	YN00	NNP
cord-260508-z11exbyu	59	18	method	method	NN
cord-260508-z11exbyu	59	19	,	,	,
cord-260508-z11exbyu	59	20	can	can	MD
cord-260508-z11exbyu	59	21	23	23	CD
cord-260508-z11exbyu	59	22	perform	perform	VB
cord-260508-z11exbyu	59	23	better	well	RBR
cord-260508-z11exbyu	59	24	in	in	IN
cord-260508-z11exbyu	59	25	terms	term	NNS
cord-260508-z11exbyu	59	26	of	of	IN
cord-260508-z11exbyu	59	27	Mean	Mean	NNP
cord-260508-z11exbyu	59	28	Squared	Squared	NNP
cord-260508-z11exbyu	59	29	Error	Error	NNP
cord-260508-z11exbyu	59	30	(	(	-LRB-
cord-260508-z11exbyu	59	31	MSE	MSE	NNP
cord-260508-z11exbyu	59	32	)	)	-RRB-
cord-260508-z11exbyu	59	33	for	for	IN
cord-260508-z11exbyu	59	34	estimating	estimate	VBG
cord-260508-z11exbyu	59	35	d	d	NNP
cord-260508-z11exbyu	59	36	N	N	NNP
cord-260508-z11exbyu	59	37	and	and	CC
cord-260508-z11exbyu	59	38	d	d	NNP
cord-260508-z11exbyu	59	39	S	s	NN
cord-260508-z11exbyu	60	1	(	(	-LRB-
cord-260508-z11exbyu	60	2	Yang	Yang	NNP
cord-260508-z11exbyu	60	3	and	and	CC
cord-260508-z11exbyu	60	4	24	24	CD
cord-260508-z11exbyu	60	5	Nielsen	Nielsen	NNP
cord-260508-z11exbyu	60	6	2000	2000	CD
cord-260508-z11exbyu	60	7	)	)	-RRB-
cord-260508-z11exbyu	60	8	.	.	.
cord-260508-z11exbyu	61	1	However	however	RB
cord-260508-z11exbyu	61	2	,	,	,
cord-260508-z11exbyu	61	3	it	-PRON-	PRP
cord-260508-z11exbyu	61	4	is	be	VBZ
cord-260508-z11exbyu	61	5	unclear	unclear	JJ
cord-260508-z11exbyu	61	6	in	in	IN
cord-260508-z11exbyu	61	7	the	the	DT
cord-260508-z11exbyu	61	8	current	current	JJ
cord-260508-z11exbyu	61	9	case	case	NN
cord-260508-z11exbyu	61	10	how	how	WRB
cord-260508-z11exbyu	61	11	best	good	JJS
cord-260508-z11exbyu	61	12	to	to	TO
cord-260508-z11exbyu	61	13	estimate	estimate	VB
cord-260508-z11exbyu	61	14	d	d	NNP
cord-260508-z11exbyu	61	15	S	S	NNP
cord-260508-z11exbyu	61	16	.	.	.
cord-260508-z11exbyu	62	1	For	for	IN
cord-260508-z11exbyu	62	2	this	this	DT
cord-260508-z11exbyu	62	3	25	25	CD
cord-260508-z11exbyu	62	4	reason	reason	NN
cord-260508-z11exbyu	62	5	,	,	,
cord-260508-z11exbyu	62	6	we	-PRON-	PRP
cord-260508-z11exbyu	62	7	performed	perform	VBD
cord-260508-z11exbyu	62	8	a	a	DT
cord-260508-z11exbyu	62	9	small	small	JJ
cord-260508-z11exbyu	62	10	simulations	simulation	NNS
cord-260508-z11exbyu	62	11	study	study	VBP
cord-260508-z11exbyu	62	12	(	(	-LRB-
cord-260508-z11exbyu	62	13	see	see	VB
cord-260508-z11exbyu	62	14	Methods	Methods	NNPS
cord-260508-z11exbyu	62	15	)	)	-RRB-
cord-260508-z11exbyu	62	16	for	for	IN
cord-260508-z11exbyu	62	17	evaluating	evaluate	VBG
cord-260508-z11exbyu	62	18	the	the	DT
cord-260508-z11exbyu	62	19	performance	performance	NN
cord-260508-z11exbyu	62	20	of	of	IN
cord-260508-z11exbyu	62	21	the	the	DT
cord-260508-z11exbyu	62	22	maximum	maximum	JJ
cord-260508-z11exbyu	62	23	likelihood	likelihood	NN
cord-260508-z11exbyu	62	24	(	(	-LRB-
cord-260508-z11exbyu	62	25	ML	ml	NN
cord-260508-z11exbyu	62	26	)	)	-RRB-
cord-260508-z11exbyu	62	27	estimator	estimator	NN
cord-260508-z11exbyu	62	28	of	of	IN
cord-260508-z11exbyu	62	29	d	d	NNP
cord-260508-z11exbyu	62	30	N	N	NNP
cord-260508-z11exbyu	62	31	and	and	CC
cord-260508-z11exbyu	62	32	d	d	NNP
cord-260508-z11exbyu	62	33	S	S	NNP
cord-260508-z11exbyu	62	34	(	(	-LRB-
cord-260508-z11exbyu	62	35	as	as	IN
cord-260508-z11exbyu	62	36	implemented	implement	VBN
cord-260508-z11exbyu	62	37	in	in	IN
cord-260508-z11exbyu	62	38	codeml	codeml	NN
cord-260508-z11exbyu	62	39	(	(	-LRB-
cord-260508-z11exbyu	62	40	Yang	Yang	NNP
cord-260508-z11exbyu	62	41	2007	2007	CD
cord-260508-z11exbyu	62	42	)	)	-RRB-
cord-260508-z11exbyu	62	43	)	)	-RRB-
cord-260508-z11exbyu	63	1	1	1	CD
cord-260508-z11exbyu	63	2	under	under	IN
cord-260508-z11exbyu	63	3	the	the	DT
cord-260508-z11exbyu	63	4	F3x4	F3x4	NNP
cord-260508-z11exbyu	63	5	model	model	NN
cord-260508-z11exbyu	63	6	and	and	CC
cord-260508-z11exbyu	63	7	the	the	DT
cord-260508-z11exbyu	63	8	YN00	YN00	NNP
cord-260508-z11exbyu	63	9	method	method	NN
cord-260508-z11exbyu	63	10	implemented	implement	VBN
cord-260508-z11exbyu	63	11	in	in	IN
cord-260508-z11exbyu	63	12	PAML	PAML	NNP
cord-260508-z11exbyu	63	13	.	.	.
cord-260508-z11exbyu	64	1	In	in	IN
cord-260508-z11exbyu	64	2	general	general	JJ
cord-260508-z11exbyu	64	3	,	,	,
cord-260508-z11exbyu	64	4	we	-PRON-	PRP
cord-260508-z11exbyu	64	5	find	find	VBP
cord-260508-z11exbyu	64	6	that	that	IN
cord-260508-z11exbyu	64	7	2	2	CD
cord-260508-z11exbyu	64	8	estimates	estimate	NNS
cord-260508-z11exbyu	64	9	under	under	IN
cord-260508-z11exbyu	64	10	the	the	DT
cord-260508-z11exbyu	64	11	YN00	YN00	NNP
cord-260508-z11exbyu	64	12	are	be	VBP
cord-260508-z11exbyu	64	13	more	more	RBR
cord-260508-z11exbyu	64	14	biased	biased	JJ
cord-260508-z11exbyu	64	15	with	with	IN
cord-260508-z11exbyu	64	16	slightly	slightly	RB
cord-260508-z11exbyu	64	17	higher	high	JJR
cord-260508-z11exbyu	64	18	MSE	MSE	NNP
cord-260508-z11exbyu	64	19	than	than	IN
cord-260508-z11exbyu	64	20	the	the	DT
cord-260508-z11exbyu	64	21	ML	ML	NNP
cord-260508-z11exbyu	64	22	estimate	estimate	NN
cord-260508-z11exbyu	64	23	for	for	IN
cord-260508-z11exbyu	64	24	3	3	CD
cord-260508-z11exbyu	64	25	values	value	NNS
cord-260508-z11exbyu	64	26	in	in	IN
cord-260508-z11exbyu	64	27	the	the	DT
cord-260508-z11exbyu	64	28	most	most	RBS
cord-260508-z11exbyu	64	29	relevant	relevant	JJ
cord-260508-z11exbyu	64	30	regime	regime	NN
cord-260508-z11exbyu	64	31	of	of	IN
cord-260508-z11exbyu	64	32	d	d	NN
cord-260508-z11exbyu	64	33	S	s	NN
cord-260508-z11exbyu	65	1	<	<	XX
cord-260508-z11exbyu	65	2	1.5	1.5	CD
cord-260508-z11exbyu	66	1	(	(	-LRB-
cord-260508-z11exbyu	66	2	Fig	Fig	NNP
cord-260508-z11exbyu	66	3	.	.	.
cord-260508-z11exbyu	67	1	3	3	LS
cord-260508-z11exbyu	67	2	)	)	-RRB-
cord-260508-z11exbyu	67	3	.	.	.
cord-260508-z11exbyu	68	1	However	however	RB
cord-260508-z11exbyu	68	2	,	,	,
cord-260508-z11exbyu	68	3	we	-PRON-	PRP
cord-260508-z11exbyu	68	4	also	also	RB
cord-260508-z11exbyu	68	5	notice	notice	VBP
cord-260508-z11exbyu	68	6	that	that	IN
cord-260508-z11exbyu	68	7	both	both	DT
cord-260508-z11exbyu	68	8	4	4	CD
cord-260508-z11exbyu	68	9	estimators	estimator	NNS
cord-260508-z11exbyu	68	10	are	be	VBP
cord-260508-z11exbyu	68	11	biased	biased	JJ
cord-260508-z11exbyu	68	12	under	under	IN
cord-260508-z11exbyu	68	13	these	these	DT
cord-260508-z11exbyu	68	14	conditions	condition	NNS
cord-260508-z11exbyu	68	15	.	.	.
cord-260508-z11exbyu	69	1	For	for	IN
cord-260508-z11exbyu	69	2	this	this	DT
cord-260508-z11exbyu	69	3	reason	reason	NN
cord-260508-z11exbyu	69	4	,	,	,
cord-260508-z11exbyu	69	5	we	-PRON-	PRP
cord-260508-z11exbyu	69	6	perform	perform	VBP
cord-260508-z11exbyu	69	7	a	a	DT
cord-260508-z11exbyu	69	8	bias	bias	NN
cord-260508-z11exbyu	69	9	correction	correction	NN
cord-260508-z11exbyu	69	10	5	5	CD
cord-260508-z11exbyu	69	11	calibrated	calibrate	VBN
cord-260508-z11exbyu	69	12	using	use	VBG
cord-260508-z11exbyu	69	13	simulations	simulation	NNS
cord-260508-z11exbyu	69	14	specific	specific	JJ
cord-260508-z11exbyu	69	15	to	to	IN
cord-260508-z11exbyu	69	16	the	the	DT
cord-260508-z11exbyu	69	17	nucleotide	nucleotide	JJ
cord-260508-z11exbyu	69	18	frequencies	frequency	NNS
cord-260508-z11exbyu	69	19	and	and	CC
cord-260508-z11exbyu	69	20	d	d	NNP
cord-260508-z11exbyu	69	21	N	N	NNP
cord-260508-z11exbyu	69	22	/d	/d	NNP
cord-260508-z11exbyu	69	23	S	S	NNP
cord-260508-z11exbyu	69	24	ratio	ratio	NN
cord-260508-z11exbyu	69	25	observed	observe	VBD
cord-260508-z11exbyu	69	26	for	for	IN
cord-260508-z11exbyu	69	27	6	6	CD
cord-260508-z11exbyu	69	28	SARS	SARS	NNP
cord-260508-z11exbyu	69	29	-	-	HYPH
cord-260508-z11exbyu	69	30	CoV-2	CoV-2	NNP
cord-260508-z11exbyu	69	31	(	(	-LRB-
cord-260508-z11exbyu	69	32	see	see	VB
cord-260508-z11exbyu	69	33	Methods	Methods	NNPS
cord-260508-z11exbyu	69	34	)	)	-RRB-
cord-260508-z11exbyu	69	35	.	.	.
cord-260508-z11exbyu	70	1	The	the	DT
cord-260508-z11exbyu	70	2	bias	bias	NN
cord-260508-z11exbyu	70	3	corrections	correction	NNS
cord-260508-z11exbyu	70	4	we	-PRON-	PRP
cord-260508-z11exbyu	70	5	obtain	obtain	VBP
cord-260508-z11exbyu	70	6	are	be	VBP
cord-260508-z11exbyu	70	7	^	^	.
cord-260508-z11exbyu	71	1	*	*	NFP
cord-260508-z11exbyu	71	2	=	=	NFP
cord-260508-z11exbyu	71	3	^	^	NFP
cord-260508-z11exbyu	72	1	+	+	SYM
cord-260508-z11exbyu	72	2	0.455	0.455	CD
cord-260508-z11exbyu	72	3	^	^	SYM
cord-260508-z11exbyu	72	4	2	2	CD
cord-260508-z11exbyu	72	5	-0.824	-0.824	NN
cord-260508-z11exbyu	72	6	^	^	:
cord-260508-z11exbyu	72	7	3	3	CD
cord-260508-z11exbyu	72	8	7	7	CD
cord-260508-z11exbyu	72	9	+	+	SYM
cord-260508-z11exbyu	72	10	0.264	0.264	CD
cord-260508-z11exbyu	72	11	^	^	SYM
cord-260508-z11exbyu	72	12	4	4	CD
cord-260508-z11exbyu	72	13	,	,	,
cord-260508-z11exbyu	72	14	for	for	IN
cord-260508-z11exbyu	72	15	the	the	DT
cord-260508-z11exbyu	72	16	ML	ML	NNP
cord-260508-z11exbyu	72	17	estimator	estimator	NN
cord-260508-z11exbyu	72	18	and	and	CC
cord-260508-z11exbyu	72	19	^	^	.
cord-260508-z11exbyu	73	1	*	*	NFP
cord-260508-z11exbyu	73	2	=	=	SYM
cord-260508-z11exbyu	73	3	^+	^+	NFP
cord-260508-z11exbyu	73	4	1.492	1.492	CD
cord-260508-z11exbyu	73	5	^	^	SYM
cord-260508-z11exbyu	73	6	2	2	CD
cord-260508-z11exbyu	73	7	-	-	HYPH
cord-260508-z11exbyu	73	8	3.166	3.166	CD
cord-260508-z11exbyu	73	9	^	^	SYM
cord-260508-z11exbyu	73	10	3	3	CD
cord-260508-z11exbyu	73	11	+	+	SYM
cord-260508-z11exbyu	73	12	1.241	1.241	CD
cord-260508-z11exbyu	73	13	^	^	SYM
cord-260508-z11exbyu	73	14	4	4	CD
cord-260508-z11exbyu	73	15	for	for	IN
cord-260508-z11exbyu	73	16	yn00	yn00	NNP
cord-260508-z11exbyu	73	17	.	.	.
cord-260508-z11exbyu	74	1	Notice	notice	NN
cord-260508-z11exbyu	74	2	8	8	CD
cord-260508-z11exbyu	74	3	that	that	IN
cord-260508-z11exbyu	74	4	there	there	EX
cord-260508-z11exbyu	74	5	is	be	VBZ
cord-260508-z11exbyu	74	6	a	a	DT
cord-260508-z11exbyu	74	7	trade	trade	NN
cord-260508-z11exbyu	74	8	-	-	HYPH
cord-260508-z11exbyu	74	9	off	off	NN
cord-260508-z11exbyu	74	10	between	between	IN
cord-260508-z11exbyu	74	11	mean	mean	NN
cord-260508-z11exbyu	74	12	and	and	CC
cord-260508-z11exbyu	74	13	variance	variance	NN
cord-260508-z11exbyu	75	1	(	(	-LRB-
cord-260508-z11exbyu	75	2	Fig	Fig	NNP
cord-260508-z11exbyu	75	3	.	.	.
cord-260508-z11exbyu	75	4	3	3	CD
cord-260508-z11exbyu	75	5	)	)	-RRB-
cord-260508-z11exbyu	76	1	so	so	IN
cord-260508-z11exbyu	76	2	that	that	IN
cord-260508-z11exbyu	76	3	the	the	DT
cord-260508-z11exbyu	76	4	MSE	MSE	NNP
cord-260508-z11exbyu	76	5	becomes	become	VBZ
cord-260508-z11exbyu	76	6	very	very	RB
cord-260508-z11exbyu	76	7	9	9	CD
cord-260508-z11exbyu	76	8	large	large	JJ
cord-260508-z11exbyu	76	9	,	,	,
cord-260508-z11exbyu	76	10	particularly	particularly	RB
cord-260508-z11exbyu	76	11	for	for	IN
cord-260508-z11exbyu	76	12	the	the	DT
cord-260508-z11exbyu	76	13	for	for	IN
cord-260508-z11exbyu	76	14	yn00	yn00	NNP
cord-260508-z11exbyu	76	15	method	method	NN
cord-260508-z11exbyu	76	16	,	,	,
cord-260508-z11exbyu	76	17	after	after	IN
cord-260508-z11exbyu	76	18	bias	bias	NN
cord-260508-z11exbyu	76	19	correction	correction	NN
cord-260508-z11exbyu	76	20	.	.	.
cord-260508-z11exbyu	77	1	For	for	IN
cord-260508-z11exbyu	77	2	d	d	NN
cord-260508-z11exbyu	77	3	S	s	NN
cord-260508-z11exbyu	78	1	>	>	XX
cord-260508-z11exbyu	79	1	2	2	LS
cord-260508-z11exbyu	80	1	the	the	DT
cord-260508-z11exbyu	80	2	estimates	estimate	NNS
cord-260508-z11exbyu	80	3	are	be	VBP
cord-260508-z11exbyu	80	4	10	10	CD
cord-260508-z11exbyu	80	5	generally	generally	RB
cord-260508-z11exbyu	80	6	not	not	RB
cord-260508-z11exbyu	80	7	reliable	reliable	JJ
cord-260508-z11exbyu	80	8	,	,	,
cord-260508-z11exbyu	80	9	however	however	RB
cord-260508-z11exbyu	80	10	,	,	,
cord-260508-z11exbyu	80	11	we	-PRON-	PRP
cord-260508-z11exbyu	80	12	note	note	VBP
cord-260508-z11exbyu	80	13	that	that	IN
cord-260508-z11exbyu	80	14	for	for	IN
cord-260508-z11exbyu	80	15	d	d	NNP
cord-260508-z11exbyu	80	16	S	s	NN
cord-260508-z11exbyu	80	17	<	<	XX
cord-260508-z11exbyu	80	18	1.5	1.5	CD
cord-260508-z11exbyu	80	19	the	the	DT
cord-260508-z11exbyu	80	20	bias	bias	NN
cord-260508-z11exbyu	80	21	-	-	HYPH
cord-260508-z11exbyu	80	22	corrected	correct	VBN
cord-260508-z11exbyu	80	23	ML	ML	NNP
cord-260508-z11exbyu	80	24	estimator	estimator	NN
cord-260508-z11exbyu	80	25	tends	tend	VBZ
cord-260508-z11exbyu	80	26	11	11	CD
cord-260508-z11exbyu	80	27	overall	overall	RB
cord-260508-z11exbyu	80	28	to	to	TO
cord-260508-z11exbyu	80	29	have	have	VB
cord-260508-z11exbyu	80	30	slightly	slightly	RB
cord-260508-z11exbyu	80	31	lower	low	JJR
cord-260508-z11exbyu	80	32	MSE	MSE	NNP
cord-260508-z11exbyu	80	33	,	,	,
cord-260508-z11exbyu	80	34	and	and	CC
cord-260508-z11exbyu	80	35	we	-PRON-	PRP
cord-260508-z11exbyu	80	36	,	,	,
cord-260508-z11exbyu	80	37	therefore	therefore	RB
cord-260508-z11exbyu	80	38	,	,	,
cord-260508-z11exbyu	80	39	use	use	VB
cord-260508-z11exbyu	80	40	this	this	DT
cord-260508-z11exbyu	80	41	estimator	estimator	NN
cord-260508-z11exbyu	80	42	for	for	IN
cord-260508-z11exbyu	80	43	analyses	analysis	NNS
cord-260508-z11exbyu	80	44	of	of	IN
cord-260508-z11exbyu	80	45	300	300	CD
cord-260508-z11exbyu	80	46	bp	bp	NNP
cord-260508-z11exbyu	80	47	12	12	CD
cord-260508-z11exbyu	80	48	regions	region	NNS
cord-260508-z11exbyu	80	49	.	.	.
cord-260508-z11exbyu	81	1	by	by	IN
cord-260508-z11exbyu	81	2	recombination	recombination	NN
cord-260508-z11exbyu	81	3	with	with	IN
cord-260508-z11exbyu	81	4	more	more	RBR
cord-260508-z11exbyu	81	5	divergent	divergent	JJ
cord-260508-z11exbyu	81	6	strains	strain	NNS
cord-260508-z11exbyu	81	7	.	.	.
cord-260508-z11exbyu	82	1	We	-PRON-	PRP
cord-260508-z11exbyu	82	2	,	,	,
cord-260508-z11exbyu	82	3	therefore	therefore	RB
cord-260508-z11exbyu	82	4	,	,	,
cord-260508-z11exbyu	82	5	also	also	RB
cord-260508-z11exbyu	82	6	estimate	estimate	VBP
cord-260508-z11exbyu	82	7	d	d	NNP
cord-260508-z11exbyu	82	8	N	N	NNP
cord-260508-z11exbyu	82	9	and	and	CC
cord-260508-z11exbyu	82	10	d	d	NNP
cord-260508-z11exbyu	82	11	S	S	NNP
cord-260508-z11exbyu	82	12	for	for	IN
cord-260508-z11exbyu	82	13	the	the	DT
cord-260508-z11exbyu	82	14	20	20	CD
cord-260508-z11exbyu	82	15	regions	region	NNS
cord-260508-z11exbyu	82	16	with	with	IN
cord-260508-z11exbyu	82	17	inferred	infer	VBN
cord-260508-z11exbyu	82	18	recombination	recombination	NN
cord-260508-z11exbyu	82	19	tracts	tract	NNS
cord-260508-z11exbyu	82	20	(	(	-LRB-
cord-260508-z11exbyu	82	21	Supplementary	Supplementary	NNP
cord-260508-z11exbyu	82	22	Table	Table	NNP
cord-260508-z11exbyu	82	23	5	5	CD
cord-260508-z11exbyu	82	24	)	)	-RRB-
cord-260508-z11exbyu	82	25	removed	remove	VBN
cord-260508-z11exbyu	82	26	from	from	IN
cord-260508-z11exbyu	82	27	all	all	DT
cord-260508-z11exbyu	82	28	21	21	CD
cord-260508-z11exbyu	82	29	sequences	sequence	NNS
cord-260508-z11exbyu	82	30	(	(	-LRB-
cord-260508-z11exbyu	82	31	Table	Table	NNP
cord-260508-z11exbyu	82	32	3	3	CD
cord-260508-z11exbyu	82	33	)	)	-RRB-
cord-260508-z11exbyu	82	34	respectively	respectively	RB
cord-260508-z11exbyu	82	35	.	.	.
cord-260508-z11exbyu	83	1	This	this	DT
cord-260508-z11exbyu	83	2	confirms	confirm	VBZ
cord-260508-z11exbyu	83	3	that	that	IN
cord-260508-z11exbyu	83	4	RmYN02	RmYN02	NNP
cord-260508-z11exbyu	83	5	is	be	VBZ
cord-260508-z11exbyu	83	6	the	the	DT
cord-260508-z11exbyu	83	7	virus	virus	NN
cord-260508-z11exbyu	83	8	most	most	RBS
cord-260508-z11exbyu	83	9	closely	closely	RB
cord-260508-z11exbyu	83	10	related	related	JJ
cord-260508-z11exbyu	83	11	to	to	IN
cord-260508-z11exbyu	83	12	SARS	SARS	NNP
cord-260508-z11exbyu	83	13	-	-	HYPH
cord-260508-z11exbyu	83	14	CoV-2	CoV-2	NNP
cord-260508-z11exbyu	83	15	.	.	.
cord-260508-z11exbyu	84	1	The	the	DT
cord-260508-z11exbyu	84	2	24	24	CD
cord-260508-z11exbyu	84	3	relative	relative	JJ
cord-260508-z11exbyu	84	4	high	high	JJ
cord-260508-z11exbyu	84	5	synonymous	synonymous	JJ
cord-260508-z11exbyu	84	6	divergence	divergence	NN
cord-260508-z11exbyu	84	7	also	also	RB
cord-260508-z11exbyu	84	8	shows	show	VBZ
cord-260508-z11exbyu	84	9	that	that	IN
cord-260508-z11exbyu	84	10	the	the	DT
cord-260508-z11exbyu	84	11	apparent	apparent	JJ
cord-260508-z11exbyu	84	12	high	high	JJ
cord-260508-z11exbyu	84	13	nucleotide	nucleotide	JJ
cord-260508-z11exbyu	84	14	similarity	similarity	NN
cord-260508-z11exbyu	84	15	between	between	IN
cord-260508-z11exbyu	84	16	SARS	SARS	NNP
cord-260508-z11exbyu	84	17	-	-	HYPH
cord-260508-z11exbyu	84	18	CoV-2	CoV-2	NNP
cord-260508-z11exbyu	84	19	and	and	CC
cord-260508-z11exbyu	84	20	the	the	DT
cord-260508-z11exbyu	84	21	bat	bat	NN
cord-260508-z11exbyu	84	22	strains	strain	NNS
cord-260508-z11exbyu	84	23	(	(	-LRB-
cord-260508-z11exbyu	84	24	96.2	96.2	CD
cord-260508-z11exbyu	84	25	%	%	NN
cord-260508-z11exbyu	84	26	(	(	-LRB-
cord-260508-z11exbyu	84	27	Zhou	Zhou	NNP
cord-260508-z11exbyu	84	28	,	,	,
cord-260508-z11exbyu	84	29	Yang	Yang	NNP
cord-260508-z11exbyu	84	30	,	,	,
cord-260508-z11exbyu	84	31	et	et	NNP
cord-260508-z11exbyu	84	32	al	al	NNP
cord-260508-z11exbyu	84	33	.	.	NNP
cord-260508-z11exbyu	84	34	2020	2020	CD
cord-260508-z11exbyu	84	35	)	)	-RRB-
cord-260508-z11exbyu	84	36	and	and	CC
cord-260508-z11exbyu	84	37	97.2%(Zhou	97.2%(Zhou	NNP
cord-260508-z11exbyu	84	38	,	,	,
cord-260508-z11exbyu	84	39	1	1	CD
cord-260508-z11exbyu	84	40	Chen	Chen	NNP
cord-260508-z11exbyu	84	41	,	,	,
cord-260508-z11exbyu	84	42	et	et	NNP
cord-260508-z11exbyu	84	43	al	al	NNP
cord-260508-z11exbyu	84	44	.	.	NNP
cord-260508-z11exbyu	84	45	2020	2020	CD
cord-260508-z11exbyu	84	46	)	)	-RRB-
cord-260508-z11exbyu	84	47	)	)	-RRB-
cord-260508-z11exbyu	84	48	is	be	VBZ
cord-260508-z11exbyu	84	49	caused	cause	VBN
cord-260508-z11exbyu	84	50	by	by	IN
cord-260508-z11exbyu	84	51	conservation	conservation	NN
cord-260508-z11exbyu	84	52	at	at	IN
cord-260508-z11exbyu	84	53	the	the	DT
cord-260508-z11exbyu	84	54	amino	amino	NN
cord-260508-z11exbyu	84	55	acid	acid	NN
cord-260508-z11exbyu	84	56	level	level	NN
cord-260508-z11exbyu	84	57	(	(	-LRB-
cord-260508-z11exbyu	84	58	d	d	NNP
cord-260508-z11exbyu	84	59	N	N	NNP
cord-260508-z11exbyu	84	60	/	/	SYM
cord-260508-z11exbyu	84	61	d	d	NN
cord-260508-z11exbyu	84	62	S	s	NN
cord-260508-z11exbyu	84	63	=	=	NN
cord-260508-z11exbyu	85	1	0.0410	0.0410	CD
cord-260508-z11exbyu	85	2	and	and	CC
cord-260508-z11exbyu	85	3	2	2	CD
cord-260508-z11exbyu	85	4	0.0555	0.0555	CD
cord-260508-z11exbyu	85	5	)	)	-RRB-
cord-260508-z11exbyu	85	6	exacerbated	exacerbate	VBN
cord-260508-z11exbyu	85	7	by	by	IN
cord-260508-z11exbyu	85	8	a	a	DT
cord-260508-z11exbyu	85	9	high	high	JJ
cord-260508-z11exbyu	85	10	degree	degree	NN
cord-260508-z11exbyu	85	11	of	of	IN
cord-260508-z11exbyu	85	12	synonymous	synonymous	JJ
cord-260508-z11exbyu	85	13	homoplasy	homoplasy	NN
cord-260508-z11exbyu	85	14	facilitated	facilitate	VBN
cord-260508-z11exbyu	85	15	by	by	IN
cord-260508-z11exbyu	85	16	a	a	DT
cord-260508-z11exbyu	85	17	highly	highly	RB
cord-260508-z11exbyu	85	18	skewed	skewed	JJ
cord-260508-z11exbyu	85	19	3	3	CD
cord-260508-z11exbyu	85	20	nucleotide	nucleotide	JJ
cord-260508-z11exbyu	85	21	composition	composition	NN
cord-260508-z11exbyu	85	22	at	at	IN
cord-260508-z11exbyu	85	23	the	the	DT
cord-260508-z11exbyu	85	24	third	third	JJ
cord-260508-z11exbyu	85	25	position	position	NN
cord-260508-z11exbyu	85	26	of	of	IN
cord-260508-z11exbyu	85	27	codons	codon	NNS
cord-260508-z11exbyu	85	28	(	(	-LRB-
cord-260508-z11exbyu	85	29	with	with	IN
cord-260508-z11exbyu	85	30	an	an	DT
cord-260508-z11exbyu	85	31	AT	AT	NNP
cord-260508-z11exbyu	85	32	content	content	NN
cord-260508-z11exbyu	85	33	>	>	XX
cord-260508-z11exbyu	86	1	72	72	CD
cord-260508-z11exbyu	86	2	%	%	NN
cord-260508-z11exbyu	86	3	,	,	,
cord-260508-z11exbyu	86	4	Table	table	NN
cord-260508-z11exbyu	86	5	1	1	CD
cord-260508-z11exbyu	86	6	)	)	-RRB-
cord-260508-z11exbyu	86	7	.	.	.
cord-260508-z11exbyu	87	1	4	4	LS
cord-260508-z11exbyu	88	1	The	the	DT
cord-260508-z11exbyu	88	2	synonymous	synonymous	JJ
cord-260508-z11exbyu	88	3	divergence	divergence	NN
cord-260508-z11exbyu	88	4	to	to	IN
cord-260508-z11exbyu	88	5	the	the	DT
cord-260508-z11exbyu	88	6	pangolin	pangolin	NN
cord-260508-z11exbyu	88	7	sequences	sequence	NNS
cord-260508-z11exbyu	88	8	GD410721	GD410721	NNP
cord-260508-z11exbyu	88	9	and	and	CC
cord-260508-z11exbyu	88	10	GX_P1E	GX_P1E	NNP
cord-260508-z11exbyu	88	11	in	in	IN
cord-260508-z11exbyu	88	12	5	5	CD
cord-260508-z11exbyu	88	13	genomic	genomic	JJ
cord-260508-z11exbyu	88	14	regions	region	NNS
cord-260508-z11exbyu	88	15	with	with	IN
cord-260508-z11exbyu	88	16	inferred	infer	VBN
cord-260508-z11exbyu	88	17	recombination	recombination	NN
cord-260508-z11exbyu	88	18	tracts	tract	NNS
cord-260508-z11exbyu	88	19	removed	remove	VBN
cord-260508-z11exbyu	88	20	is	be	VBZ
cord-260508-z11exbyu	88	21	0.5095	0.5095	CD
cord-260508-z11exbyu	88	22	(	(	-LRB-
cord-260508-z11exbyu	88	23	95	95	CD
cord-260508-z11exbyu	88	24	%	%	NN
cord-260508-z11exbyu	88	25	C.I.	C.I.	NNP
cord-260508-z11exbyu	88	26	,	,	,
cord-260508-z11exbyu	88	27	0.4794	0.4794	CD
cord-260508-z11exbyu	88	28	-	-	HYPH
cord-260508-z11exbyu	88	29	0.5396	0.5396	CD
cord-260508-z11exbyu	88	30	)	)	-RRB-
cord-260508-z11exbyu	88	31	6	6	CD
cord-260508-z11exbyu	88	32	and	and	CC
cord-260508-z11exbyu	88	33	1.0304	1.0304	CD
cord-260508-z11exbyu	88	34	(	(	-LRB-
cord-260508-z11exbyu	88	35	95	95	CD
cord-260508-z11exbyu	88	36	%	%	NN
cord-260508-z11exbyu	88	37	C.I.	C.I.	NNP
cord-260508-z11exbyu	88	38	,	,	,
cord-260508-z11exbyu	88	39	0.9669	0.9669	CD
cord-260508-z11exbyu	88	40	-	-	SYM
cord-260508-z11exbyu	88	41	1.0939	1.0939	CD
cord-260508-z11exbyu	88	42	)	)	-RRB-
cord-260508-z11exbyu	88	43	,	,	,
cord-260508-z11exbyu	88	44	respectively	respectively	RB
cord-260508-z11exbyu	88	45	.	.	.
cord-260508-z11exbyu	89	1	Values	value	NNS
cord-260508-z11exbyu	89	2	for	for	IN
cord-260508-z11exbyu	89	3	other	other	JJ
cord-260508-z11exbyu	89	4	comparisons	comparison	NNS
cord-260508-z11exbyu	89	5	are	be	VBP
cord-260508-z11exbyu	89	6	shown	show	VBN
cord-260508-z11exbyu	89	7	in	in	IN
cord-260508-z11exbyu	89	8	7	7	CD
cord-260508-z11exbyu	89	9	Tables	table	NNS
cord-260508-z11exbyu	89	10	2	2	CD
cord-260508-z11exbyu	89	11	and	and	CC
cord-260508-z11exbyu	89	12	3	3	CD
cord-260508-z11exbyu	89	13	.	.	.
cord-260508-z11exbyu	90	1	In	in	IN
cord-260508-z11exbyu	90	2	comparisons	comparison	NNS
cord-260508-z11exbyu	90	3	between	between	IN
cord-260508-z11exbyu	90	4	SARS	SARS	NNP
cord-260508-z11exbyu	90	5	-	-	HYPH
cord-260508-z11exbyu	90	6	CoV-2	CoV-2	NNP
cord-260508-z11exbyu	90	7	and	and	CC
cord-260508-z11exbyu	90	8	more	more	RBR
cord-260508-z11exbyu	90	9	distantly	distantly	RB
cord-260508-z11exbyu	90	10	related	related	JJ
cord-260508-z11exbyu	90	11	strains	strain	NNS
cord-260508-z11exbyu	90	12	,	,	,
cord-260508-z11exbyu	90	13	d	d	NNP
cord-260508-z11exbyu	90	14	S	S	NNP
cord-260508-z11exbyu	90	15	will	will	MD
cord-260508-z11exbyu	90	16	8	8	CD
cord-260508-z11exbyu	90	17	be	be	VB
cord-260508-z11exbyu	90	18	larger	large	JJR
cord-260508-z11exbyu	90	19	than	than	IN
cord-260508-z11exbyu	90	20	1	1	CD
cord-260508-z11exbyu	90	21	,	,	,
cord-260508-z11exbyu	90	22	and	and	CC
cord-260508-z11exbyu	90	23	with	with	IN
cord-260508-z11exbyu	90	24	this	this	DT
cord-260508-z11exbyu	90	25	level	level	NN
cord-260508-z11exbyu	90	26	of	of	IN
cord-260508-z11exbyu	90	27	saturation	saturation	NN
cord-260508-z11exbyu	90	28	,	,	,
cord-260508-z11exbyu	90	29	estimation	estimation	NN
cord-260508-z11exbyu	90	30	of	of	IN
cord-260508-z11exbyu	90	31	divergence	divergence	NN
cord-260508-z11exbyu	90	32	is	be	VBZ
cord-260508-z11exbyu	90	33	associated	associate	VBN
cord-260508-z11exbyu	90	34	with	with	IN
cord-260508-z11exbyu	90	35	9	9	CD
cord-260508-z11exbyu	90	36	high	high	JJ
cord-260508-z11exbyu	90	37	variance	variance	NN
cord-260508-z11exbyu	90	38	and	and	CC
cord-260508-z11exbyu	90	39	may	may	MD
cord-260508-z11exbyu	90	40	be	be	VB
cord-260508-z11exbyu	90	41	highly	highly	RB
cord-260508-z11exbyu	90	42	dependent	dependent	JJ
cord-260508-z11exbyu	90	43	on	on	IN
cord-260508-z11exbyu	90	44	the	the	DT
cord-260508-z11exbyu	90	45	accuracy	accuracy	NN
cord-260508-z11exbyu	90	46	of	of	IN
cord-260508-z11exbyu	90	47	the	the	DT
cord-260508-z11exbyu	90	48	model	model	NN
cord-260508-z11exbyu	90	49	assumptions	assumption	NNS
cord-260508-z11exbyu	90	50	.	.	.
cord-260508-z11exbyu	91	1	This	this	DT
cord-260508-z11exbyu	91	2	10	10	CD
cord-260508-z11exbyu	91	3	makes	make	VBZ
cord-260508-z11exbyu	91	4	phylogenetic	phylogenetic	JJ
cord-260508-z11exbyu	91	5	analyses	analysis	NNS
cord-260508-z11exbyu	91	6	based	base	VBN
cord-260508-z11exbyu	91	7	on	on	IN
cord-260508-z11exbyu	91	8	synonymous	synonymous	JJ
cord-260508-z11exbyu	91	9	mutations	mutation	NNS
cord-260508-z11exbyu	91	10	unreliable	unreliable	JJ
cord-260508-z11exbyu	91	11	when	when	WRB
cord-260508-z11exbyu	91	12	applied	apply	VBN
cord-260508-z11exbyu	91	13	to	to	IN
cord-260508-z11exbyu	91	14	11	11	CD
cord-260508-z11exbyu	91	15	these	these	DT
cord-260508-z11exbyu	91	16	more	more	JJR
cord-260508-z11exbyu	91	17	divergent	divergent	JJ
cord-260508-z11exbyu	91	18	sequences	sequence	NNS
cord-260508-z11exbyu	91	19	.	.	.
cord-260508-z11exbyu	92	1	Nonetheless	nonetheless	RB
cord-260508-z11exbyu	92	2	,	,	,
cord-260508-z11exbyu	92	3	the	the	DT
cord-260508-z11exbyu	92	4	synonymous	synonymous	JJ
cord-260508-z11exbyu	92	5	divergence	divergence	NN
cord-260508-z11exbyu	92	6	levels	level	NNS
cord-260508-z11exbyu	92	7	seem	seem	VBP
cord-260508-z11exbyu	92	8	Differences	difference	NNS
cord-260508-z11exbyu	92	9	between	between	IN
cord-260508-z11exbyu	92	10	estimates	estimate	NNS
cord-260508-z11exbyu	92	11	larger	large	JJR
cord-260508-z11exbyu	92	12	than	than	IN
cord-260508-z11exbyu	92	13	2.0	2.0	CD
cord-260508-z11exbyu	92	14	should	should	MD
cord-260508-z11exbyu	92	15	not	not	RB
cord-260508-z11exbyu	92	16	be	be	VB
cord-260508-z11exbyu	92	17	interpreted	interpret	VBN
cord-260508-z11exbyu	92	18	strongly	strongly	RB
cord-260508-z11exbyu	92	19	,	,	,
cord-260508-z11exbyu	92	20	as	as	IN
cord-260508-z11exbyu	92	21	these	these	DT
cord-260508-z11exbyu	92	22	24	24	CD
cord-260508-z11exbyu	92	23	estimates	estimate	NNS
cord-260508-z11exbyu	92	24	have	have	VBP
cord-260508-z11exbyu	92	25	high	high	JJ
cord-260508-z11exbyu	92	26	variance	variance	NN
cord-260508-z11exbyu	92	27	and	and	CC
cord-260508-z11exbyu	92	28	likely	likely	JJ
cord-260508-z11exbyu	92	29	will	will	MD
cord-260508-z11exbyu	92	30	be	be	VB
cord-260508-z11exbyu	92	31	quite	quite	RB
cord-260508-z11exbyu	92	32	sensitive	sensitive	JJ
cord-260508-z11exbyu	92	33	to	to	IN
cord-260508-z11exbyu	92	34	the	the	DT
cord-260508-z11exbyu	92	35	specifics	specific	NNS
cord-260508-z11exbyu	92	36	of	of	IN
cord-260508-z11exbyu	92	37	the	the	DT
cord-260508-z11exbyu	92	38	model	model	NN
cord-260508-z11exbyu	92	39	25	25	CD
cord-260508-z11exbyu	92	40	assumptions	assumption	NNS
cord-260508-z11exbyu	92	41	.	.	.
cord-260508-z11exbyu	93	1	We	-PRON-	PRP
cord-260508-z11exbyu	93	2	find	find	VBP
cord-260508-z11exbyu	93	3	that	that	IN
cord-260508-z11exbyu	93	4	d	d	NNP
cord-260508-z11exbyu	93	5	S	S	NNP
cord-260508-z11exbyu	93	6	(	(	-LRB-
cord-260508-z11exbyu	93	7	SARS	SARS	NNP
cord-260508-z11exbyu	93	8	-	-	HYPH
cord-260508-z11exbyu	93	9	CoV-2	CoV-2	NNP
cord-260508-z11exbyu	93	10	,	,	,
cord-260508-z11exbyu	93	11	GD410721	GD410721	NNP
cord-260508-z11exbyu	93	12	)	)	-RRB-
cord-260508-z11exbyu	93	13	approximately	approximately	RB
cord-260508-z11exbyu	93	14	equals	equal	VBZ
cord-260508-z11exbyu	93	15	d	d	NNP
cord-260508-z11exbyu	93	16	S	S	NNP
cord-260508-z11exbyu	93	17	(	(	-LRB-
cord-260508-z11exbyu	93	18	GD410721	GD410721	NNP
cord-260508-z11exbyu	93	19	,	,	,
cord-260508-z11exbyu	93	20	RaTG13	RaTG13	NNP
cord-260508-z11exbyu	93	21	)	)	-RRB-
cord-260508-z11exbyu	93	22	1	1	CD
cord-260508-z11exbyu	93	23	and	and	CC
cord-260508-z11exbyu	93	24	is	be	VBZ
cord-260508-z11exbyu	93	25	larger	large	JJR
cord-260508-z11exbyu	93	26	than	than	IN
cord-260508-z11exbyu	93	27	d	d	NNP
cord-260508-z11exbyu	93	28	S	S	NNP
cord-260508-z11exbyu	93	29	(	(	-LRB-
cord-260508-z11exbyu	93	30	SARS	SARS	NNP
cord-260508-z11exbyu	93	31	-	-	HYPH
cord-260508-z11exbyu	93	32	CoV-2	CoV-2	NNP
cord-260508-z11exbyu	93	33	,	,	,
cord-260508-z11exbyu	93	34	RaTG13	RaTG13	NNP
cord-260508-z11exbyu	93	35	)	)	-RRB-
cord-260508-z11exbyu	93	36	in	in	IN
cord-260508-z11exbyu	93	37	almost	almost	RB
cord-260508-z11exbyu	93	38	the	the	DT
cord-260508-z11exbyu	93	39	entire	entire	JJ
cord-260508-z11exbyu	93	40	genome	genome	NN
cord-260508-z11exbyu	93	41	showing	show	VBG
cord-260508-z11exbyu	93	42	than	than	IN
cord-260508-z11exbyu	93	43	in	in	IN
cord-260508-z11exbyu	93	44	these	these	DT
cord-260508-z11exbyu	93	45	2	2	CD
cord-260508-z11exbyu	93	46	parts	part	NNS
cord-260508-z11exbyu	93	47	of	of	IN
cord-260508-z11exbyu	93	48	the	the	DT
cord-260508-z11exbyu	93	49	genome	genome	NN
cord-260508-z11exbyu	94	1	GD410721	GD410721	NNP
cord-260508-z11exbyu	94	2	is	be	VBZ
cord-260508-z11exbyu	94	3	a	a	DT
cord-260508-z11exbyu	94	4	proper	proper	JJ
cord-260508-z11exbyu	94	5	outgroup	outgroup	NN
cord-260508-z11exbyu	94	6	to	to	IN
cord-260508-z11exbyu	94	7	(	(	-LRB-
cord-260508-z11exbyu	94	8	SARS	SARS	NNP
cord-260508-z11exbyu	94	9	-	-	HYPH
cord-260508-z11exbyu	94	10	CoV-2	CoV-2	NNP
cord-260508-z11exbyu	94	11	,	,	,
cord-260508-z11exbyu	94	12	RaTG13	RaTG13	NNP
cord-260508-z11exbyu	94	13	)	)	-RRB-
cord-260508-z11exbyu	94	14	assuming	assume	VBG
cord-260508-z11exbyu	94	15	a	a	DT
cord-260508-z11exbyu	94	16	3	3	CD
cord-260508-z11exbyu	94	17	constant	constant	JJ
cord-260508-z11exbyu	94	18	molecular	molecular	JJ
cord-260508-z11exbyu	94	19	clock	clock	NN
cord-260508-z11exbyu	94	20	.	.	.
cord-260508-z11exbyu	95	1	One	one	CD
cord-260508-z11exbyu	95	2	noticeable	noticeable	JJ
cord-260508-z11exbyu	95	3	exception	exception	NN
cord-260508-z11exbyu	95	4	from	from	IN
cord-260508-z11exbyu	95	5	this	this	DT
cord-260508-z11exbyu	95	6	is	be	VBZ
cord-260508-z11exbyu	95	7	the	the	DT
cord-260508-z11exbyu	95	8	RBD	RBD	NNP
cord-260508-z11exbyu	95	9	region	region	NN
cord-260508-z11exbyu	95	10	of	of	IN
cord-260508-z11exbyu	95	11	the	the	DT
cord-260508-z11exbyu	95	12	S	S	NNP
cord-260508-z11exbyu	95	13	gene	gene	NN
cord-260508-z11exbyu	95	14	.	.	.
cord-260508-z11exbyu	96	1	4	4	LS
cord-260508-z11exbyu	97	1	In	in	IN
cord-260508-z11exbyu	97	2	this	this	DT
cord-260508-z11exbyu	97	3	region	region	NN
cord-260508-z11exbyu	97	4	the	the	DT
cord-260508-z11exbyu	97	5	divergence	divergence	NN
cord-260508-z11exbyu	97	6	between	between	IN
cord-260508-z11exbyu	97	7	SARS	SARS	NNP
cord-260508-z11exbyu	97	8	-	-	HYPH
cord-260508-z11exbyu	97	9	CoV-2	CoV-2	NNP
cord-260508-z11exbyu	97	10	and	and	CC
cord-260508-z11exbyu	97	11	GD410721	GD410721	NNP
cord-260508-z11exbyu	97	12	is	be	VBZ
cord-260508-z11exbyu	97	13	substantially	substantially	RB
cord-260508-z11exbyu	97	14	lower	low	JJR
cord-260508-z11exbyu	97	15	than	than	IN
cord-260508-z11exbyu	97	16	5	5	CD
cord-260508-z11exbyu	97	17	between	between	IN
cord-260508-z11exbyu	97	18	GD410721	GD410721	NNP
cord-260508-z11exbyu	97	19	and	and	CC
cord-260508-z11exbyu	97	20	RaTG13	RaTG13	.
cord-260508-z11exbyu	98	1	(	(	-LRB-
cord-260508-z11exbyu	98	2	Fig	Fig	NNP
cord-260508-z11exbyu	98	3	.	.	.
cord-260508-z11exbyu	98	4	4a,4c	4a,4c	CD
cord-260508-z11exbyu	98	5	)	)	-RRB-
cord-260508-z11exbyu	98	6	.	.	.
cord-260508-z11exbyu	99	1	The	the	DT
cord-260508-z11exbyu	99	2	same	same	JJ
cord-260508-z11exbyu	99	3	region	region	NN
cord-260508-z11exbyu	99	4	also	also	RB
cord-260508-z11exbyu	99	5	has	have	VBZ
cord-260508-z11exbyu	99	6	much	much	RB
cord-260508-z11exbyu	99	7	smaller	small	JJR
cord-260508-z11exbyu	99	8	6	6	CD
cord-260508-z11exbyu	99	9	divergence	divergence	NN
cord-260508-z11exbyu	99	10	between	between	IN
cord-260508-z11exbyu	99	11	SARS	SARS	NNP
cord-260508-z11exbyu	99	12	-	-	HYPH
cord-260508-z11exbyu	99	13	CoV-2	CoV-2	NNP
cord-260508-z11exbyu	99	14	and	and	CC
cord-260508-z11exbyu	99	15	GD410721	GD410721	NNP
cord-260508-z11exbyu	99	16	than	than	IN
cord-260508-z11exbyu	99	17	between	between	IN
cord-260508-z11exbyu	99	18	SARS	SARS	NNP
cord-260508-z11exbyu	99	19	-	-	HYPH
cord-260508-z11exbyu	99	20	CoV-2	CoV-2	NNP
cord-260508-z11exbyu	99	21	and	and	CC
cord-260508-z11exbyu	99	22	RaTG13	RaTG13	NNP
cord-260508-z11exbyu	99	23	7	7	CD
cord-260508-z11exbyu	100	1	(	(	-LRB-
cord-260508-z11exbyu	100	2	Fig	Fig	NNP
cord-260508-z11exbyu	100	3	.	.	.
cord-260508-z11exbyu	100	4	4a,4c	4a,4c	CD
cord-260508-z11exbyu	100	5	)	)	-RRB-
cord-260508-z11exbyu	100	6	.	.	.
cord-260508-z11exbyu	101	1	The	the	DT
cord-260508-z11exbyu	101	2	pattern	pattern	NN
cord-260508-z11exbyu	101	3	is	be	VBZ
cord-260508-z11exbyu	101	4	quite	quite	RB
cord-260508-z11exbyu	101	5	different	different	JJ
cord-260508-z11exbyu	101	6	than	than	IN
cord-260508-z11exbyu	101	7	that	that	DT
cord-260508-z11exbyu	101	8	observed	observe	VBD
cord-260508-z11exbyu	101	9	in	in	IN
cord-260508-z11exbyu	101	10	the	the	DT
cord-260508-z11exbyu	101	11	rest	rest	NN
cord-260508-z11exbyu	101	12	of	of	IN
cord-260508-z11exbyu	101	13	the	the	DT
cord-260508-z11exbyu	101	14	genome	genome	NN
cord-260508-z11exbyu	101	15	,	,	,
cord-260508-z11exbyu	101	16	most	most	JJS
cord-260508-z11exbyu	101	17	8	8	CD
cord-260508-z11exbyu	101	18	easily	easily	RB
cord-260508-z11exbyu	101	19	seen	see	VBN
cord-260508-z11exbyu	101	20	by	by	IN
cord-260508-z11exbyu	101	21	considering	consider	VBG
cord-260508-z11exbyu	101	22	the	the	DT
cord-260508-z11exbyu	101	23	ratio	ratio	NN
cord-260508-z11exbyu	101	24	of	of	IN
cord-260508-z11exbyu	101	25	d	d	NNP
cord-260508-z11exbyu	101	26	S	S	NNP
cord-260508-z11exbyu	101	27	(	(	-LRB-
cord-260508-z11exbyu	101	28	SARS	SARS	NNP
cord-260508-z11exbyu	101	29	-	-	HYPH
cord-260508-z11exbyu	101	30	CoV-2	CoV-2	NNP
cord-260508-z11exbyu	101	31	,	,	,
cord-260508-z11exbyu	101	32	GD410721	GD410721	NNP
cord-260508-z11exbyu	101	33	)	)	-RRB-
cord-260508-z11exbyu	101	34	to	to	IN
cord-260508-z11exbyu	101	35	d	d	NNP
cord-260508-z11exbyu	101	36	S	S	NNP
cord-260508-z11exbyu	101	37	(	(	-LRB-
cord-260508-z11exbyu	101	38	SARS	SARS	NNP
cord-260508-z11exbyu	101	39	-	-	HYPH
cord-260508-z11exbyu	101	40	CoV-2	CoV-2	NNP
cord-260508-z11exbyu	101	41	,	,	,
cord-260508-z11exbyu	101	42	9	9	CD
cord-260508-z11exbyu	101	43	RaTG13	ratg13	NN
cord-260508-z11exbyu	101	44	)	)	-RRB-
cord-260508-z11exbyu	102	1	(	(	-LRB-
cord-260508-z11exbyu	102	2	Fig	Fig	NNP
cord-260508-z11exbyu	102	3	.	.	.
cord-260508-z11exbyu	102	4	2b	2b	NNP
cord-260508-z11exbyu	102	5	,	,	,
cord-260508-z11exbyu	102	6	2d	2d	NNP
cord-260508-z11exbyu	102	7	)	)	-RRB-
cord-260508-z11exbyu	102	8	.	.	.
cord-260508-z11exbyu	103	1	In	in	IN
cord-260508-z11exbyu	103	2	fact	fact	NN
cord-260508-z11exbyu	103	3	,	,	,
cord-260508-z11exbyu	103	4	the	the	DT
cord-260508-z11exbyu	103	5	estimates	estimate	NNS
cord-260508-z11exbyu	103	6	of	of	IN
cord-260508-z11exbyu	103	7	d	d	NNP
cord-260508-z11exbyu	103	8	S	S	NNP
cord-260508-z11exbyu	103	9	(	(	-LRB-
cord-260508-z11exbyu	103	10	SARS	SARS	NNP
cord-260508-z11exbyu	103	11	-	-	HYPH
cord-260508-z11exbyu	103	12	CoV-2	CoV-2	NNP
cord-260508-z11exbyu	103	13	,	,	,
cord-260508-z11exbyu	103	14	RaTG13	RaTG13	NNP
cord-260508-z11exbyu	103	15	)	)	-RRB-
cord-260508-z11exbyu	103	16	are	be	VBP
cord-260508-z11exbyu	103	17	saturated	saturate	VBN
cord-260508-z11exbyu	103	18	in	in	IN
cord-260508-z11exbyu	103	19	this	this	DT
cord-260508-z11exbyu	103	20	10	10	CD
cord-260508-z11exbyu	103	21	region	region	NN
cord-260508-z11exbyu	103	22	,	,	,
cord-260508-z11exbyu	103	23	even	even	RB
cord-260508-z11exbyu	103	24	though	though	IN
cord-260508-z11exbyu	103	25	they	-PRON-	PRP
cord-260508-z11exbyu	103	26	are	be	VBP
cord-260508-z11exbyu	103	27	substantially	substantially	RB
cord-260508-z11exbyu	103	28	lower	low	JJR
cord-260508-z11exbyu	103	29	than	than	IN
cord-260508-z11exbyu	103	30	1	1	CD
cord-260508-z11exbyu	103	31	in	in	IN
cord-260508-z11exbyu	103	32	the	the	DT
cord-260508-z11exbyu	103	33	rest	rest	NN
cord-260508-z11exbyu	103	34	of	of	IN
cord-260508-z11exbyu	103	35	the	the	DT
cord-260508-z11exbyu	103	36	genome	genome	NN
cord-260508-z11exbyu	103	37	.	.	.
cord-260508-z11exbyu	104	1	This	this	DT
cord-260508-z11exbyu	104	2	strongly	strongly	RB
cord-260508-z11exbyu	104	3	11	11	CD
cord-260508-z11exbyu	104	4	suggests	suggest	VBZ
cord-260508-z11exbyu	104	5	a	a	DT
cord-260508-z11exbyu	104	6	recombination	recombination	NN
cord-260508-z11exbyu	104	7	event	event	NN
cord-260508-z11exbyu	104	8	in	in	IN
cord-260508-z11exbyu	104	9	the	the	DT
cord-260508-z11exbyu	104	10	region	region	NN
cord-260508-z11exbyu	104	11	and	and	CC
cord-260508-z11exbyu	104	12	provides	provide	VBZ
cord-260508-z11exbyu	104	13	independent	independent	JJ
cord-260508-z11exbyu	104	14	evidence	evidence	NN
cord-260508-z11exbyu	104	15	of	of	IN
cord-260508-z11exbyu	104	16	that	that	DT
cord-260508-z11exbyu	104	17	12	12	CD
cord-260508-z11exbyu	104	18	previously	previously	RB
cord-260508-z11exbyu	104	19	reported	report	VBN
cord-260508-z11exbyu	104	20	based	base	VBN
cord-260508-z11exbyu	104	21	on	on	IN
cord-260508-z11exbyu	104	22	amino	amino	NN
cord-260508-z11exbyu	104	23	acid	acid	NN
cord-260508-z11exbyu	104	24	divergence	divergence	NN
cord-260508-z11exbyu	104	25	(	(	-LRB-
cord-260508-z11exbyu	104	26	e.g	e.g	NNP
cord-260508-z11exbyu	104	27	.	.	NNP
cord-260508-z11exbyu	104	28	,(Zhang	,(Zhang	NNP
cord-260508-z11exbyu	104	29	,	,	,
cord-260508-z11exbyu	105	1	et	et	NNP
cord-260508-z11exbyu	105	2	al	al	NNP
cord-260508-z11exbyu	105	3	.	.	NNP
cord-260508-z11exbyu	105	4	2020	2020	CD
cord-260508-z11exbyu	105	5	)	)	-RRB-
cord-260508-z11exbyu	105	6	)	)	-RRB-
cord-260508-z11exbyu	105	7	.	.	.
cord-260508-z11exbyu	106	1	13	13	CD
cord-260508-z11exbyu	107	1	The	the	DT
cord-260508-z11exbyu	107	2	combined	combined	JJ
cord-260508-z11exbyu	107	3	evidences	evidence	NNS
cord-260508-z11exbyu	107	4	from	from	IN
cord-260508-z11exbyu	107	5	synonymous	synonymous	JJ
cord-260508-z11exbyu	107	6	divergence	divergence	NN
cord-260508-z11exbyu	107	7	and	and	CC
cord-260508-z11exbyu	107	8	the	the	DT
cord-260508-z11exbyu	107	9	topological	topological	JJ
cord-260508-z11exbyu	107	10	14	14	CD
cord-260508-z11exbyu	107	11	recombination	recombination	NN
cord-260508-z11exbyu	107	12	inference	inference	NN
cord-260508-z11exbyu	107	13	,	,	,
cord-260508-z11exbyu	107	14	provide	provide	VB
cord-260508-z11exbyu	107	15	strong	strong	JJ
cord-260508-z11exbyu	107	16	support	support	NN
cord-260508-z11exbyu	107	17	for	for	IN
cord-260508-z11exbyu	107	18	the	the	DT
cord-260508-z11exbyu	107	19	recombination	recombination	NN
cord-260508-z11exbyu	107	20	hypothesis	hypothesis	NN
cord-260508-z11exbyu	107	21	.	.	.
cord-260508-z11exbyu	108	1	However	however	RB
cord-260508-z11exbyu	108	2	,	,	,
cord-260508-z11exbyu	108	3	15	15	CD
cord-260508-z11exbyu	108	4	these	these	DT
cord-260508-z11exbyu	108	5	analyses	analysis	NNS
cord-260508-z11exbyu	108	6	alone	alone	RB
cord-260508-z11exbyu	108	7	do	do	VBP
cord-260508-z11exbyu	108	8	not	not	RB
cord-260508-z11exbyu	108	9	distinguish	distinguish	VB
cord-260508-z11exbyu	108	10	between	between	IN
cord-260508-z11exbyu	108	11	recombination	recombination	NN
cord-260508-z11exbyu	108	12	into	into	IN
cord-260508-z11exbyu	108	13	RaTG13	ratg13	NN
cord-260508-z11exbyu	108	14	from	from	IN
cord-260508-z11exbyu	108	15	an	an	DT
cord-260508-z11exbyu	108	16	unknown	unknown	JJ
cord-260508-z11exbyu	108	17	16	16	CD
cord-260508-z11exbyu	108	18	source	source	NN
cord-260508-z11exbyu	108	19	as	as	IN
cord-260508-z11exbyu	108	20	previously	previously	RB
cord-260508-z11exbyu	108	21	hypothesized	hypothesize	VBN
cord-260508-z11exbyu	108	22	(	(	-LRB-
cord-260508-z11exbyu	108	23	Boni	Boni	NNP
cord-260508-z11exbyu	108	24	,	,	,
cord-260508-z11exbyu	108	25	et	et	FW
cord-260508-z11exbyu	108	26	al	al	NNP
cord-260508-z11exbyu	108	27	.	.	NNP
cord-260508-z11exbyu	108	28	2020	2020	CD
cord-260508-z11exbyu	108	29	)	)	-RRB-
cord-260508-z11exbyu	108	30	and	and	CC
cord-260508-z11exbyu	108	31	recombination	recombination	NN
cord-260508-z11exbyu	108	32	between	between	IN
cord-260508-z11exbyu	108	33	SARS	SARS	NNP
cord-260508-z11exbyu	108	34	-	-	HYPH
cord-260508-z11exbyu	108	35	CoV-2	CoV-2	NNP
cord-260508-z11exbyu	108	36	17	17	CD
cord-260508-z11exbyu	108	37	and	and	CC
cord-260508-z11exbyu	108	38	GD410721	GD410721	NNP
cord-260508-z11exbyu	108	39	as	as	IN
cord-260508-z11exbyu	108	40	proposed	propose	VBN
cord-260508-z11exbyu	108	41	as	as	IN
cord-260508-z11exbyu	108	42	one	one	CD
cord-260508-z11exbyu	108	43	possible	possible	JJ
cord-260508-z11exbyu	108	44	explanation	explanation	NN
cord-260508-z11exbyu	108	45	by	by	IN
cord-260508-z11exbyu	108	46	Lam	Lam	NNP
cord-260508-z11exbyu	108	47	et	et	NNP
cord-260508-z11exbyu	108	48	al	al	NNP
cord-260508-z11exbyu	108	49	.	.	.
cord-260508-z11exbyu	108	50	.	.	.
cord-260508-z11exbyu	109	1	To	to	IN
cord-260508-z11exbyu	109	2	18	18	CD
cord-260508-z11exbyu	109	3	distinguish	distinguish	NN
cord-260508-z11exbyu	109	4	between	between	IN
cord-260508-z11exbyu	109	5	these	these	DT
cord-260508-z11exbyu	109	6	hypotheses	hypothesis	NNS
cord-260508-z11exbyu	109	7	we	-PRON-	PRP
cord-260508-z11exbyu	109	8	searched	search	VBD
cord-260508-z11exbyu	109	9	for	for	IN
cord-260508-z11exbyu	109	10	sequences	sequence	NNS
cord-260508-z11exbyu	109	11	that	that	WDT
cord-260508-z11exbyu	109	12	might	may	MD
cord-260508-z11exbyu	109	13	be	be	VB
cord-260508-z11exbyu	109	14	more	more	RBR
cord-260508-z11exbyu	109	15	closely	closely	RB
cord-260508-z11exbyu	109	16	19	19	CD
cord-260508-z11exbyu	109	17	related	relate	VBN
cord-260508-z11exbyu	109	18	,	,	,
cord-260508-z11exbyu	109	19	in	in	IN
cord-260508-z11exbyu	109	20	the	the	DT
cord-260508-z11exbyu	109	21	RBD	RBD	NNP
cord-260508-z11exbyu	109	22	region	region	NN
cord-260508-z11exbyu	109	23	,	,	,
cord-260508-z11exbyu	109	24	to	to	IN
cord-260508-z11exbyu	109	25	RaTG13	ratg13	ADD
cord-260508-z11exbyu	109	26	than	than	IN
cord-260508-z11exbyu	109	27	SARS	SARS	NNP
cord-260508-z11exbyu	109	28	-	-	HYPH
cord-260508-z11exbyu	109	29	CoV-2	CoV-2	NNP
cord-260508-z11exbyu	110	1	and	and	CC
cord-260508-z11exbyu	110	2	we	-PRON-	PRP
cord-260508-z11exbyu	110	3	plotted	plot	VBD
cord-260508-z11exbyu	110	4	sliding	slide	VBG
cord-260508-z11exbyu	110	5	window	window	NN
cord-260508-z11exbyu	110	6	20	20	CD
cord-260508-z11exbyu	110	7	similarities	similarity	NNS
cord-260508-z11exbyu	110	8	across	across	IN
cord-260508-z11exbyu	110	9	the	the	DT
cord-260508-z11exbyu	110	10	genome	genome	NN
cord-260508-z11exbyu	110	11	for	for	IN
cord-260508-z11exbyu	110	12	RaTG13	RaTG13	NNP
cord-260508-z11exbyu	111	1	(	(	-LRB-
cord-260508-z11exbyu	111	2	Fig	Fig	NNP
cord-260508-z11exbyu	111	3	.	.	.
cord-260508-z11exbyu	111	4	1c	1c	CD
cord-260508-z11exbyu	111	5	)	)	-RRB-
cord-260508-z11exbyu	111	6	.	.	.
cord-260508-z11exbyu	112	1	We	-PRON-	PRP
cord-260508-z11exbyu	112	2	observe	observe	VBP
cord-260508-z11exbyu	112	3	relatively	relatively	RB
cord-260508-z11exbyu	112	4	low	low	JJ
cord-260508-z11exbyu	112	5	sequence	sequence	NN
cord-260508-z11exbyu	112	6	21	21	CD
cord-260508-z11exbyu	112	7	identity	identity	NN
cord-260508-z11exbyu	112	8	between	between	IN
cord-260508-z11exbyu	112	9	RaTG13	ratg13	NN
cord-260508-z11exbyu	112	10	and	and	CC
cord-260508-z11exbyu	112	11	all	all	DT
cord-260508-z11exbyu	112	12	three	three	CD
cord-260508-z11exbyu	112	13	other	other	JJ
cord-260508-z11exbyu	112	14	strains	strain	NNS
cord-260508-z11exbyu	112	15	in	in	IN
cord-260508-z11exbyu	112	16	the	the	DT
cord-260508-z11exbyu	112	17	ACE2	ACE2	NNP
cord-260508-z11exbyu	112	18	contact	contact	NN
cord-260508-z11exbyu	112	19	residue	residue	NN
cord-260508-z11exbyu	112	20	region	region	NN
cord-260508-z11exbyu	112	21	of	of	IN
cord-260508-z11exbyu	112	22	the	the	DT
cord-260508-z11exbyu	112	23	22	22	CD
cord-260508-z11exbyu	112	24	spike	spike	NN
cord-260508-z11exbyu	112	25	protein	protein	NN
cord-260508-z11exbyu	112	26	,	,	,
cord-260508-z11exbyu	112	27	which	which	WDT
cord-260508-z11exbyu	112	28	is	be	VBZ
cord-260508-z11exbyu	112	29	more	more	RBR
cord-260508-z11exbyu	112	30	consistent	consistent	JJ
cord-260508-z11exbyu	112	31	with	with	IN
cord-260508-z11exbyu	112	32	the	the	DT
cord-260508-z11exbyu	112	33	hypothesis	hypothesis	NN
cord-260508-z11exbyu	112	34	of	of	IN
cord-260508-z11exbyu	112	35	recombination	recombination	NN
cord-260508-z11exbyu	112	36	into	into	IN
cord-260508-z11exbyu	112	37	RaTG13	RaTG13	NNP
cord-260508-z11exbyu	112	38	,	,	,
cord-260508-z11exbyu	112	39	as	as	IN
cord-260508-z11exbyu	112	40	23	23	CD
cord-260508-z11exbyu	112	41	proposed	propose	VBN
cord-260508-z11exbyu	112	42	in	in	IN
cord-260508-z11exbyu	112	43	(	(	-LRB-
cord-260508-z11exbyu	112	44	Boni	Boni	NNP
cord-260508-z11exbyu	112	45	,	,	,
cord-260508-z11exbyu	112	46	et	et	FW
cord-260508-z11exbyu	112	47	al	al	NNP
cord-260508-z11exbyu	112	48	.	.	NNP
cord-260508-z11exbyu	112	49	2020	2020	CD
cord-260508-z11exbyu	112	50	)	)	-RRB-
cord-260508-z11exbyu	112	51	.	.	.
cord-260508-z11exbyu	113	1	Moreover	moreover	RB
cord-260508-z11exbyu	113	2	,	,	,
cord-260508-z11exbyu	113	3	our	-PRON-	PRP$
cord-260508-z11exbyu	113	4	BLAST	blast	NN
cord-260508-z11exbyu	113	5	search	search	NN
cord-260508-z11exbyu	113	6	analyses	analysis	NNS
cord-260508-z11exbyu	113	7	of	of	IN
cord-260508-z11exbyu	113	8	RaTG13	ratg13	NN
cord-260508-z11exbyu	113	9	in	in	IN
cord-260508-z11exbyu	113	10	this	this	DT
cord-260508-z11exbyu	113	11	region	region	NN
cord-260508-z11exbyu	113	12	24	24	CD
cord-260508-z11exbyu	113	13	show	show	VBP
cord-260508-z11exbyu	113	14	highest	high	JJS
cord-260508-z11exbyu	113	15	local	local	JJ
cord-260508-z11exbyu	113	16	sequence	sequence	NN
cord-260508-z11exbyu	113	17	similarity	similarity	NN
cord-260508-z11exbyu	113	18	with	with	IN
cord-260508-z11exbyu	113	19	GX	GX	NNP
cord-260508-z11exbyu	113	20	pangolin	pangolin	NNP
cord-260508-z11exbyu	113	21	virus	virus	NN
cord-260508-z11exbyu	113	22	strains	strain	NNS
cord-260508-z11exbyu	113	23	which	which	WDT
cord-260508-z11exbyu	113	24	is	be	VBZ
cord-260508-z11exbyu	113	25	the	the	DT
cord-260508-z11exbyu	113	26	genome	genome	NN
cord-260508-z11exbyu	113	27	-	-	HYPH
cord-260508-z11exbyu	113	28	wide	wide	RB
cord-260508-z11exbyu	113	29	with	with	IN
cord-260508-z11exbyu	113	30	the	the	DT
cord-260508-z11exbyu	113	31	hypothesis	hypothesis	NN
cord-260508-z11exbyu	113	32	of	of	IN
cord-260508-z11exbyu	113	33	recombination	recombination	NN
cord-260508-z11exbyu	113	34	from	from	IN
cord-260508-z11exbyu	113	35	a	a	DT
cord-260508-z11exbyu	113	36	virus	virus	NN
cord-260508-z11exbyu	113	37	related	relate	VBN
cord-260508-z11exbyu	113	38	to	to	IN
cord-260508-z11exbyu	113	39	GX	GX	NNP
cord-260508-z11exbyu	113	40	pangolin	pangolin	NN
cord-260508-z11exbyu	113	41	strains	strain	NNS
cord-260508-z11exbyu	113	42	,	,	,
cord-260508-z11exbyu	113	43	than	than	IN
cord-260508-z11exbyu	113	44	with	with	IN
cord-260508-z11exbyu	113	45	1	1	CD
cord-260508-z11exbyu	113	46	recombination	recombination	NN
cord-260508-z11exbyu	113	47	between	between	IN
cord-260508-z11exbyu	113	48	SARS	SARS	NNP
cord-260508-z11exbyu	113	49	-	-	HYPH
cord-260508-z11exbyu	113	50	CoV-2	CoV-2	NNP
cord-260508-z11exbyu	113	51	and	and	CC
cord-260508-z11exbyu	113	52	GD410721	GD410721	NNP
cord-260508-z11exbyu	113	53	.	.	.
cord-260508-z11exbyu	114	1	2	2	LS
cord-260508-z11exbyu	114	2	Unfortunately	unfortunately	RB
cord-260508-z11exbyu	114	3	,	,	,
cord-260508-z11exbyu	114	4	because	because	IN
cord-260508-z11exbyu	114	5	of	of	IN
cord-260508-z11exbyu	114	6	the	the	DT
cord-260508-z11exbyu	114	7	high	high	JJ
cord-260508-z11exbyu	114	8	level	level	NN
cord-260508-z11exbyu	114	9	of	of	IN
cord-260508-z11exbyu	114	10	synonymous	synonymous	JJ
cord-260508-z11exbyu	114	11	divergence	divergence	NN
cord-260508-z11exbyu	114	12	to	to	IN
cord-260508-z11exbyu	114	13	the	the	DT
cord-260508-z11exbyu	114	14	nearest	near	JJS
cord-260508-z11exbyu	114	15	3	3	CD
cord-260508-z11exbyu	114	16	outgroup	outgroup	NN
cord-260508-z11exbyu	114	17	,	,	,
cord-260508-z11exbyu	114	18	tree	tree	NN
cord-260508-z11exbyu	114	19	estimation	estimation	NN
cord-260508-z11exbyu	114	20	in	in	IN
cord-260508-z11exbyu	114	21	small	small	JJ
cord-260508-z11exbyu	114	22	windows	window	NNS
cord-260508-z11exbyu	114	23	is	be	VBZ
cord-260508-z11exbyu	114	24	extremely	extremely	RB
cord-260508-z11exbyu	114	25	labile	labile	JJ
cord-260508-z11exbyu	114	26	in	in	IN
cord-260508-z11exbyu	114	27	this	this	DT
cord-260508-z11exbyu	114	28	region	region	NN
cord-260508-z11exbyu	114	29	.	.	.
cord-260508-z11exbyu	115	1	In	in	IN
cord-260508-z11exbyu	115	2	fact	fact	NN
cord-260508-z11exbyu	115	3	,	,	,
cord-260508-z11exbyu	115	4	synonymous	synonymous	JJ
cord-260508-z11exbyu	115	5	4	4	CD
cord-260508-z11exbyu	115	6	divergence	divergence	NN
cord-260508-z11exbyu	115	7	appears	appear	VBZ
cord-260508-z11exbyu	115	8	fully	fully	RB
cord-260508-z11exbyu	115	9	saturated	saturate	VBN
cord-260508-z11exbyu	115	10	in	in	IN
cord-260508-z11exbyu	115	11	the	the	DT
cord-260508-z11exbyu	115	12	comparison	comparison	NN
cord-260508-z11exbyu	115	13	with	with	IN
cord-260508-z11exbyu	115	14	GX_P1E	GX_P1E	NNP
cord-260508-z11exbyu	115	15	,	,	,
cord-260508-z11exbyu	115	16	eliminating	eliminate	VBG
cord-260508-z11exbyu	115	17	the	the	DT
cord-260508-z11exbyu	115	18	possibility	possibility	NN
cord-260508-z11exbyu	115	19	to	to	IN
cord-260508-z11exbyu	115	20	5	5	CD
cord-260508-z11exbyu	115	21	infer	infer	VB
cord-260508-z11exbyu	115	22	meaningful	meaningful	JJ
cord-260508-z11exbyu	115	23	trees	tree	NNS
cord-260508-z11exbyu	115	24	based	base	VBN
cord-260508-z11exbyu	115	25	on	on	IN
cord-260508-z11exbyu	115	26	synonymous	synonymous	JJ
cord-260508-z11exbyu	115	27	divergence	divergence	NN
cord-260508-z11exbyu	115	28	.	.	.
cord-260508-z11exbyu	116	1	However	however	RB
cord-260508-z11exbyu	116	2	,	,	,
cord-260508-z11exbyu	116	3	we	-PRON-	PRP
cord-260508-z11exbyu	116	4	can	can	MD
cord-260508-z11exbyu	116	5	use	use	VB
cord-260508-z11exbyu	116	6	the	the	DT
cord-260508-z11exbyu	116	7	overall	overall	JJ
cord-260508-z11exbyu	116	8	6	6	CD
cord-260508-z11exbyu	116	9	maximum	maximum	JJ
cord-260508-z11exbyu	116	10	likelihood	likelihood	NN
cord-260508-z11exbyu	116	11	tree	tree	NN
cord-260508-z11exbyu	116	12	using	use	VBG
cord-260508-z11exbyu	116	13	both	both	CC
cord-260508-z11exbyu	116	14	synonymous	synonymous	JJ
cord-260508-z11exbyu	116	15	and	and	CC
cord-260508-z11exbyu	116	16	nonsynonymous	nonsynonymous	JJ
cord-260508-z11exbyu	116	17	mutations	mutation	NNS
cord-260508-z11exbyu	116	18	(	(	-LRB-
cord-260508-z11exbyu	116	19	Fig	Fig	NNP
cord-260508-z11exbyu	116	20	.	.	.
cord-260508-z11exbyu	116	21	2d	2d	NNP
cord-260508-z11exbyu	116	22	)	)	-RRB-
cord-260508-z11exbyu	116	23	.	.	.
cord-260508-z11exbyu	117	1	The	the	DT
cord-260508-z11exbyu	117	2	7	7	CD
cord-260508-z11exbyu	117	3	ML	ml	NN
cord-260508-z11exbyu	117	4	tree	tree	NN
cord-260508-z11exbyu	117	5	using	use	VBG
cord-260508-z11exbyu	117	6	sequence	sequence	NN
cord-260508-z11exbyu	117	7	from	from	IN
cord-260508-z11exbyu	117	8	the	the	DT
cord-260508-z11exbyu	117	9	ACE2	ACE2	NNP
cord-260508-z11exbyu	117	10	contact	contact	NN
cord-260508-z11exbyu	117	11	residue	residue	NN
cord-260508-z11exbyu	117	12	region	region	NN
cord-260508-z11exbyu	117	13	supports	support	VBZ
cord-260508-z11exbyu	117	14	the	the	DT
cord-260508-z11exbyu	117	15	clustering	clustering	NN
cord-260508-z11exbyu	117	16	of	of	IN
cord-260508-z11exbyu	117	17	SARS-8	SARS-8	NNP
cord-260508-z11exbyu	117	18	CoV-2	CoV-2	NNP
cord-260508-z11exbyu	117	19	and	and	CC
cord-260508-z11exbyu	117	20	GD410721	GD410721	NNP
cord-260508-z11exbyu	117	21	,	,	,
cord-260508-z11exbyu	117	22	but	but	CC
cord-260508-z11exbyu	117	23	with	with	IN
cord-260508-z11exbyu	117	24	unusual	unusual	JJ
cord-260508-z11exbyu	117	25	long	long	JJ
cord-260508-z11exbyu	117	26	external	external	JJ
cord-260508-z11exbyu	117	27	branches	branch	NNS
cord-260508-z11exbyu	117	28	for	for	IN
cord-260508-z11exbyu	117	29	all	all	DT
cord-260508-z11exbyu	117	30	strains	strain	NNS
cord-260508-z11exbyu	117	31	except	except	IN
cord-260508-z11exbyu	117	32	SARS-9	SARS-9	NNP
cord-260508-z11exbyu	117	33	CoV-2	CoV-2	NNP
cord-260508-z11exbyu	117	34	,	,	,
cord-260508-z11exbyu	117	35	possibly	possibly	RB
cord-260508-z11exbyu	117	36	reflecting	reflect	VBG
cord-260508-z11exbyu	117	37	smaller	small	JJR
cord-260508-z11exbyu	117	38	recombination	recombination	NN
cord-260508-z11exbyu	117	39	regions	region	NNS
cord-260508-z11exbyu	117	40	within	within	IN
cord-260508-z11exbyu	117	41	the	the	DT
cord-260508-z11exbyu	117	42	ACE2	ACE2	NNP
cord-260508-z11exbyu	117	43	contact	contact	NN
cord-260508-z11exbyu	117	44	residue	residue	NN
cord-260508-z11exbyu	117	45	region	region	NN
cord-260508-z11exbyu	117	46	.	.	.
cord-260508-z11exbyu	118	1	10	10	CD
cord-260508-z11exbyu	118	2	11	11	CD
cord-260508-z11exbyu	119	1	The	the	DT
cord-260508-z11exbyu	119	2	use	use	NN
cord-260508-z11exbyu	119	3	of	of	IN
cord-260508-z11exbyu	119	4	synonymous	synonymous	JJ
cord-260508-z11exbyu	119	5	mutations	mutation	NNS
cord-260508-z11exbyu	119	6	provides	provide	VBZ
cord-260508-z11exbyu	119	7	an	an	DT
cord-260508-z11exbyu	119	8	opportunity	opportunity	NN
cord-260508-z11exbyu	119	9	to	to	TO
cord-260508-z11exbyu	119	10	calibrate	calibrate	VB
cord-260508-z11exbyu	119	11	the	the	DT
cord-260508-z11exbyu	119	12	molecular	molecular	JJ
cord-260508-z11exbyu	119	13	clock	clock	NN
cord-260508-z11exbyu	119	14	13	13	CD
cord-260508-z11exbyu	119	15	without	without	IN
cord-260508-z11exbyu	119	16	relying	rely	VBG
cord-260508-z11exbyu	119	17	on	on	IN
cord-260508-z11exbyu	119	18	amino	amino	NN
cord-260508-z11exbyu	119	19	acid	acid	NN
cord-260508-z11exbyu	119	20	changing	change	VBG
cord-260508-z11exbyu	119	21	mutations	mutation	NNS
cord-260508-z11exbyu	119	22	that	that	WDT
cord-260508-z11exbyu	119	23	are	be	VBP
cord-260508-z11exbyu	119	24	more	more	RBR
cord-260508-z11exbyu	119	25	likely	likely	JJ
cord-260508-z11exbyu	119	26	to	to	TO
cord-260508-z11exbyu	119	27	be	be	VB
cord-260508-z11exbyu	119	28	affected	affect	VBN
cord-260508-z11exbyu	119	29	by	by	IN
cord-260508-z11exbyu	119	30	selection	selection	NN
cord-260508-z11exbyu	119	31	.	.	.
cord-260508-z11exbyu	120	1	14	14	CD
cord-260508-z11exbyu	121	1	The	the	DT
cord-260508-z11exbyu	121	2	rate	rate	NN
cord-260508-z11exbyu	121	3	of	of	IN
cord-260508-z11exbyu	121	4	substitution	substitution	NN
cord-260508-z11exbyu	121	5	of	of	IN
cord-260508-z11exbyu	121	6	weakly	weakly	RB
cord-260508-z11exbyu	121	7	and	and	CC
cord-260508-z11exbyu	121	8	slightly	slightly	RB
cord-260508-z11exbyu	121	9	deleterious	deleterious	JJ
cord-260508-z11exbyu	121	10	mutations	mutation	NNS
cord-260508-z11exbyu	121	11	is	be	VBZ
cord-260508-z11exbyu	121	12	highly	highly	RB
cord-260508-z11exbyu	121	13	dependent	dependent	JJ
cord-260508-z11exbyu	121	14	on	on	IN
cord-260508-z11exbyu	121	15	15	15	CD
cord-260508-z11exbyu	121	16	ecological	ecological	JJ
cord-260508-z11exbyu	121	17	factors	factor	NNS
cord-260508-z11exbyu	121	18	and	and	CC
cord-260508-z11exbyu	121	19	the	the	DT
cord-260508-z11exbyu	121	20	effective	effective	JJ
cord-260508-z11exbyu	121	21	population	population	NN
cord-260508-z11exbyu	121	22	size	size	NN
cord-260508-z11exbyu	121	23	.	.	.
cord-260508-z11exbyu	122	1	Weakly	weakly	RB
cord-260508-z11exbyu	122	2	deleterious	deleterious	JJ
cord-260508-z11exbyu	122	3	mutations	mutation	NNS
cord-260508-z11exbyu	122	4	are	be	VBP
cord-260508-z11exbyu	122	5	more	more	JJR
cord-260508-z11exbyu	122	6	16	16	CD
cord-260508-z11exbyu	122	7	likely	likely	JJ
cord-260508-z11exbyu	122	8	to	to	TO
cord-260508-z11exbyu	122	9	be	be	VB
cord-260508-z11exbyu	122	10	observed	observe	VBN
cord-260508-z11exbyu	122	11	over	over	IN
cord-260508-z11exbyu	122	12	small	small	JJ
cord-260508-z11exbyu	122	13	time	time	NN
cord-260508-z11exbyu	122	14	scales	scale	NNS
cord-260508-z11exbyu	122	15	than	than	IN
cord-260508-z11exbyu	122	16	over	over	IN
cord-260508-z11exbyu	122	17	long	long	JJ
cord-260508-z11exbyu	122	18	time	time	NN
cord-260508-z11exbyu	122	19	scales	scale	NNS
cord-260508-z11exbyu	122	20	,	,	,
cord-260508-z11exbyu	122	21	as	as	IN
cord-260508-z11exbyu	122	22	they	-PRON-	PRP
cord-260508-z11exbyu	122	23	are	be	VBP
cord-260508-z11exbyu	122	24	unlikely	unlikely	JJ
cord-260508-z11exbyu	122	25	to	to	IN
cord-260508-z11exbyu	122	26	17	17	CD
cord-260508-z11exbyu	122	27	persist	persist	NN
cord-260508-z11exbyu	122	28	in	in	IN
cord-260508-z11exbyu	122	29	the	the	DT
cord-260508-z11exbyu	122	30	population	population	NN
cord-260508-z11exbyu	122	31	for	for	IN
cord-260508-z11exbyu	122	32	a	a	DT
cord-260508-z11exbyu	122	33	long	long	JJ
cord-260508-z11exbyu	122	34	time	time	NN
cord-260508-z11exbyu	122	35	and	and	CC
cord-260508-z11exbyu	122	36	go	go	VB
cord-260508-z11exbyu	122	37	to	to	IN
cord-260508-z11exbyu	122	38	fixation	fixation	NN
cord-260508-z11exbyu	122	39	.	.	.
cord-260508-z11exbyu	123	1	This	this	DT
cord-260508-z11exbyu	123	2	will	will	MD
cord-260508-z11exbyu	123	3	lead	lead	VB
cord-260508-z11exbyu	123	4	to	to	IN
cord-260508-z11exbyu	123	5	a	a	DT
cord-260508-z11exbyu	123	6	decreasing	decreasing	NN
cord-260508-z11exbyu	123	7	dN	dN	NNP
cord-260508-z11exbyu	123	8	/	/	SYM
cord-260508-z11exbyu	123	9	dS	dS	NNP
cord-260508-z11exbyu	123	10	18	18	CD
cord-260508-z11exbyu	123	11	ratio	ratio	NN
cord-260508-z11exbyu	123	12	for	for	IN
cord-260508-z11exbyu	123	13	longer	long	JJR
cord-260508-z11exbyu	123	14	evolutionary	evolutionary	JJ
cord-260508-z11exbyu	123	15	lineages	lineage	NNS
cord-260508-z11exbyu	123	16	.	.	.
cord-260508-z11exbyu	124	1	Furthermore	furthermore	RB
cord-260508-z11exbyu	124	2	,	,	,
cord-260508-z11exbyu	124	3	changes	change	NNS
cord-260508-z11exbyu	124	4	in	in	IN
cord-260508-z11exbyu	124	5	effective	effective	JJ
cord-260508-z11exbyu	124	6	population	population	NN
cord-260508-z11exbyu	124	7	size	size	NN
cord-260508-z11exbyu	124	8	will	will	MD
cord-260508-z11exbyu	124	9	19	19	CD
cord-260508-z11exbyu	124	10	translate	translate	VB
cord-260508-z11exbyu	124	11	into	into	IN
cord-260508-z11exbyu	124	12	changes	change	NNS
cord-260508-z11exbyu	124	13	in	in	IN
cord-260508-z11exbyu	124	14	the	the	DT
cord-260508-z11exbyu	124	15	rate	rate	NN
cord-260508-z11exbyu	124	16	of	of	IN
cord-260508-z11exbyu	124	17	substitution	substitution	NN
cord-260508-z11exbyu	124	18	of	of	IN
cord-260508-z11exbyu	124	19	slightly	slightly	RB
cord-260508-z11exbyu	124	20	deleterious	deleterious	JJ
cord-260508-z11exbyu	124	21	mutations	mutation	NNS
cord-260508-z11exbyu	124	22	.	.	.
cord-260508-z11exbyu	125	1	Finally	finally	RB
cord-260508-z11exbyu	125	2	,	,	,
cord-260508-z11exbyu	125	3	20	20	CD
cord-260508-z11exbyu	125	4	changes	change	NNS
cord-260508-z11exbyu	125	5	in	in	IN
cord-260508-z11exbyu	125	6	ecology	ecology	NN
cord-260508-z11exbyu	125	7	(	(	-LRB-
cord-260508-z11exbyu	125	8	such	such	JJ
cord-260508-z11exbyu	125	9	as	as	IN
cord-260508-z11exbyu	125	10	host	host	NN
cord-260508-z11exbyu	125	11	shifts	shift	NNS
cord-260508-z11exbyu	125	12	,	,	,
cord-260508-z11exbyu	125	13	host	host	NN
cord-260508-z11exbyu	125	14	immune	immune	JJ
cord-260508-z11exbyu	125	15	changes	change	NNS
cord-260508-z11exbyu	125	16	,	,	,
cord-260508-z11exbyu	125	17	changes	change	NNS
cord-260508-z11exbyu	125	18	in	in	IN
cord-260508-z11exbyu	125	19	cell	cell	NN
cord-260508-z11exbyu	125	20	surface	surface	NN
cord-260508-z11exbyu	125	21	receptor	receptor	NN
cord-260508-z11exbyu	125	22	,	,	,
cord-260508-z11exbyu	125	23	21	21	CD
cord-260508-z11exbyu	125	24	etc	etc	NN
cord-260508-z11exbyu	125	25	.	.	.
cord-260508-z11exbyu	125	26	)	)	-RRB-
cord-260508-z11exbyu	125	27	can	can	MD
cord-260508-z11exbyu	125	28	lead	lead	VB
cord-260508-z11exbyu	125	29	to	to	IN
cord-260508-z11exbyu	125	30	changes	change	NNS
cord-260508-z11exbyu	125	31	in	in	IN
cord-260508-z11exbyu	125	32	the	the	DT
cord-260508-z11exbyu	125	33	rate	rate	NN
cord-260508-z11exbyu	125	34	of	of	IN
cord-260508-z11exbyu	125	35	amino	amino	NN
cord-260508-z11exbyu	125	36	acid	acid	NN
cord-260508-z11exbyu	125	37	substitution	substitution	NN
cord-260508-z11exbyu	125	38	.	.	.
cord-260508-z11exbyu	126	1	For	for	IN
cord-260508-z11exbyu	126	2	all	all	DT
cord-260508-z11exbyu	126	3	of	of	IN
cord-260508-z11exbyu	126	4	these	these	DT
cord-260508-z11exbyu	126	5	reasons	reason	NNS
cord-260508-z11exbyu	126	6	,	,	,
cord-260508-z11exbyu	126	7	the	the	DT
cord-260508-z11exbyu	126	8	use	use	NN
cord-260508-z11exbyu	126	9	22	22	CD
cord-260508-z11exbyu	126	10	of	of	IN
cord-260508-z11exbyu	126	11	synonymous	synonymous	JJ
cord-260508-z11exbyu	126	12	mutations	mutation	NNS
cord-260508-z11exbyu	126	13	,	,	,
cord-260508-z11exbyu	126	14	which	which	WDT
cord-260508-z11exbyu	126	15	are	be	VBP
cord-260508-z11exbyu	126	16	less	less	RBR
cord-260508-z11exbyu	126	17	likely	likely	JJ
cord-260508-z11exbyu	126	18	to	to	TO
cord-260508-z11exbyu	126	19	be	be	VB
cord-260508-z11exbyu	126	20	the	the	DT
cord-260508-z11exbyu	126	21	subject	subject	NN
cord-260508-z11exbyu	126	22	of	of	IN
cord-260508-z11exbyu	126	23	selection	selection	NN
cord-260508-z11exbyu	126	24	than	than	IN
cord-260508-z11exbyu	126	25	23	23	CD
cord-260508-z11exbyu	126	26	nonsynonymous	nonsynonymous	JJ
cord-260508-z11exbyu	126	27	mutations	mutation	NNS
cord-260508-z11exbyu	126	28	,	,	,
cord-260508-z11exbyu	126	29	are	be	VBP
cord-260508-z11exbyu	126	30	preferred	prefer	VBN
cord-260508-z11exbyu	126	31	in	in	IN
cord-260508-z11exbyu	126	32	molecular	molecular	JJ
cord-260508-z11exbyu	126	33	clock	clock	NN
cord-260508-z11exbyu	126	34	calculations	calculation	NNS
cord-260508-z11exbyu	126	35	.	.	.
cord-260508-z11exbyu	127	1	For	for	IN
cord-260508-z11exbyu	127	2	many	many	JJ
cord-260508-z11exbyu	127	3	viruses	virus	NNS
cord-260508-z11exbyu	127	4	,	,	,
cord-260508-z11exbyu	127	5	the	the	DT
cord-260508-z11exbyu	127	6	24	24	CD
cord-260508-z11exbyu	127	7	use	use	NN
cord-260508-z11exbyu	127	8	of	of	IN
cord-260508-z11exbyu	127	9	synonymous	synonymous	JJ
cord-260508-z11exbyu	127	10	mutations	mutation	NNS
cord-260508-z11exbyu	127	11	to	to	TO
cord-260508-z11exbyu	127	12	calibrate	calibrate	VB
cord-260508-z11exbyu	127	13	divergence	divergence	NN
cord-260508-z11exbyu	127	14	times	time	NNS
cord-260508-z11exbyu	127	15	is	be	VBZ
cord-260508-z11exbyu	127	16	not	not	RB
cord-260508-z11exbyu	127	17	possible	possible	JJ
cord-260508-z11exbyu	127	18	,	,	,
cord-260508-z11exbyu	127	19	as	as	IN
cord-260508-z11exbyu	127	20	synonymous	synonymous	JJ
cord-260508-z11exbyu	127	21	25	25	CD
cord-260508-z11exbyu	127	22	sites	site	NNS
cord-260508-z11exbyu	127	23	are	be	VBP
cord-260508-z11exbyu	127	24	fully	fully	RB
cord-260508-z11exbyu	127	25	saturated	saturated	JJ
cord-260508-z11exbyu	127	26	even	even	RB
cord-260508-z11exbyu	127	27	at	at	IN
cord-260508-z11exbyu	127	28	short	short	JJ
cord-260508-z11exbyu	127	29	divergence	divergence	NN
cord-260508-z11exbyu	127	30	times	time	NNS
cord-260508-z11exbyu	127	31	.	.	.
cord-260508-z11exbyu	128	1	However	however	RB
cord-260508-z11exbyu	128	2	,	,	,
cord-260508-z11exbyu	128	3	for	for	IN
cord-260508-z11exbyu	128	4	the	the	DT
cord-260508-z11exbyu	128	5	comparisons	comparison	NNS
cord-260508-z11exbyu	128	6	between	between	IN
cord-260508-z11exbyu	128	7	SARS	SARS	NNP
cord-260508-z11exbyu	128	8	-	-	HYPH
cord-260508-z11exbyu	128	9	CoV-2	CoV-2	NNP
cord-260508-z11exbyu	128	10	and	and	CC
cord-260508-z11exbyu	128	11	RaTG13	RaTG13	NNP
cord-260508-z11exbyu	128	12	,	,	,
cord-260508-z11exbyu	128	13	and	and	CC
cord-260508-z11exbyu	128	14	SARS	SARS	NNP
cord-260508-z11exbyu	128	15	-	-	HYPH
cord-260508-z11exbyu	128	16	CoV-2	CoV-2	NNP
cord-260508-z11exbyu	128	17	and	and	CC
cord-260508-z11exbyu	128	18	RmYN02	rmyn02	UH
cord-260508-z11exbyu	128	19	,	,	,
cord-260508-z11exbyu	128	20	synonymous	synonymous	JJ
cord-260508-z11exbyu	128	21	sites	site	NNS
cord-260508-z11exbyu	128	22	are	be	VBP
cord-260508-z11exbyu	128	23	not	not	RB
cord-260508-z11exbyu	128	24	1	1	CD
cord-260508-z11exbyu	128	25	saturated	saturate	VBN
cord-260508-z11exbyu	128	26	and	and	CC
cord-260508-z11exbyu	128	27	can	can	MD
cord-260508-z11exbyu	128	28	be	be	VB
cord-260508-z11exbyu	128	29	used	use	VBN
cord-260508-z11exbyu	128	30	for	for	IN
cord-260508-z11exbyu	128	31	calibration	calibration	NN
cord-260508-z11exbyu	128	32	.	.	.
cord-260508-z11exbyu	129	1	We	-PRON-	PRP
cord-260508-z11exbyu	129	2	find	find	VBP
cord-260508-z11exbyu	129	3	an	an	DT
cord-260508-z11exbyu	129	4	estimate	estimate	NN
cord-260508-z11exbyu	129	5	of	of	IN
cord-260508-z11exbyu	129	6	ω	ω	NN
cord-260508-z11exbyu	129	7	=	=	SYM
cord-260508-z11exbyu	129	8	0.0391	0.0391	CD
cord-260508-z11exbyu	129	9	between	between	IN
cord-260508-z11exbyu	129	10	SARS-2	SARS-2	NNP
cord-260508-z11exbyu	129	11	CoV-2	CoV-2	NNP
cord-260508-z11exbyu	129	12	and	and	CC
cord-260508-z11exbyu	129	13	RaTG13	RaTG13	NNP
cord-260508-z11exbyu	129	14	,	,	,
cord-260508-z11exbyu	129	15	excluding	exclude	VBG
cord-260508-z11exbyu	129	16	just	just	RB
cord-260508-z11exbyu	129	17	the	the	DT
cord-260508-z11exbyu	129	18	small	small	JJ
cord-260508-z11exbyu	129	19	RDB	rdb	NN
cord-260508-z11exbyu	129	20	region	region	NN
cord-260508-z11exbyu	129	21	showing	show	VBG
cord-260508-z11exbyu	129	22	a	a	DT
cord-260508-z11exbyu	129	23	recombination	recombination	NN
cord-260508-z11exbyu	129	24	signal	signal	NN
cord-260508-z11exbyu	129	25	in	in	IN
cord-260508-z11exbyu	129	26	3	3	CD
cord-260508-z11exbyu	129	27	SARS	SARS	NNP
cord-260508-z11exbyu	129	28	-	-	HYPH
cord-260508-z11exbyu	129	29	CoV-2	CoV-2	NNP
cord-260508-z11exbyu	129	30	(	(	-LRB-
cord-260508-z11exbyu	129	31	Supplementary	Supplementary	NNP
cord-260508-z11exbyu	129	32	Table	Table	NNP
cord-260508-z11exbyu	129	33	5	5	CD
cord-260508-z11exbyu	129	34	providing	provide	VBG
cord-260508-z11exbyu	129	35	an	an	DT
cord-260508-z11exbyu	129	36	approximate	approximate	JJ
cord-260508-z11exbyu	129	37	95	95	CD
cord-260508-z11exbyu	129	38	%	%	NN
cord-260508-z11exbyu	129	39	confidence	confidence	NN
cord-260508-z11exbyu	129	40	interval	interval	NN
cord-260508-z11exbyu	129	41	of	of	IN
cord-260508-z11exbyu	129	42	(	(	-LRB-
cord-260508-z11exbyu	129	43	0.0332	0.0332	CD
cord-260508-z11exbyu	129	44	,	,	,
cord-260508-z11exbyu	129	45	0.0464	0.0464	CD
cord-260508-z11exbyu	129	46	)	)	-RRB-
cord-260508-z11exbyu	129	47	.	.	.
cord-260508-z11exbyu	130	1	Also	also	RB
cord-260508-z11exbyu	130	2	,	,	,
cord-260508-z11exbyu	130	3	using	use	VBG
cord-260508-z11exbyu	130	4	59	59	CD
cord-260508-z11exbyu	130	5	human	human	JJ
cord-260508-z11exbyu	130	6	7	7	CD
cord-260508-z11exbyu	130	7	strains	strain	NNS
cord-260508-z11exbyu	130	8	of	of	IN
cord-260508-z11exbyu	130	9	SARS	SARS	NNP
cord-260508-z11exbyu	130	10	-	-	HYPH
cord-260508-z11exbyu	130	11	CoV-2	CoV-2	NNP
cord-260508-z11exbyu	130	12	from	from	IN
cord-260508-z11exbyu	130	13	Genbank	Genbank	NNP
cord-260508-z11exbyu	130	14	and	and	CC
cord-260508-z11exbyu	130	15	National	National	NNP
cord-260508-z11exbyu	130	16	Microbiology	Microbiology	NNP
cord-260508-z11exbyu	130	17	Data	Data	NNP
cord-260508-z11exbyu	130	18	Center	Center	NNP
cord-260508-z11exbyu	131	1	(	(	-LRB-
cord-260508-z11exbyu	131	2	See	see	VB
cord-260508-z11exbyu	131	3	Methods	method	NNS
cord-260508-z11exbyu	131	4	)	)	-RRB-
cord-260508-z11exbyu	132	1	8	8	CD
cord-260508-z11exbyu	132	2	we	-PRON-	PRP
cord-260508-z11exbyu	132	3	obtain	obtain	VBP
cord-260508-z11exbyu	132	4	an	an	DT
cord-260508-z11exbyu	132	5	estimate	estimate	NN
cord-260508-z11exbyu	132	6	of	of	IN
cord-260508-z11exbyu	132	7	ω	ω	CD
cord-260508-z11exbyu	132	8	=	=	SYM
cord-260508-z11exbyu	132	9	0.5604	0.5604	CD
cord-260508-z11exbyu	132	10	using	use	VBG
cord-260508-z11exbyu	132	11	the	the	DT
cord-260508-z11exbyu	132	12	F3x4	F3x4	NNP
cord-260508-z11exbyu	132	13	model	model	NN
cord-260508-z11exbyu	132	14	in	in	IN
cord-260508-z11exbyu	132	15	codeml	codeml	NN
cord-260508-z11exbyu	132	16	.	.	.
cord-260508-z11exbyu	133	1	Notice	notice	VB
cord-260508-z11exbyu	133	2	that	that	IN
cord-260508-z11exbyu	133	3	there	there	EX
cord-260508-z11exbyu	133	4	is	be	VBZ
cord-260508-z11exbyu	133	5	a	a	DT
cord-260508-z11exbyu	133	6	14	14	CD
cord-260508-z11exbyu	133	7	-	-	SYM
cord-260508-z11exbyu	133	8	9	9	CD
cord-260508-z11exbyu	133	9	fold	fold	NN
cord-260508-z11exbyu	133	10	difference	difference	NN
cord-260508-z11exbyu	133	11	in	in	IN
cord-260508-z11exbyu	133	12	d	d	NNP
cord-260508-z11exbyu	133	13	N	N	NNP
cord-260508-z11exbyu	133	14	/d	/d	NNP
cord-260508-z11exbyu	133	15	S	S	NNP
cord-260508-z11exbyu	133	16	ratio	ratio	NN
cord-260508-z11exbyu	133	17	between	between	IN
cord-260508-z11exbyu	133	18	these	these	DT
cord-260508-z11exbyu	133	19	estimates	estimate	NNS
cord-260508-z11exbyu	133	20	.	.	.
cord-260508-z11exbyu	134	1	Assuming	assume	VBG
cord-260508-z11exbyu	134	2	very	very	RB
cord-260508-z11exbyu	134	3	little	little	JJ
cord-260508-z11exbyu	134	4	of	of	IN
cord-260508-z11exbyu	134	5	this	this	DT
cord-260508-z11exbyu	134	6	difference	difference	NN
cord-260508-z11exbyu	134	7	is	be	VBZ
cord-260508-z11exbyu	134	8	10	10	CD
cord-260508-z11exbyu	134	9	caused	cause	VBN
cord-260508-z11exbyu	134	10	by	by	IN
cord-260508-z11exbyu	134	11	positive	positive	JJ
cord-260508-z11exbyu	134	12	selection	selection	NN
cord-260508-z11exbyu	134	13	,	,	,
cord-260508-z11exbyu	134	14	this	this	DT
cord-260508-z11exbyu	134	15	suggests	suggest	VBZ
cord-260508-z11exbyu	134	16	that	that	IN
cord-260508-z11exbyu	134	17	the	the	DT
cord-260508-z11exbyu	134	18	vast	vast	JJ
cord-260508-z11exbyu	134	19	majority	majority	NN
cord-260508-z11exbyu	134	20	of	of	IN
cord-260508-z11exbyu	134	21	mutations	mutation	NNS
cord-260508-z11exbyu	134	22	currently	currently	RB
cord-260508-z11exbyu	134	23	11	11	CD
cord-260508-z11exbyu	134	24	segregating	segregate	VBG
cord-260508-z11exbyu	134	25	in	in	IN
cord-260508-z11exbyu	134	26	the	the	DT
cord-260508-z11exbyu	134	27	SARS	SARS	NNP
cord-260508-z11exbyu	134	28	-	-	HYPH
cord-260508-z11exbyu	134	29	CoV-2	CoV-2	NNP
cord-260508-z11exbyu	134	30	are	be	VBP
cord-260508-z11exbyu	134	31	slightly	slightly	RB
cord-260508-z11exbyu	134	32	or	or	CC
cord-260508-z11exbyu	134	33	weakly	weakly	RB
cord-260508-z11exbyu	134	34	deleterious	deleterious	JJ
cord-260508-z11exbyu	134	35	for	for	IN
cord-260508-z11exbyu	134	36	the	the	DT
cord-260508-z11exbyu	134	37	virus	virus	NN
cord-260508-z11exbyu	134	38	.	.	.
cord-260508-z11exbyu	135	1	12	12	CD
cord-260508-z11exbyu	135	2	13	13	CD
cord-260508-z11exbyu	135	3	To	to	TO
cord-260508-z11exbyu	135	4	calibrate	calibrate	VB
cord-260508-z11exbyu	135	5	the	the	DT
cord-260508-z11exbyu	135	6	clock	clock	NN
cord-260508-z11exbyu	135	7	we	-PRON-	PRP
cord-260508-z11exbyu	135	8	use	use	VBP
cord-260508-z11exbyu	135	9	the	the	DT
cord-260508-z11exbyu	135	10	estimate	estimate	NN
cord-260508-z11exbyu	135	11	provided	provide	VBN
cord-260508-z11exbyu	135	12	by	by	IN
cord-260508-z11exbyu	135	13	(	(	-LRB-
cord-260508-z11exbyu	135	14	http://virological.org/t/phylodynamic-15	http://virological.org/t/phylodynamic-15	NNP
cord-260508-z11exbyu	135	15	analysis	analysis	NN
cord-260508-z11exbyu	135	16	-	-	HYPH
cord-260508-z11exbyu	135	17	of	of	IN
cord-260508-z11exbyu	135	18	-	-	HYPH
cord-260508-z11exbyu	135	19	sars	sars	NN
cord-260508-z11exbyu	136	1	-cov-2-update-2020	-cov-2-update-2020	NFP
cord-260508-z11exbyu	137	1	-03	-03	NN
cord-260508-z11exbyu	137	2	-	-	HYPH
cord-260508-z11exbyu	137	3	06/420	06/420	CD
cord-260508-z11exbyu	137	4	)	)	-RRB-
cord-260508-z11exbyu	137	5	of	of	IN
cord-260508-z11exbyu	137	6	=	=	NFP
cord-260508-z11exbyu	138	1	1.04×10	1.04×10	CD
cord-260508-z11exbyu	138	2	-3	-3	CD
cord-260508-z11exbyu	139	1	substitutions	substitution	NNS
cord-260508-z11exbyu	139	2	/	/	SYM
cord-260508-z11exbyu	139	3	site	site	NN
cord-260508-z11exbyu	139	4	/	/	SYM
cord-260508-z11exbyu	139	5	year	year	NN
cord-260508-z11exbyu	140	1	(	(	-LRB-
cord-260508-z11exbyu	140	2	95	95	CD
cord-260508-z11exbyu	140	3	%	%	NN
cord-260508-z11exbyu	140	4	CI	ci	NN
cord-260508-z11exbyu	140	5	:	:	:
cord-260508-z11exbyu	141	1	16	16	CD
cord-260508-z11exbyu	141	2	0.71x10	0.71x10	CD
cord-260508-z11exbyu	141	3	-	-	SYM
cord-260508-z11exbyu	141	4	3	3	CD
cord-260508-z11exbyu	141	5	,	,	,
cord-260508-z11exbyu	141	6	1.40x10	1.40x10	CD
cord-260508-z11exbyu	141	7	-	-	SYM
cord-260508-z11exbyu	141	8	3	3	CD
cord-260508-z11exbyu	141	9	)	)	-RRB-
cord-260508-z11exbyu	141	10	.	.	.
cord-260508-z11exbyu	142	1	The	the	DT
cord-260508-z11exbyu	142	2	synonymous	synonymous	JJ
cord-260508-z11exbyu	142	3	specific	specific	JJ
cord-260508-z11exbyu	142	4	mutation	mutation	NN
cord-260508-z11exbyu	142	5	rate	rate	NN
cord-260508-z11exbyu	142	6	can	can	MD
cord-260508-z11exbyu	142	7	be	be	VB
cord-260508-z11exbyu	142	8	found	find	VBN
cord-260508-z11exbyu	142	9	from	from	IN
cord-260508-z11exbyu	142	10	this	this	DT
cord-260508-z11exbyu	142	11	as	as	IN
cord-260508-z11exbyu	142	12	17	17	CD
cord-260508-z11exbyu	142	13	d	d	NN
cord-260508-z11exbyu	142	14	S	s	NN
cord-260508-z11exbyu	142	15	/year	/year	.
cord-260508-z11exbyu	143	1	=	=	NFP
cord-260508-z11exbyu	144	1	S	s	NN
cord-260508-z11exbyu	144	2	=	=	NFP
cord-260508-z11exbyu	145	1	/(pS	/(pS	NFP
cord-260508-z11exbyu	145	2	+	+	CC
cord-260508-z11exbyu	145	3	ωpN	ωpN	NNP
cord-260508-z11exbyu	145	4	)	)	-RRB-
cord-260508-z11exbyu	145	5	,	,	,
cord-260508-z11exbyu	145	6	where	where	WRB
cord-260508-z11exbyu	145	7	ω	ω	NN
cord-260508-z11exbyu	145	8	is	be	VBZ
cord-260508-z11exbyu	145	9	the	the	DT
cord-260508-z11exbyu	145	10	d	d	NNP
cord-260508-z11exbyu	145	11	N	N	NNP
cord-260508-z11exbyu	145	12	/d	/d	NNP
cord-260508-z11exbyu	145	13	S	S	NNP
cord-260508-z11exbyu	145	14	ratio	ratio	NN
cord-260508-z11exbyu	145	15	,	,	,
cord-260508-z11exbyu	145	16	and	and	CC
cord-260508-z11exbyu	145	17	pN	pn	NN
cord-260508-z11exbyu	146	1	and	and	CC
cord-260508-z11exbyu	146	2	pS	pS	NNP
cord-260508-z11exbyu	146	3	are	be	VBP
cord-260508-z11exbyu	146	4	the	the	DT
cord-260508-z11exbyu	146	5	proportions	proportion	NNS
cord-260508-z11exbyu	146	6	of	of	IN
cord-260508-z11exbyu	146	7	18	18	CD
cord-260508-z11exbyu	146	8	nonsynonymous	nonsynonymous	JJ
cord-260508-z11exbyu	146	9	and	and	CC
cord-260508-z11exbyu	146	10	synonymous	synonymous	JJ
cord-260508-z11exbyu	146	11	sites	site	NNS
cord-260508-z11exbyu	146	12	,	,	,
cord-260508-z11exbyu	146	13	respectively	respectively	RB
cord-260508-z11exbyu	146	14	.	.	.
cord-260508-z11exbyu	147	1	The	the	DT
cord-260508-z11exbyu	147	2	estimate	estimate	NN
cord-260508-z11exbyu	147	3	of	of	IN
cord-260508-z11exbyu	147	4	the	the	DT
cord-260508-z11exbyu	147	5	total	total	JJ
cord-260508-z11exbyu	147	6	divergence	divergence	NN
cord-260508-z11exbyu	147	7	on	on	IN
cord-260508-z11exbyu	147	8	19	19	CD
cord-260508-z11exbyu	147	9	the	the	DT
cord-260508-z11exbyu	147	10	two	two	CD
cord-260508-z11exbyu	147	11	lineages	lineage	NNS
cord-260508-z11exbyu	147	12	is	be	VBZ
cord-260508-z11exbyu	147	13	then	then	RB
cord-260508-z11exbyu	147	14	^=	^=	.
cord-260508-z11exbyu	148	1	(	(	-LRB-
cord-260508-z11exbyu	148	2	+	+	NNS
cord-260508-z11exbyu	148	3	)	)	-RRB-
cord-260508-z11exbyu	148	4	⁄	⁄	NNP
cord-260508-z11exbyu	148	5	.	.	.
cord-260508-z11exbyu	149	1	Inserting	insert	VBG
cord-260508-z11exbyu	149	2	the	the	DT
cord-260508-z11exbyu	149	3	numbers	number	NNS
cord-260508-z11exbyu	149	4	from	from	IN
cord-260508-z11exbyu	149	5	Table	Table	NNP
cord-260508-z11exbyu	149	6	3	3	CD
cord-260508-z11exbyu	149	7	for	for	IN
cord-260508-z11exbyu	149	8	the	the	DT
cord-260508-z11exbyu	149	9	20	20	CD
cord-260508-z11exbyu	149	10	divergence	divergence	NN
cord-260508-z11exbyu	149	11	between	between	IN
cord-260508-z11exbyu	149	12	SARS	SARS	NNP
cord-260508-z11exbyu	149	13	-	-	HYPH
cord-260508-z11exbyu	149	14	CoV-2	CoV-2	NNP
cord-260508-z11exbyu	149	15	and	and	CC
cord-260508-z11exbyu	149	16	RaTG13	RaTG13	NNP
cord-260508-z11exbyu	149	17	and	and	CC
cord-260508-z11exbyu	149	18	RmYN02	rmyn02	UH
cord-260508-z11exbyu	149	19	,	,	,
cord-260508-z11exbyu	149	20	respectively	respectively	RB
cord-260508-z11exbyu	149	21	,	,	,
cord-260508-z11exbyu	149	22	we	-PRON-	PRP
cord-260508-z11exbyu	149	23	find	find	VBP
cord-260508-z11exbyu	149	24	a	a	DT
cord-260508-z11exbyu	149	25	total	total	JJ
cord-260508-z11exbyu	149	26	21	21	CD
cord-260508-z11exbyu	149	27	divergence	divergence	NN
cord-260508-z11exbyu	149	28	of	of	IN
cord-260508-z11exbyu	149	29	96.92	96.92	CD
cord-260508-z11exbyu	149	30	years	year	NNS
cord-260508-z11exbyu	149	31	and	and	CC
cord-260508-z11exbyu	149	32	74.05	74.05	CD
cord-260508-z11exbyu	149	33	years	year	NNS
cord-260508-z11exbyu	149	34	respectively	respectively	RB
cord-260508-z11exbyu	149	35	.	.	.
cord-260508-z11exbyu	150	1	Taking	take	VBG
cord-260508-z11exbyu	150	2	into	into	IN
cord-260508-z11exbyu	150	3	account	account	NN
cord-260508-z11exbyu	150	4	that	that	IN
cord-260508-z11exbyu	150	5	RaTG13	RaTG13	NNP
cord-260508-z11exbyu	150	6	was	be	VBD
cord-260508-z11exbyu	150	7	22	22	CD
cord-260508-z11exbyu	150	8	isolated	isolate	VBN
cord-260508-z11exbyu	150	9	July	July	NNP
cord-260508-z11exbyu	150	10	2013	2013	CD
cord-260508-z11exbyu	150	11	,	,	,
cord-260508-z11exbyu	150	12	we	-PRON-	PRP
cord-260508-z11exbyu	150	13	find	find	VBP
cord-260508-z11exbyu	150	14	an	an	DT
cord-260508-z11exbyu	150	15	estimated	estimate	VBN
cord-260508-z11exbyu	150	16	tMRCA	tmrca	NN
cord-260508-z11exbyu	150	17	between	between	IN
cord-260508-z11exbyu	150	18	that	that	DT
cord-260508-z11exbyu	150	19	strain	strain	NN
cord-260508-z11exbyu	150	20	and	and	CC
cord-260508-z11exbyu	150	21	SARS	SARS	NNP
cord-260508-z11exbyu	150	22	-	-	HYPH
cord-260508-z11exbyu	150	23	CoV-2	CoV-2	NNP
cord-260508-z11exbyu	150	24	of	of	IN
cord-260508-z11exbyu	150	25	23	23	CD
cord-260508-z11exbyu	150	26	times	time	NNS
cord-260508-z11exbyu	150	27	.	.	.
cord-260508-z11exbyu	151	1	The	the	DT
cord-260508-z11exbyu	151	2	estimate	estimate	NN
cord-260508-z11exbyu	151	3	for	for	IN
cord-260508-z11exbyu	151	4	SARS	SARS	NNP
cord-260508-z11exbyu	151	5	-	-	HYPH
cord-260508-z11exbyu	151	6	CoV-2	CoV-2	NNP
cord-260508-z11exbyu	151	7	and	and	CC
cord-260508-z11exbyu	151	8	RaTG13	RaTG13	NNP
cord-260508-z11exbyu	151	9	is	be	VBZ
cord-260508-z11exbyu	151	10	compatible	compatible	JJ
cord-260508-z11exbyu	151	11	with	with	IN
cord-260508-z11exbyu	151	12	the	the	DT
cord-260508-z11exbyu	151	13	values	value	NNS
cord-260508-z11exbyu	151	14	obtained	obtain	VBN
cord-260508-z11exbyu	151	15	using	use	VBG
cord-260508-z11exbyu	151	16	1	1	CD
cord-260508-z11exbyu	151	17	different	different	JJ
cord-260508-z11exbyu	151	18	methods	method	NNS
cord-260508-z11exbyu	151	19	for	for	IN
cord-260508-z11exbyu	151	20	dating	date	VBG
cord-260508-z11exbyu	151	21	(	(	-LRB-
cord-260508-z11exbyu	151	22	Boni	Boni	NNP
cord-260508-z11exbyu	151	23	,	,	,
cord-260508-z11exbyu	151	24	et	et	FW
cord-260508-z11exbyu	151	25	al	al	NNP
cord-260508-z11exbyu	151	26	.	.	NNP
cord-260508-z11exbyu	151	27	2020	2020	CD
cord-260508-z11exbyu	151	28	)	)	-RRB-
cord-260508-z11exbyu	151	29	.	.	.
cord-260508-z11exbyu	152	1	The	the	DT
cord-260508-z11exbyu	152	2	variance	variance	NN
cord-260508-z11exbyu	152	3	in	in	IN
cord-260508-z11exbyu	152	4	the	the	DT
cord-260508-z11exbyu	152	5	estimate	estimate	NN
cord-260508-z11exbyu	152	6	in	in	IN
cord-260508-z11exbyu	152	7	d	d	NNP
cord-260508-z11exbyu	152	8	S	S	NNP
cord-260508-z11exbyu	152	9	is	be	VBZ
cord-260508-z11exbyu	152	10	small	small	JJ
cord-260508-z11exbyu	152	11	and	and	CC
cord-260508-z11exbyu	152	12	2	2	CD
cord-260508-z11exbyu	153	1	the	the	DT
cord-260508-z11exbyu	153	2	uncertainty	uncertainty	NN
cord-260508-z11exbyu	153	3	is	be	VBZ
cord-260508-z11exbyu	153	4	mostly	mostly	RB
cord-260508-z11exbyu	153	5	dominated	dominate	VBN
cord-260508-z11exbyu	153	6	by	by	IN
cord-260508-z11exbyu	153	7	the	the	DT
cord-260508-z11exbyu	153	8	uncertainty	uncertainty	NN
cord-260508-z11exbyu	153	9	in	in	IN
cord-260508-z11exbyu	153	10	the	the	DT
cord-260508-z11exbyu	153	11	estimate	estimate	NN
cord-260508-z11exbyu	153	12	of	of	IN
cord-260508-z11exbyu	153	13	the	the	DT
cord-260508-z11exbyu	153	14	mutation	mutation	NN
cord-260508-z11exbyu	153	15	rate	rate	NN
cord-260508-z11exbyu	153	16	.	.	.
cord-260508-z11exbyu	154	1	We	-PRON-	PRP
cord-260508-z11exbyu	154	2	3	3	CD
cord-260508-z11exbyu	154	3	estimate	estimate	VBP
cord-260508-z11exbyu	154	4	the	the	DT
cord-260508-z11exbyu	154	5	S.D.	S.D.	NNP
cord-260508-z11exbyu	154	6	in	in	IN
cord-260508-z11exbyu	154	7	^	^	NFP
cord-260508-z11exbyu	154	8	using	use	VBG
cord-260508-z11exbyu	154	9	1000	1000	CD
cord-260508-z11exbyu	154	10	parametric	parametric	JJ
cord-260508-z11exbyu	154	11	simulations	simulation	NNS
cord-260508-z11exbyu	154	12	,	,	,
cord-260508-z11exbyu	154	13	using	use	VBG
cord-260508-z11exbyu	154	14	the	the	DT
cord-260508-z11exbyu	154	15	ML	ML	NNP
cord-260508-z11exbyu	154	16	estimates	estimate	NNS
cord-260508-z11exbyu	154	17	of	of	IN
cord-260508-z11exbyu	154	18	all	all	DT
cord-260508-z11exbyu	154	19	4	4	CD
cord-260508-z11exbyu	154	20	parameters	parameter	NNS
cord-260508-z11exbyu	154	21	,	,	,
cord-260508-z11exbyu	154	22	for	for	IN
cord-260508-z11exbyu	154	23	both	both	CC
cord-260508-z11exbyu	154	24	RaTG13	RaTG13	NNP
cord-260508-z11exbyu	154	25	vs.	vs.	FW
cord-260508-z11exbyu	154	26	SARS	SARS	NNP
cord-260508-z11exbyu	154	27	-	-	HYPH
cord-260508-z11exbyu	154	28	CoV-2	CoV-2	NNP
cord-260508-z11exbyu	154	29	and	and	CC
cord-260508-z11exbyu	154	30	for	for	IN
cord-260508-z11exbyu	154	31	RmYN02	RmYN02	NNP
cord-260508-z11exbyu	154	32	vs.	vs.	FW
cord-260508-z11exbyu	154	33	SARS	SARS	NNP
cord-260508-z11exbyu	154	34	-	-	HYPH
cord-260508-z11exbyu	154	35	CoV-2	CoV-2	NNP
cord-260508-z11exbyu	154	36	,	,	,
cord-260508-z11exbyu	154	37	and	and	CC
cord-260508-z11exbyu	154	38	for	for	IN
cord-260508-z11exbyu	154	39	each	each	DT
cord-260508-z11exbyu	154	40	5	5	CD
cord-260508-z11exbyu	154	41	simulated	simulate	VBN
cord-260508-z11exbyu	154	42	data	datum	NNS
cord-260508-z11exbyu	154	43	also	also	RB
cord-260508-z11exbyu	154	44	simulating	simulate	VBG
cord-260508-z11exbyu	154	45	values	value	NNS
cord-260508-z11exbyu	154	46	of	of	IN
cord-260508-z11exbyu	154	47	and	and	CC
cord-260508-z11exbyu	154	48	from	from	IN
cord-260508-z11exbyu	154	49	normal	normal	JJ
cord-260508-z11exbyu	154	50	distributions	distribution	NNS
cord-260508-z11exbyu	154	51	with	with	IN
cord-260508-z11exbyu	154	52	mean	mean	JJ
cord-260508-z11exbyu	154	53	1.04×10	1.04×10	CD
cord-260508-z11exbyu	154	54	-3	-3	CD
cord-260508-z11exbyu	154	55	6	6	CD
cord-260508-z11exbyu	154	56	and	and	CC
cord-260508-z11exbyu	154	57	S.D.	S.D.	NNP
cord-260508-z11exbyu	154	58	0.18×10	0.18×10	NNP
cord-260508-z11exbyu	154	59	-3	-3	NNP
cord-260508-z11exbyu	154	60	,	,	,
cord-260508-z11exbyu	154	61	and	and	CC
cord-260508-z11exbyu	154	62	mean	mean	VB
cord-260508-z11exbyu	154	63	0.5604	0.5604	CD
cord-260508-z11exbyu	154	64	and	and	CC
cord-260508-z11exbyu	154	65	S.D.	S.D.	NNP
cord-260508-z11exbyu	154	66	0.1122	0.1122	CD
cord-260508-z11exbyu	154	67	,	,	,
cord-260508-z11exbyu	154	68	respectively	respectively	RB
cord-260508-z11exbyu	154	69	.	.	.
cord-260508-z11exbyu	155	1	We	-PRON-	PRP
cord-260508-z11exbyu	155	2	subject	subject	VBP
cord-260508-z11exbyu	155	3	each	each	DT
cord-260508-z11exbyu	155	4	7	7	CD
cord-260508-z11exbyu	155	5	simulated	simulated	JJ
cord-260508-z11exbyu	155	6	data	datum	NNS
cord-260508-z11exbyu	155	7	set	set	VBN
cord-260508-z11exbyu	155	8	to	to	IN
cord-260508-z11exbyu	155	9	the	the	DT
cord-260508-z11exbyu	155	10	same	same	JJ
cord-260508-z11exbyu	155	11	inference	inference	NN
cord-260508-z11exbyu	155	12	procedure	procedure	NN
cord-260508-z11exbyu	155	13	as	as	IN
cord-260508-z11exbyu	155	14	done	do	VBN
cord-260508-z11exbyu	155	15	on	on	IN
cord-260508-z11exbyu	155	16	the	the	DT
cord-260508-z11exbyu	155	17	real	real	JJ
cord-260508-z11exbyu	155	18	data	datum	NNS
cord-260508-z11exbyu	155	19	.	.	.
cord-260508-z11exbyu	156	1	Our	-PRON-	PRP$
cord-260508-z11exbyu	156	2	estimate	estimate	NN
cord-260508-z11exbyu	156	3	of	of	IN
cord-260508-z11exbyu	156	4	8	8	CD
cord-260508-z11exbyu	156	5	the	the	DT
cord-260508-z11exbyu	156	6	S.D.	S.D.	NNP
cord-260508-z11exbyu	156	7	in	in	IN
cord-260508-z11exbyu	156	8	the	the	DT
cord-260508-z11exbyu	156	9	estimate	estimate	NN
cord-260508-z11exbyu	156	10	is	be	VBZ
cord-260508-z11exbyu	156	11	11.8	11.8	CD
cord-260508-z11exbyu	156	12	for	for	IN
cord-260508-z11exbyu	156	13	RaTG13	RaTG13	NNP
cord-260508-z11exbyu	156	14	vs.	vs.	FW
cord-260508-z11exbyu	156	15	SARS	SARS	NNP
cord-260508-z11exbyu	156	16	-	-	HYPH
cord-260508-z11exbyu	156	17	CoV-2	CoV-2	NNP
cord-260508-z11exbyu	156	18	and	and	CC
cord-260508-z11exbyu	156	19	9.41	9.41	CD
cord-260508-z11exbyu	156	20	for	for	IN
cord-260508-z11exbyu	156	21	RmYN02	rmyn02	JJ
cord-260508-z11exbyu	156	22	vs.	vs.	FW
cord-260508-z11exbyu	156	23	SARS-9	SARS-9	NNP
cord-260508-z11exbyu	156	24	CoV-2	CoV-2	NNP
cord-260508-z11exbyu	156	25	,	,	,
cord-260508-z11exbyu	156	26	providing	provide	VBG
cord-260508-z11exbyu	156	27	an	an	DT
cord-260508-z11exbyu	156	28	approximate	approximate	JJ
cord-260508-z11exbyu	156	29	95	95	CD
cord-260508-z11exbyu	156	30	%	%	NN
cord-260508-z11exbyu	156	31	confidence	confidence	NN
cord-260508-z11exbyu	156	32	interval	interval	NN
cord-260508-z11exbyu	156	33	of	of	IN
cord-260508-z11exbyu	156	34	(	(	-LRB-
cord-260508-z11exbyu	156	35	28.11	28.11	CD
cord-260508-z11exbyu	156	36	,	,	,
cord-260508-z11exbyu	156	37	75.31	75.31	CD
cord-260508-z11exbyu	156	38	)	)	-RRB-
cord-260508-z11exbyu	156	39	and	and	CC
cord-260508-z11exbyu	156	40	(	(	-LRB-
cord-260508-z11exbyu	156	41	18.19	18.19	CD
cord-260508-z11exbyu	156	42	,	,	,
cord-260508-z11exbyu	156	43	55	55	CD
cord-260508-z11exbyu	156	44	.85	.85	CD
cord-260508-z11exbyu	156	45	)	)	-RRB-
cord-260508-z11exbyu	156	46	,	,	,
cord-260508-z11exbyu	156	47	10	10	CD
cord-260508-z11exbyu	156	48	respectively	respectively	RB
cord-260508-z11exbyu	156	49	.	.	.
cord-260508-z11exbyu	157	1	For	for	IN
cord-260508-z11exbyu	157	2	RaTG13	RaTG13	NNP
cord-260508-z11exbyu	157	3	,	,	,
cord-260508-z11exbyu	157	4	if	if	IN
cord-260508-z11exbyu	157	5	including	include	VBG
cord-260508-z11exbyu	157	6	all	all	DT
cord-260508-z11exbyu	157	7	sites	site	NNS
cord-260508-z11exbyu	157	8	,	,	,
cord-260508-z11exbyu	157	9	except	except	IN
cord-260508-z11exbyu	157	10	the	the	DT
cord-260508-z11exbyu	157	11	244-bp	244-bp	CD
cord-260508-z11exbyu	157	12	in	in	IN
cord-260508-z11exbyu	157	13	the	the	DT
cord-260508-z11exbyu	157	14	RBD	RBD	NNP
cord-260508-z11exbyu	157	15	of	of	IN
cord-260508-z11exbyu	157	16	the	the	DT
cord-260508-z11exbyu	157	17	S	S	NNP
cord-260508-z11exbyu	157	18	gene	gene	NN
cord-260508-z11exbyu	157	19	11	11	CD
cord-260508-z11exbyu	158	1	(	(	-LRB-
cord-260508-z11exbyu	158	2	Supplementary	Supplementary	NNP
cord-260508-z11exbyu	158	3	Table	Table	NNP
cord-260508-z11exbyu	158	4	5	5	CD
cord-260508-z11exbyu	158	5	)	)	-RRB-
cord-260508-z11exbyu	158	6	,	,	,
cord-260508-z11exbyu	158	7	the	the	DT
cord-260508-z11exbyu	158	8	estimate	estimate	NN
cord-260508-z11exbyu	158	9	is	be	VBZ
cord-260508-z11exbyu	158	10	55.02	55.02	CD
cord-260508-z11exbyu	158	11	years	year	NNS
cord-260508-z11exbyu	158	12	with	with	IN
cord-260508-z11exbyu	158	13	an	an	DT
cord-260508-z11exbyu	158	14	approx	approx	NN
cord-260508-z11exbyu	158	15	.	.	.
cord-260508-z11exbyu	159	1	95	95	CD
cord-260508-z11exbyu	159	2	%	%	NN
cord-260508-z11exbyu	159	3	C.I.	C.I.	NNP
cord-260508-z11exbyu	159	4	of	of	IN
cord-260508-z11exbyu	159	5	(	(	-LRB-
cord-260508-z11exbyu	159	6	29.4	29.4	CD
cord-260508-z11exbyu	159	7	,	,	,
cord-260508-z11exbyu	159	8	80.7	80.7	CD
cord-260508-z11exbyu	159	9	)	)	-RRB-
cord-260508-z11exbyu	159	10	.	.	.
cord-260508-z11exbyu	160	1	12	12	CD
cord-260508-z11exbyu	161	1	As	as	IN
cord-260508-z11exbyu	161	2	more	more	JJR
cord-260508-z11exbyu	161	3	SARS	SARS	NNP
cord-260508-z11exbyu	161	4	-	-	HYPH
cord-260508-z11exbyu	161	5	CoV-2	CoV-2	NNP
cord-260508-z11exbyu	161	6	sequences	sequence	NNS
cord-260508-z11exbyu	161	7	are	be	VBP
cord-260508-z11exbyu	161	8	being	be	VBG
cord-260508-z11exbyu	161	9	obtained	obtain	VBN
cord-260508-z11exbyu	161	10	,	,	,
cord-260508-z11exbyu	161	11	providing	provide	VBG
cord-260508-z11exbyu	161	12	more	more	RBR
cord-260508-z11exbyu	161	13	precise	precise	JJ
cord-260508-z11exbyu	161	14	estimates	estimate	NNS
cord-260508-z11exbyu	161	15	of	of	IN
cord-260508-z11exbyu	161	16	the	the	DT
cord-260508-z11exbyu	161	17	13	13	CD
cord-260508-z11exbyu	161	18	mutation	mutation	NN
cord-260508-z11exbyu	161	19	rate	rate	NN
cord-260508-z11exbyu	161	20	,	,	,
cord-260508-z11exbyu	161	21	this	this	DT
cord-260508-z11exbyu	161	22	confidence	confidence	NN
cord-260508-z11exbyu	161	23	interval	interval	NN
cord-260508-z11exbyu	161	24	will	will	MD
cord-260508-z11exbyu	161	25	become	become	VB
cord-260508-z11exbyu	161	26	narrower	narrow	JJR
cord-260508-z11exbyu	161	27	.	.	.
cord-260508-z11exbyu	162	1	However	however	RB
cord-260508-z11exbyu	162	2	,	,	,
cord-260508-z11exbyu	162	3	we	-PRON-	PRP
cord-260508-z11exbyu	162	4	warn	warn	VBP
cord-260508-z11exbyu	162	5	that	that	IN
cord-260508-z11exbyu	162	6	the	the	DT
cord-260508-z11exbyu	162	7	14	14	CD
cord-260508-z11exbyu	162	8	estimate	estimate	NN
cord-260508-z11exbyu	162	9	is	be	VBZ
cord-260508-z11exbyu	162	10	based	base	VBN
cord-260508-z11exbyu	162	11	on	on	IN
cord-260508-z11exbyu	162	12	a	a	DT
cord-260508-z11exbyu	162	13	molecular	molecular	JJ
cord-260508-z11exbyu	162	14	clock	clock	NN
cord-260508-z11exbyu	162	15	assumption	assumption	NN
cord-260508-z11exbyu	162	16	and	and	CC
cord-260508-z11exbyu	162	17	that	that	IN
cord-260508-z11exbyu	162	18	violations	violation	NNS
cord-260508-z11exbyu	162	19	of	of	IN
cord-260508-z11exbyu	162	20	this	this	DT
cord-260508-z11exbyu	162	21	assumption	assumption	NN
cord-260508-z11exbyu	162	22	15	15	CD
cord-260508-z11exbyu	162	23	eventually	eventually	RB
cord-260508-z11exbyu	162	24	will	will	MD
cord-260508-z11exbyu	162	25	become	become	VB
cord-260508-z11exbyu	162	26	a	a	DT
cord-260508-z11exbyu	162	27	more	more	RBR
cord-260508-z11exbyu	162	28	likely	likely	JJ
cord-260508-z11exbyu	162	29	source	source	NN
cord-260508-z11exbyu	162	30	of	of	IN
cord-260508-z11exbyu	162	31	error	error	NN
cord-260508-z11exbyu	162	32	than	than	IN
cord-260508-z11exbyu	162	33	the	the	DT
cord-260508-z11exbyu	162	34	statistical	statistical	JJ
cord-260508-z11exbyu	162	35	uncertainty	uncertainty	NN
cord-260508-z11exbyu	162	36	quantified	quantify	VBN
cord-260508-z11exbyu	162	37	in	in	IN
cord-260508-z11exbyu	162	38	16	16	CD
cord-260508-z11exbyu	162	39	the	the	DT
cord-260508-z11exbyu	162	40	calculation	calculation	NN
cord-260508-z11exbyu	162	41	of	of	IN
cord-260508-z11exbyu	162	42	the	the	DT
cord-260508-z11exbyu	162	43	confidence	confidence	NN
cord-260508-z11exbyu	162	44	intervals	interval	NNS
cord-260508-z11exbyu	162	45	.	.	.
cord-260508-z11exbyu	163	1	We	-PRON-	PRP
cord-260508-z11exbyu	163	2	also	also	RB
cord-260508-z11exbyu	163	3	note	note	VBP
cord-260508-z11exbyu	163	4	that	that	IN
cord-260508-z11exbyu	163	5	,	,	,
cord-260508-z11exbyu	163	6	so	so	RB
cord-260508-z11exbyu	163	7	far	far	RB
cord-260508-z11exbyu	163	8	,	,	,
cord-260508-z11exbyu	163	9	we	-PRON-	PRP
cord-260508-z11exbyu	163	10	have	have	VBP
cord-260508-z11exbyu	163	11	assumed	assume	VBN
cord-260508-z11exbyu	163	12	no	no	DT
cord-260508-z11exbyu	163	13	17	17	CD
cord-260508-z11exbyu	163	14	variation	variation	NN
cord-260508-z11exbyu	163	15	in	in	IN
cord-260508-z11exbyu	163	16	the	the	DT
cord-260508-z11exbyu	163	17	mutation	mutation	NN
cord-260508-z11exbyu	163	18	rate	rate	NN
cord-260508-z11exbyu	163	19	among	among	IN
cord-260508-z11exbyu	163	20	synonymous	synonymous	JJ
cord-260508-z11exbyu	163	21	sites	site	NNS
cord-260508-z11exbyu	163	22	.	.	.
cord-260508-z11exbyu	164	1	However	however	RB
cord-260508-z11exbyu	164	2	,	,	,
cord-260508-z11exbyu	164	3	just	just	RB
cord-260508-z11exbyu	164	4	from	from	IN
cord-260508-z11exbyu	164	5	the	the	DT
cord-260508-z11exbyu	164	6	analysis	analysis	NN
cord-260508-z11exbyu	164	7	of	of	IN
cord-260508-z11exbyu	164	8	the	the	DT
cord-260508-z11exbyu	164	9	18	18	CD
cord-260508-z11exbyu	164	10	300	300	CD
cord-260508-z11exbyu	164	11	bp	bp	NNP
cord-260508-z11exbyu	164	12	windows	windows	NNP
cord-260508-z11exbyu	164	13	,	,	,
cord-260508-z11exbyu	164	14	it	-PRON-	PRP
cord-260508-z11exbyu	164	15	is	be	VBZ
cord-260508-z11exbyu	164	16	clear	clear	JJ
cord-260508-z11exbyu	164	17	that	that	DT
cord-260508-z11exbyu	164	18	is	be	VBZ
cord-260508-z11exbyu	164	19	not	not	RB
cord-260508-z11exbyu	164	20	true	true	JJ
cord-260508-z11exbyu	164	21	.	.	.
cord-260508-z11exbyu	165	1	The	the	DT
cord-260508-z11exbyu	165	2	variance	variance	NN
cord-260508-z11exbyu	165	3	in	in	IN
cord-260508-z11exbyu	165	4	the	the	DT
cord-260508-z11exbyu	165	5	estimate	estimate	NN
cord-260508-z11exbyu	165	6	of	of	IN
cord-260508-z11exbyu	165	7	dS	dS	NNP
cord-260508-z11exbyu	165	8	among	among	IN
cord-260508-z11exbyu	165	9	300	300	CD
cord-260508-z11exbyu	165	10	bp	bp	NNP
cord-260508-z11exbyu	165	11	19	19	CD
cord-260508-z11exbyu	165	12	windows	window	NNS
cord-260508-z11exbyu	165	13	from	from	IN
cord-260508-z11exbyu	165	14	the	the	DT
cord-260508-z11exbyu	165	15	RaTG13-SARS	RaTG13-SARS	NNPS
cord-260508-z11exbyu	165	16	-	-	HYPH
cord-260508-z11exbyu	165	17	CoV-2	cov-2	NN
cord-260508-z11exbyu	165	18	comparison	comparison	NN
cord-260508-z11exbyu	165	19	is	be	VBZ
cord-260508-z11exbyu	165	20	approximately	approximately	RB
cord-260508-z11exbyu	165	21	0.0113	0.0113	CD
cord-260508-z11exbyu	165	22	.	.	.
cord-260508-z11exbyu	166	1	In	in	IN
cord-260508-z11exbyu	166	2	contrast	contrast	NN
cord-260508-z11exbyu	166	3	,	,	,
cord-260508-z11exbyu	166	4	in	in	IN
cord-260508-z11exbyu	166	5	20	20	CD
cord-260508-z11exbyu	166	6	the	the	DT
cord-260508-z11exbyu	166	7	simulated	simulated	JJ
cord-260508-z11exbyu	166	8	data	datum	NNS
cord-260508-z11exbyu	166	9	assuming	assume	VBG
cord-260508-z11exbyu	166	10	constant	constant	JJ
cord-260508-z11exbyu	166	11	mutation	mutation	NN
cord-260508-z11exbyu	166	12	rate	rate	NN
cord-260508-z11exbyu	166	13	,	,	,
cord-260508-z11exbyu	166	14	the	the	DT
cord-260508-z11exbyu	166	15	variance	variance	NN
cord-260508-z11exbyu	166	16	is	be	VBZ
cord-260508-z11exbyu	166	17	approximately	approximately	RB
cord-260508-z11exbyu	166	18	0.0034	0.0034	CD
cord-260508-z11exbyu	166	19	,	,	,
cord-260508-z11exbyu	166	20	21	21	CD
cord-260508-z11exbyu	166	21	suggesting	suggest	VBG
cord-260508-z11exbyu	166	22	substantial	substantial	JJ
cord-260508-z11exbyu	166	23	variation	variation	NN
cord-260508-z11exbyu	166	24	in	in	IN
cord-260508-z11exbyu	166	25	the	the	DT
cord-260508-z11exbyu	166	26	synonymous	synonymous	JJ
cord-260508-z11exbyu	166	27	mutation	mutation	NN
cord-260508-z11exbyu	166	28	rate	rate	NN
cord-260508-z11exbyu	166	29	along	along	IN
cord-260508-z11exbyu	166	30	the	the	DT
cord-260508-z11exbyu	166	31	length	length	NN
cord-260508-z11exbyu	166	32	of	of	IN
cord-260508-z11exbyu	166	33	the	the	DT
cord-260508-z11exbyu	166	34	22	22	CD
cord-260508-z11exbyu	166	35	genome	genome	NN
cord-260508-z11exbyu	166	36	.	.	.
cord-260508-z11exbyu	167	1	Alternatively	alternatively	RB
cord-260508-z11exbyu	167	2	,	,	,
cord-260508-z11exbyu	167	3	this	this	DT
cord-260508-z11exbyu	167	4	might	may	MD
cord-260508-z11exbyu	167	5	be	be	VB
cord-260508-z11exbyu	167	6	explained	explain	VBN
cord-260508-z11exbyu	167	7	by	by	IN
cord-260508-z11exbyu	167	8	undetected	undetected	JJ
cord-260508-z11exbyu	167	9	recombination	recombination	NN
cord-260508-z11exbyu	167	10	in	in	IN
cord-260508-z11exbyu	167	11	the	the	DT
cord-260508-z11exbyu	167	12	evolutionary	evolutionary	JJ
cord-260508-z11exbyu	167	13	23	23	CD
cord-260508-z11exbyu	167	14	history	history	NN
cord-260508-z11exbyu	167	15	since	since	IN
cord-260508-z11exbyu	167	16	the	the	DT
cord-260508-z11exbyu	167	17	divergence	divergence	NN
cord-260508-z11exbyu	167	18	of	of	IN
cord-260508-z11exbyu	167	19	the	the	DT
cord-260508-z11exbyu	167	20	strains	strain	NNS
cord-260508-z11exbyu	167	21	.	.	.
cord-260508-z11exbyu	168	1	24	24	CD
cord-260508-z11exbyu	169	1	The	the	DT
cord-260508-z11exbyu	169	2	highly	highly	RB
cord-260508-z11exbyu	169	3	skewed	skewed	JJ
cord-260508-z11exbyu	169	4	distribution	distribution	NN
cord-260508-z11exbyu	169	5	of	of	IN
cord-260508-z11exbyu	169	6	nucleotide	nucleotide	JJ
cord-260508-z11exbyu	169	7	frequencies	frequency	NNS
cord-260508-z11exbyu	169	8	in	in	IN
cord-260508-z11exbyu	169	9	synonymous	synonymous	JJ
cord-260508-z11exbyu	169	10	sites	site	NNS
cord-260508-z11exbyu	169	11	in	in	IN
cord-260508-z11exbyu	169	12	SARS	SARS	NNP
cord-260508-z11exbyu	169	13	-	-	HYPH
cord-260508-z11exbyu	169	14	CoV-2	CoV-2	NNP
cord-260508-z11exbyu	169	15	1	1	CD
cord-260508-z11exbyu	169	16	(	(	-LRB-
cord-260508-z11exbyu	169	17	Kandeel	Kandeel	NNP
cord-260508-z11exbyu	169	18	,	,	,
cord-260508-z11exbyu	169	19	et	et	NNP
cord-260508-z11exbyu	169	20	al	al	NNP
cord-260508-z11exbyu	169	21	.	.	NNP
cord-260508-z11exbyu	169	22	2020	2020	CD
cord-260508-z11exbyu	169	23	)	)	-RRB-
cord-260508-z11exbyu	169	24	,	,	,
cord-260508-z11exbyu	169	25	along	along	IN
cord-260508-z11exbyu	169	26	with	with	IN
cord-260508-z11exbyu	169	27	high	high	JJ
cord-260508-z11exbyu	169	28	divergence	divergence	NN
cord-260508-z11exbyu	169	29	,	,	,
cord-260508-z11exbyu	169	30	complicates	complicate	VBZ
cord-260508-z11exbyu	169	31	the	the	DT
cord-260508-z11exbyu	169	32	estimation	estimation	NN
cord-260508-z11exbyu	169	33	of	of	IN
cord-260508-z11exbyu	169	34	synonymous	synonymous	JJ
cord-260508-z11exbyu	169	35	2	2	CD
cord-260508-z11exbyu	169	36	divergence	divergence	NN
cord-260508-z11exbyu	169	37	in	in	IN
cord-260508-z11exbyu	169	38	SARS	SARS	NNP
cord-260508-z11exbyu	169	39	-	-	HYPH
cord-260508-z11exbyu	169	40	CoV-2	CoV-2	NNP
cord-260508-z11exbyu	169	41	and	and	CC
cord-260508-z11exbyu	169	42	related	relate	VBN
cord-260508-z11exbyu	169	43	viruses	virus	NNS
cord-260508-z11exbyu	169	44	.	.	.
cord-260508-z11exbyu	170	1	In	in	IN
cord-260508-z11exbyu	170	2	particular	particular	JJ
cord-260508-z11exbyu	170	3	,	,	,
cord-260508-z11exbyu	170	4	in	in	IN
cord-260508-z11exbyu	170	5	the	the	DT
cord-260508-z11exbyu	170	6	third	third	JJ
cord-260508-z11exbyu	170	7	codon	codon	NN
cord-260508-z11exbyu	170	8	position	position	NN
cord-260508-z11exbyu	170	9	the	the	DT
cord-260508-z11exbyu	170	10	3	3	CD
cord-260508-z11exbyu	170	11	nucleotide	nucleotide	JJ
cord-260508-z11exbyu	170	12	frequency	frequency	NN
cord-260508-z11exbyu	170	13	of	of	IN
cord-260508-z11exbyu	170	14	T	T	NNP
cord-260508-z11exbyu	170	15	is	be	VBZ
cord-260508-z11exbyu	170	16	43.5	43.5	CD
cord-260508-z11exbyu	170	17	%	%	NN
cord-260508-z11exbyu	170	18	while	while	IN
cord-260508-z11exbyu	170	19	it	-PRON-	PRP
cord-260508-z11exbyu	170	20	is	be	VBZ
cord-260508-z11exbyu	170	21	just	just	RB
cord-260508-z11exbyu	170	22	15.7	15.7	CD
cord-260508-z11exbyu	170	23	%	%	NN
cord-260508-z11exbyu	170	24	for	for	IN
cord-260508-z11exbyu	170	25	C.	C.	NNP
cord-260508-z11exbyu	171	1	This	this	DT
cord-260508-z11exbyu	171	2	resulting	result	VBG
cord-260508-z11exbyu	171	3	codon	codon	NN
cord-260508-z11exbyu	171	4	usage	usage	NN
cord-260508-z11exbyu	171	5	is	be	VBZ
cord-260508-z11exbyu	171	6	not	not	RB
cord-260508-z11exbyu	171	7	4	4	CD
cord-260508-z11exbyu	171	8	optimized	optimize	VBN
cord-260508-z11exbyu	171	9	for	for	IN
cord-260508-z11exbyu	171	10	mammalian	mammalian	JJ
cord-260508-z11exbyu	171	11	cells	cell	NNS
cord-260508-z11exbyu	171	12	(	(	-LRB-
cord-260508-z11exbyu	171	13	e.g	e.g	XX
cord-260508-z11exbyu	171	14	,	,	,
cord-260508-z11exbyu	172	1	(	(	-LRB-
cord-260508-z11exbyu	172	2	Chamary	Chamary	NNP
cord-260508-z11exbyu	172	3	,	,	,
cord-260508-z11exbyu	172	4	et	et	NNP
cord-260508-z11exbyu	172	5	al	al	NNP
cord-260508-z11exbyu	172	6	.	.	.
cord-260508-z11exbyu	172	7	2006	2006	CD
cord-260508-z11exbyu	172	8	)	)	-RRB-
cord-260508-z11exbyu	172	9	)	)	-RRB-
cord-260508-z11exbyu	172	10	.	.	.
cord-260508-z11exbyu	173	1	A	a	DT
cord-260508-z11exbyu	173	2	possible	possible	JJ
cord-260508-z11exbyu	173	3	explanation	explanation	NN
cord-260508-z11exbyu	173	4	is	be	VBZ
cord-260508-z11exbyu	173	5	a	a	DT
cord-260508-z11exbyu	173	6	strong	strong	JJ
cord-260508-z11exbyu	173	7	5	5	CD
cord-260508-z11exbyu	173	8	mutational	mutational	JJ
cord-260508-z11exbyu	173	9	bias	bias	NN
cord-260508-z11exbyu	173	10	caused	cause	VBN
cord-260508-z11exbyu	173	11	by	by	IN
cord-260508-z11exbyu	173	12	Apolipoprotein	Apolipoprotein	NNP
cord-260508-z11exbyu	173	13	B	B	NNP
cord-260508-z11exbyu	173	14	mRNA	mrna	NN
cord-260508-z11exbyu	173	15	-	-	HYPH
cord-260508-z11exbyu	173	16	editing	edit	VBG
cord-260508-z11exbyu	173	17	enzymes	enzyme	NNS
cord-260508-z11exbyu	173	18	(	(	-LRB-
cord-260508-z11exbyu	173	19	APOBECs	apobec	NNS
cord-260508-z11exbyu	173	20	)	)	-RRB-
cord-260508-z11exbyu	173	21	which	which	WDT
cord-260508-z11exbyu	173	22	can	can	MD
cord-260508-z11exbyu	173	23	6	6	CD
cord-260508-z11exbyu	173	24	cause	cause	VB
cord-260508-z11exbyu	173	25	Cytosine	Cytosine	NNP
cord-260508-z11exbyu	173	26	-	-	HYPH
cord-260508-z11exbyu	173	27	to	to	IN
cord-260508-z11exbyu	173	28	-	-	HYPH
cord-260508-z11exbyu	173	29	Uracil	uracil	NN
cord-260508-z11exbyu	173	30	changes	change	NNS
cord-260508-z11exbyu	173	31	(	(	-LRB-
cord-260508-z11exbyu	173	32	Giorgio	Giorgio	NNP
cord-260508-z11exbyu	173	33	,	,	,
cord-260508-z11exbyu	173	34	et	et	NNP
cord-260508-z11exbyu	173	35	al	al	NNP
cord-260508-z11exbyu	173	36	.	.	NNP
cord-260508-z11exbyu	173	37	2020	2020	CD
cord-260508-z11exbyu	173	38	)	)	-RRB-
cord-260508-z11exbyu	173	39	.	.	.
cord-260508-z11exbyu	174	1	7	7	CD
cord-260508-z11exbyu	175	1	A	a	DT
cord-260508-z11exbyu	175	2	consequence	consequence	NN
cord-260508-z11exbyu	175	3	of	of	IN
cord-260508-z11exbyu	175	4	the	the	DT
cord-260508-z11exbyu	175	5	skewed	skewed	JJ
cord-260508-z11exbyu	175	6	nucleotide	nucleotide	JJ
cord-260508-z11exbyu	175	7	frequencies	frequency	NNS
cord-260508-z11exbyu	175	8	is	be	VBZ
cord-260508-z11exbyu	175	9	a	a	DT
cord-260508-z11exbyu	175	10	high	high	JJ
cord-260508-z11exbyu	175	11	degree	degree	NN
cord-260508-z11exbyu	175	12	of	of	IN
cord-260508-z11exbyu	175	13	homoplasy	homoplasy	NN
cord-260508-z11exbyu	175	14	in	in	IN
cord-260508-z11exbyu	175	15	8	8	CD
cord-260508-z11exbyu	175	16	synonymous	synonymous	JJ
cord-260508-z11exbyu	175	17	sites	site	NNS
cord-260508-z11exbyu	175	18	that	that	WDT
cord-260508-z11exbyu	175	19	challenges	challenge	VBZ
cord-260508-z11exbyu	175	20	estimates	estimate	NNS
cord-260508-z11exbyu	175	21	of	of	IN
cord-260508-z11exbyu	175	22	d	d	NNP
cord-260508-z11exbyu	175	23	S	S	NNP
cord-260508-z11exbyu	175	24	.	.	.
cord-260508-z11exbyu	176	1	We	-PRON-	PRP
cord-260508-z11exbyu	176	2	here	here	RB
cord-260508-z11exbyu	176	3	evaluated	evaluate	VBD
cord-260508-z11exbyu	176	4	estimators	estimator	NNS
cord-260508-z11exbyu	176	5	of	of	IN
cord-260508-z11exbyu	176	6	d	d	NNP
cord-260508-z11exbyu	176	7	S	S	NNP
cord-260508-z11exbyu	176	8	in	in	IN
cord-260508-z11exbyu	176	9	300	300	CD
cord-260508-z11exbyu	176	10	bp	bp	NNP
cord-260508-z11exbyu	176	11	9	9	CD
cord-260508-z11exbyu	176	12	sliding	slide	VBG
cord-260508-z11exbyu	176	13	windows	window	NNS
cord-260508-z11exbyu	176	14	and	and	CC
cord-260508-z11exbyu	176	15	found	find	VBD
cord-260508-z11exbyu	176	16	that	that	IN
cord-260508-z11exbyu	176	17	a	a	DT
cord-260508-z11exbyu	176	18	bias	bias	NN
cord-260508-z11exbyu	176	19	-	-	HYPH
cord-260508-z11exbyu	176	20	corrected	correct	VBN
cord-260508-z11exbyu	176	21	version	version	NN
cord-260508-z11exbyu	176	22	of	of	IN
cord-260508-z11exbyu	176	23	the	the	DT
cord-260508-z11exbyu	176	24	maximum	maximum	JJ
cord-260508-z11exbyu	176	25	likelihood	likelihood	NN
cord-260508-z11exbyu	176	26	estimator	estimator	NN
cord-260508-z11exbyu	176	27	10	10	CD
cord-260508-z11exbyu	176	28	tended	tend	VBD
cord-260508-z11exbyu	176	29	to	to	TO
cord-260508-z11exbyu	176	30	perform	perform	VB
cord-260508-z11exbyu	176	31	best	good	JJS
cord-260508-z11exbyu	176	32	for	for	IN
cord-260508-z11exbyu	176	33	values	value	NNS
cord-260508-z11exbyu	176	34	of	of	IN
cord-260508-z11exbyu	176	35	d	d	NNP
cord-260508-z11exbyu	176	36	S	s	NN
cord-260508-z11exbyu	176	37	<	<	XX
cord-260508-z11exbyu	176	38	2	2	CD
cord-260508-z11exbyu	176	39	.	.	.
cord-260508-z11exbyu	177	1	We	-PRON-	PRP
cord-260508-z11exbyu	177	2	used	use	VBD
cord-260508-z11exbyu	177	3	this	this	DT
cord-260508-z11exbyu	177	4	estimator	estimator	NN
cord-260508-z11exbyu	177	5	to	to	TO
cord-260508-z11exbyu	177	6	investigate	investigate	VB
cord-260508-z11exbyu	177	7	the	the	DT
cord-260508-z11exbyu	177	8	11	11	CD
cord-260508-z11exbyu	177	9	relationship	relationship	NN
cord-260508-z11exbyu	177	10	between	between	IN
cord-260508-z11exbyu	177	11	SARS	SARS	NNP
cord-260508-z11exbyu	177	12	-	-	HYPH
cord-260508-z11exbyu	177	13	CoV-2	CoV-2	NNP
cord-260508-z11exbyu	177	14	and	and	CC
cord-260508-z11exbyu	177	15	related	relate	VBN
cord-260508-z11exbyu	177	16	viruses	virus	NNS
cord-260508-z11exbyu	177	17	in	in	IN
cord-260508-z11exbyu	177	18	sliding	slide	VBG
cord-260508-z11exbyu	177	19	windows	window	NNS
cord-260508-z11exbyu	177	20	.	.	.
cord-260508-z11exbyu	178	1	We	-PRON-	PRP
cord-260508-z11exbyu	178	2	show	show	VBP
cord-260508-z11exbyu	178	3	that	that	IN
cord-260508-z11exbyu	178	4	12	12	CD
cord-260508-z11exbyu	178	5	synonymous	synonymous	JJ
cord-260508-z11exbyu	178	6	mutations	mutation	NNS
cord-260508-z11exbyu	178	7	show	show	VBP
cord-260508-z11exbyu	178	8	shorter	short	JJR
cord-260508-z11exbyu	178	9	divergence	divergence	NN
cord-260508-z11exbyu	178	10	to	to	IN
cord-260508-z11exbyu	178	11	pangolin	pangolin	NN
cord-260508-z11exbyu	178	12	viruses	virus	NNS
cord-260508-z11exbyu	178	13	,	,	,
cord-260508-z11exbyu	178	14	than	than	IN
cord-260508-z11exbyu	178	15	the	the	DT
cord-260508-z11exbyu	178	16	otherwise	otherwise	RB
cord-260508-z11exbyu	178	17	most	most	JJS
cord-260508-z11exbyu	178	18	13	13	CD
cord-260508-z11exbyu	178	19	closely	closely	RB
cord-260508-z11exbyu	178	20	related	related	JJ
cord-260508-z11exbyu	178	21	bat	bat	NN
cord-260508-z11exbyu	178	22	virus	virus	NN
cord-260508-z11exbyu	178	23	,	,	,
cord-260508-z11exbyu	178	24	RaTG13	RaTG13	NNP
cord-260508-z11exbyu	178	25	,	,	,
cord-260508-z11exbyu	178	26	in	in	IN
cord-260508-z11exbyu	178	27	part	part	NN
cord-260508-z11exbyu	178	28	of	of	IN
cord-260508-z11exbyu	178	29	the	the	DT
cord-260508-z11exbyu	178	30	receptor	receptor	NN
cord-260508-z11exbyu	178	31	-	-	HYPH
cord-260508-z11exbyu	178	32	binding	bind	VBG
cord-260508-z11exbyu	178	33	domain	domain	NN
cord-260508-z11exbyu	178	34	of	of	IN
cord-260508-z11exbyu	178	35	the	the	DT
cord-260508-z11exbyu	178	36	spike	spike	NN
cord-260508-z11exbyu	178	37	protein	protein	NN
cord-260508-z11exbyu	178	38	.	.	.
cord-260508-z11exbyu	179	1	14	14	CD
cord-260508-z11exbyu	180	1	This	this	DT
cord-260508-z11exbyu	180	2	strongly	strongly	RB
cord-260508-z11exbyu	180	3	suggests	suggest	VBZ
cord-260508-z11exbyu	180	4	that	that	IN
cord-260508-z11exbyu	180	5	the	the	DT
cord-260508-z11exbyu	180	6	previously	previously	RB
cord-260508-z11exbyu	180	7	reported	report	VBN
cord-260508-z11exbyu	180	8	amino	amino	NN
cord-260508-z11exbyu	180	9	acid	acid	NN
cord-260508-z11exbyu	180	10	similarity	similarity	NN
cord-260508-z11exbyu	180	11	between	between	IN
cord-260508-z11exbyu	180	12	pangolin	pangolin	NN
cord-260508-z11exbyu	180	13	15	15	CD
cord-260508-z11exbyu	180	14	viruses	virus	NNS
cord-260508-z11exbyu	180	15	and	and	CC
cord-260508-z11exbyu	180	16	SARS	SARS	NNP
cord-260508-z11exbyu	180	17	-	-	HYPH
cord-260508-z11exbyu	180	18	CoV-2	CoV-2	NNP
cord-260508-z11exbyu	180	19	is	be	VBZ
cord-260508-z11exbyu	180	20	not	not	RB
cord-260508-z11exbyu	180	21	due	due	JJ
cord-260508-z11exbyu	180	22	to	to	IN
cord-260508-z11exbyu	180	23	convergent	convergent	JJ
cord-260508-z11exbyu	180	24	evolution	evolution	NN
cord-260508-z11exbyu	180	25	,	,	,
cord-260508-z11exbyu	180	26	but	but	CC
cord-260508-z11exbyu	180	27	more	more	RBR
cord-260508-z11exbyu	180	28	likely	likely	JJ
cord-260508-z11exbyu	180	29	is	be	VBZ
cord-260508-z11exbyu	180	30	due	due	JJ
cord-260508-z11exbyu	180	31	to	to	IN
cord-260508-z11exbyu	180	32	16	16	CD
cord-260508-z11exbyu	180	33	recombination	recombination	NN
cord-260508-z11exbyu	180	34	.	.	.
cord-260508-z11exbyu	181	1	In	in	IN
cord-260508-z11exbyu	181	2	the	the	DT
cord-260508-z11exbyu	181	3	recombination	recombination	NN
cord-260508-z11exbyu	181	4	analysis	analysis	NN
cord-260508-z11exbyu	181	5	,	,	,
cord-260508-z11exbyu	181	6	we	-PRON-	PRP
cord-260508-z11exbyu	181	7	identified	identify	VBD
cord-260508-z11exbyu	181	8	recombination	recombination	NN
cord-260508-z11exbyu	181	9	from	from	IN
cord-260508-z11exbyu	181	10	pangolin	pangolin	NN
cord-260508-z11exbyu	181	11	strains	strain	NNS
cord-260508-z11exbyu	181	12	17	17	CD
cord-260508-z11exbyu	181	13	into	into	IN
cord-260508-z11exbyu	181	14	SARS	SARS	NNP
cord-260508-z11exbyu	181	15	-	-	HYPH
cord-260508-z11exbyu	181	16	CoV-2	CoV-2	NNP
cord-260508-z11exbyu	181	17	,	,	,
cord-260508-z11exbyu	181	18	which	which	WDT
cord-260508-z11exbyu	181	19	provides	provide	VBZ
cord-260508-z11exbyu	181	20	further	further	JJ
cord-260508-z11exbyu	181	21	support	support	NN
cord-260508-z11exbyu	181	22	for	for	IN
cord-260508-z11exbyu	181	23	the	the	DT
cord-260508-z11exbyu	181	24	recombination	recombination	NN
cord-260508-z11exbyu	181	25	hypothesis	hypothesis	NN
cord-260508-z11exbyu	181	26	.	.	.
cord-260508-z11exbyu	182	1	However	however	RB
cord-260508-z11exbyu	182	2	,	,	,
cord-260508-z11exbyu	182	3	18	18	CD
cord-260508-z11exbyu	182	4	we	-PRON-	PRP
cord-260508-z11exbyu	182	5	also	also	RB
cord-260508-z11exbyu	182	6	find	find	VBP
cord-260508-z11exbyu	182	7	that	that	IN
cord-260508-z11exbyu	182	8	the	the	DT
cord-260508-z11exbyu	182	9	synonymous	synonymous	JJ
cord-260508-z11exbyu	182	10	divergence	divergence	NN
cord-260508-z11exbyu	182	11	between	between	IN
cord-260508-z11exbyu	182	12	SARS	SARS	NNP
cord-260508-z11exbyu	182	13	-	-	HYPH
cord-260508-z11exbyu	182	14	CoV-2	CoV-2	NNP
cord-260508-z11exbyu	182	15	and	and	CC
cord-260508-z11exbyu	182	16	pangolin	pangolin	NN
cord-260508-z11exbyu	182	17	viruses	virus	NNS
cord-260508-z11exbyu	182	18	in	in	IN
cord-260508-z11exbyu	182	19	this	this	DT
cord-260508-z11exbyu	182	20	19	19	CD
cord-260508-z11exbyu	182	21	region	region	NN
cord-260508-z11exbyu	182	22	is	be	VBZ
cord-260508-z11exbyu	182	23	relatively	relatively	RB
cord-260508-z11exbyu	182	24	high	high	JJ
cord-260508-z11exbyu	182	25	,	,	,
cord-260508-z11exbyu	182	26	which	which	WDT
cord-260508-z11exbyu	182	27	is	be	VBZ
cord-260508-z11exbyu	182	28	not	not	RB
cord-260508-z11exbyu	182	29	consistent	consistent	JJ
cord-260508-z11exbyu	182	30	with	with	IN
cord-260508-z11exbyu	182	31	a	a	DT
cord-260508-z11exbyu	182	32	recent	recent	JJ
cord-260508-z11exbyu	182	33	recombination	recombination	NN
cord-260508-z11exbyu	182	34	between	between	IN
cord-260508-z11exbyu	182	35	the	the	DT
cord-260508-z11exbyu	182	36	two	two	CD
cord-260508-z11exbyu	182	37	.	.	.
cord-260508-z11exbyu	183	1	It	-PRON-	PRP
cord-260508-z11exbyu	183	2	20	20	CD
cord-260508-z11exbyu	183	3	instead	instead	RB
cord-260508-z11exbyu	183	4	suggests	suggest	VBZ
cord-260508-z11exbyu	183	5	that	that	IN
cord-260508-z11exbyu	183	6	the	the	DT
cord-260508-z11exbyu	183	7	recombination	recombination	NN
cord-260508-z11exbyu	183	8	was	be	VBD
cord-260508-z11exbyu	183	9	into	into	IN
cord-260508-z11exbyu	183	10	RaTG13	ratg13	NN
cord-260508-z11exbyu	183	11	from	from	IN
cord-260508-z11exbyu	183	12	an	an	DT
cord-260508-z11exbyu	183	13	unknown	unknown	JJ
cord-260508-z11exbyu	183	14	strain	strain	NN
cord-260508-z11exbyu	183	15	,	,	,
cord-260508-z11exbyu	183	16	rather	rather	RB
cord-260508-z11exbyu	183	17	than	than	IN
cord-260508-z11exbyu	183	18	21	21	CD
cord-260508-z11exbyu	183	19	between	between	IN
cord-260508-z11exbyu	183	20	pangolin	pangolin	NN
cord-260508-z11exbyu	183	21	viruses	virus	NNS
cord-260508-z11exbyu	183	22	and	and	CC
cord-260508-z11exbyu	183	23	SARS	SARS	NNP
cord-260508-z11exbyu	183	24	-	-	HYPH
cord-260508-z11exbyu	183	25	CoV-2	CoV-2	NNP
cord-260508-z11exbyu	183	26	,	,	,
cord-260508-z11exbyu	183	27	as	as	IN
cord-260508-z11exbyu	183	28	proposed	propose	VBN
cord-260508-z11exbyu	183	29	in	in	IN
cord-260508-z11exbyu	183	30	(	(	-LRB-
cord-260508-z11exbyu	183	31	Boni	Boni	NNP
cord-260508-z11exbyu	183	32	,	,	,
cord-260508-z11exbyu	183	33	et	et	FW
cord-260508-z11exbyu	183	34	al	al	NNP
cord-260508-z11exbyu	183	35	.	.	NNP
cord-260508-z11exbyu	183	36	2020	2020	CD
cord-260508-z11exbyu	183	37	)	)	-RRB-
cord-260508-z11exbyu	183	38	.	.	.
cord-260508-z11exbyu	184	1	The	the	DT
cord-260508-z11exbyu	184	2	alternative	alternative	JJ
cord-260508-z11exbyu	184	3	22	22	CD
cord-260508-z11exbyu	184	4	explanation	explanation	NN
cord-260508-z11exbyu	184	5	of	of	IN
cord-260508-z11exbyu	184	6	recombination	recombination	NN
cord-260508-z11exbyu	184	7	into	into	IN
cord-260508-z11exbyu	184	8	SARS	SARS	NNP
cord-260508-z11exbyu	184	9	-	-	HYPH
cord-260508-z11exbyu	184	10	CoV-2	CoV-2	NNP
cord-260508-z11exbyu	184	11	from	from	IN
cord-260508-z11exbyu	184	12	the	the	DT
cord-260508-z11exbyu	184	13	pangolin	pangolin	NN
cord-260508-z11exbyu	184	14	virus	virus	NN
cord-260508-z11exbyu	184	15	,	,	,
cord-260508-z11exbyu	184	16	would	would	MD
cord-260508-z11exbyu	184	17	require	require	VB
cord-260508-z11exbyu	184	18	the	the	DT
cord-260508-z11exbyu	184	19	23	23	CD
cord-260508-z11exbyu	184	20	additional	additional	JJ
cord-260508-z11exbyu	184	21	assumption	assumption	NN
cord-260508-z11exbyu	184	22	of	of	IN
cord-260508-z11exbyu	184	23	a	a	DT
cord-260508-z11exbyu	184	24	mutational	mutational	JJ
cord-260508-z11exbyu	184	25	hotspot	hotspot	NN
cord-260508-z11exbyu	184	26	to	to	TO
cord-260508-z11exbyu	184	27	account	account	VB
cord-260508-z11exbyu	184	28	for	for	IN
cord-260508-z11exbyu	184	29	the	the	DT
cord-260508-z11exbyu	184	30	high	high	JJ
cord-260508-z11exbyu	184	31	level	level	NN
cord-260508-z11exbyu	184	32	of	of	IN
cord-260508-z11exbyu	184	33	divergence	divergence	NN
cord-260508-z11exbyu	184	34	in	in	IN
cord-260508-z11exbyu	184	35	the	the	DT
cord-260508-z11exbyu	184	36	24	24	CD
cord-260508-z11exbyu	184	37	region	region	NN
cord-260508-z11exbyu	184	38	between	between	IN
cord-260508-z11exbyu	184	39	SARS	SARS	NNP
cord-260508-z11exbyu	184	40	-	-	HYPH
cord-260508-z11exbyu	184	41	CoV-2	CoV-2	NNP
cord-260508-z11exbyu	184	42	and	and	CC
cord-260508-z11exbyu	184	43	the	the	DT
cord-260508-z11exbyu	184	44	donor	donor	NN
cord-260508-z11exbyu	184	45	pangolin	pangolin	NN
cord-260508-z11exbyu	184	46	viral	viral	JJ
cord-260508-z11exbyu	184	47	genome	genome	NN
cord-260508-z11exbyu	184	48	.	.	.
cord-260508-z11exbyu	185	1	To	to	TO
cord-260508-z11exbyu	185	2	fully	fully	RB
cord-260508-z11exbyu	185	3	distinguish	distinguish	VB
cord-260508-z11exbyu	185	4	between	between	IN
cord-260508-z11exbyu	185	5	25	25	CD
cord-260508-z11exbyu	185	6	these	these	DT
cord-260508-z11exbyu	185	7	hypotheses	hypothesis	NNS
cord-260508-z11exbyu	185	8	,	,	,
cord-260508-z11exbyu	185	9	additional	additional	JJ
cord-260508-z11exbyu	185	10	strains	strain	NNS
cord-260508-z11exbyu	185	11	would	would	MD
cord-260508-z11exbyu	185	12	have	have	VB
cord-260508-z11exbyu	185	13	to	to	TO
cord-260508-z11exbyu	185	14	be	be	VB
cord-260508-z11exbyu	185	15	discovered	discover	VBN
cord-260508-z11exbyu	185	16	that	that	IN
cord-260508-z11exbyu	185	17	either	either	DT
cord-260508-z11exbyu	185	18	are	be	VBP
cord-260508-z11exbyu	185	19	candidates	candidate	NNS
cord-260508-z11exbyu	185	20	for	for	IN
cord-260508-z11exbyu	185	21	introgression	introgression	NN
cord-260508-z11exbyu	185	22	into	into	IN
cord-260508-z11exbyu	185	23	RaTG13	ratg13	NN
cord-260508-z11exbyu	185	24	or	or	CC
cord-260508-z11exbyu	185	25	can	can	MD
cord-260508-z11exbyu	185	26	break	break	VB
cord-260508-z11exbyu	185	27	up	up	RP
cord-260508-z11exbyu	185	28	the	the	DT
cord-260508-z11exbyu	185	29	lineage	lineage	NN
cord-260508-z11exbyu	185	30	in	in	IN
cord-260508-z11exbyu	185	31	the	the	DT
cord-260508-z11exbyu	185	32	phylogenetic	phylogenetic	JJ
cord-260508-z11exbyu	185	33	tree	tree	NN
cord-260508-z11exbyu	185	34	between	between	IN
cord-260508-z11exbyu	185	35	1	1	CD
cord-260508-z11exbyu	185	36	pangolin	pangolin	NN
cord-260508-z11exbyu	185	37	viruses	virus	NNS
cord-260508-z11exbyu	185	38	and	and	CC
cord-260508-z11exbyu	185	39	RaTG13	ratg13	NN
cord-260508-z11exbyu	185	40	.	.	.
cord-260508-z11exbyu	186	1	2	2	LS
cord-260508-z11exbyu	187	1	The	the	DT
cord-260508-z11exbyu	187	2	fact	fact	NN
cord-260508-z11exbyu	187	3	that	that	IN
cord-260508-z11exbyu	187	4	synonymous	synonymous	JJ
cord-260508-z11exbyu	187	5	divergence	divergence	NN
cord-260508-z11exbyu	187	6	to	to	IN
cord-260508-z11exbyu	187	7	the	the	DT
cord-260508-z11exbyu	187	8	outgroups	outgroup	NNS
cord-260508-z11exbyu	187	9	,	,	,
cord-260508-z11exbyu	187	10	RaTG13	RaTG13	NNP
cord-260508-z11exbyu	187	11	and	and	CC
cord-260508-z11exbyu	187	12	RmYN02	rmyn02	UH
cord-260508-z11exbyu	187	13	,	,	,
cord-260508-z11exbyu	187	14	is	be	VBZ
cord-260508-z11exbyu	187	15	not	not	RB
cord-260508-z11exbyu	187	16	3	3	CD
cord-260508-z11exbyu	187	17	fully	fully	RB
cord-260508-z11exbyu	187	18	saturated	saturate	VBN
cord-260508-z11exbyu	187	19	,	,	,
cord-260508-z11exbyu	187	20	provides	provide	VBZ
cord-260508-z11exbyu	187	21	an	an	DT
cord-260508-z11exbyu	187	22	opportunity	opportunity	NN
cord-260508-z11exbyu	187	23	for	for	IN
cord-260508-z11exbyu	187	24	a	a	DT
cord-260508-z11exbyu	187	25	number	number	NN
cord-260508-z11exbyu	187	26	of	of	IN
cord-260508-z11exbyu	187	27	different	different	JJ
cord-260508-z11exbyu	187	28	analyses	analysis	NNS
cord-260508-z11exbyu	187	29	.	.	.
cord-260508-z11exbyu	188	1	First	first	RB
cord-260508-z11exbyu	188	2	,	,	,
cord-260508-z11exbyu	188	3	we	-PRON-	PRP
cord-260508-z11exbyu	188	4	can	can	MD
cord-260508-z11exbyu	188	5	date	date	VB
cord-260508-z11exbyu	188	6	the	the	DT
cord-260508-z11exbyu	188	7	4	4	CD
cord-260508-z11exbyu	188	8	time	time	NN
cord-260508-z11exbyu	188	9	of	of	IN
cord-260508-z11exbyu	188	10	the	the	DT
cord-260508-z11exbyu	188	11	divergence	divergence	NN
cord-260508-z11exbyu	188	12	between	between	IN
cord-260508-z11exbyu	188	13	the	the	DT
cord-260508-z11exbyu	188	14	bat	bat	NN
cord-260508-z11exbyu	188	15	viruses	virus	NNS
cord-260508-z11exbyu	188	16	and	and	CC
cord-260508-z11exbyu	188	17	SARS	SARS	NNP
cord-260508-z11exbyu	188	18	-	-	HYPH
cord-260508-z11exbyu	188	19	CoV-2	CoV-2	NNP
cord-260508-z11exbyu	188	20	using	use	VBG
cord-260508-z11exbyu	188	21	synonymous	synonymous	JJ
cord-260508-z11exbyu	188	22	mutations	mutation	NNS
cord-260508-z11exbyu	188	23	5	5	CD
cord-260508-z11exbyu	188	24	alone	alone	RB
cord-260508-z11exbyu	188	25	.	.	.
cord-260508-z11exbyu	189	1	In	in	IN
cord-260508-z11exbyu	189	2	doing	do	VBG
cord-260508-z11exbyu	189	3	so	so	RB
cord-260508-z11exbyu	189	4	,	,	,
cord-260508-z11exbyu	189	5	we	-PRON-	PRP
cord-260508-z11exbyu	189	6	find	find	VBP
cord-260508-z11exbyu	189	7	estimates	estimate	NNS
cord-260508-z11exbyu	189	8	of	of	IN
cord-260508-z11exbyu	189	9	51.71	51.71	CD
cord-260508-z11exbyu	189	10	years	year	NNS
cord-260508-z11exbyu	189	11	(	(	-LRB-
cord-260508-z11exbyu	189	12	95	95	CD
cord-260508-z11exbyu	189	13	%	%	NN
cord-260508-z11exbyu	189	14	C.I.	C.I.	NNP
cord-260508-z11exbyu	189	15	,	,	,
cord-260508-z11exbyu	189	16	28.11	28.11	CD
cord-260508-z11exbyu	189	17	-	-	SYM
cord-260508-z11exbyu	189	18	75.31	75.31	CD
cord-260508-z11exbyu	189	19	)	)	-RRB-
cord-260508-z11exbyu	189	20	and	and	CC
cord-260508-z11exbyu	189	21	37.02	37.02	CD
cord-260508-z11exbyu	189	22	years	year	NNS
cord-260508-z11exbyu	189	23	6	6	CD
cord-260508-z11exbyu	189	24	(	(	-LRB-
cord-260508-z11exbyu	189	25	95	95	CD
cord-260508-z11exbyu	189	26	%	%	NN
cord-260508-z11exbyu	189	27	C.I.	C.I.	NNP
cord-260508-z11exbyu	189	28	,	,	,
cord-260508-z11exbyu	189	29	18.19	18.19	CD
cord-260508-z11exbyu	189	30	-	-	SYM
cord-260508-z11exbyu	189	31	55.85	55.85	CD
cord-260508-z11exbyu	189	32	)	)	-RRB-
cord-260508-z11exbyu	189	33	,	,	,
cord-260508-z11exbyu	189	34	respectively	respectively	RB
cord-260508-z11exbyu	189	35	.	.	.
cord-260508-z11exbyu	190	1	Most	Most	JJS
cord-260508-z11exbyu	190	2	of	of	IN
cord-260508-z11exbyu	190	3	the	the	DT
cord-260508-z11exbyu	190	4	uncertainty	uncertainty	NN
cord-260508-z11exbyu	190	5	in	in	IN
cord-260508-z11exbyu	190	6	these	these	DT
cord-260508-z11exbyu	190	7	estimates	estimate	NNS
cord-260508-z11exbyu	190	8	comes	come	VBZ
cord-260508-z11exbyu	190	9	from	from	IN
cord-260508-z11exbyu	190	10	7	7	CD
cord-260508-z11exbyu	190	11	uncertainty	uncertainty	NN
cord-260508-z11exbyu	190	12	in	in	IN
cord-260508-z11exbyu	190	13	the	the	DT
cord-260508-z11exbyu	190	14	estimate	estimate	NN
cord-260508-z11exbyu	190	15	of	of	IN
cord-260508-z11exbyu	190	16	the	the	DT
cord-260508-z11exbyu	190	17	mutation	mutation	NN
cord-260508-z11exbyu	190	18	rate	rate	NN
cord-260508-z11exbyu	190	19	reported	report	VBN
cord-260508-z11exbyu	190	20	for	for	IN
cord-260508-z11exbyu	190	21	SARS	SARS	NNP
cord-260508-z11exbyu	190	22	-	-	HYPH
cord-260508-z11exbyu	190	23	CoV-2	CoV-2	NNP
cord-260508-z11exbyu	190	24	.	.	.
cord-260508-z11exbyu	191	1	As	as	IN
cord-260508-z11exbyu	191	2	more	more	JJR
cord-260508-z11exbyu	191	3	data	datum	NNS
cord-260508-z11exbyu	191	4	is	be	VBZ
cord-260508-z11exbyu	191	5	being	be	VBG
cord-260508-z11exbyu	191	6	8	8	CD
cord-260508-z11exbyu	191	7	produced	produce	VBN
cord-260508-z11exbyu	191	8	for	for	IN
cord-260508-z11exbyu	191	9	SARS	SARS	NNP
cord-260508-z11exbyu	191	10	-	-	HYPH
cord-260508-z11exbyu	191	11	CoV-2	CoV-2	NNP
cord-260508-z11exbyu	191	12	,	,	,
cord-260508-z11exbyu	191	13	the	the	DT
cord-260508-z11exbyu	191	14	estimate	estimate	NN
cord-260508-z11exbyu	191	15	should	should	MD
cord-260508-z11exbyu	191	16	become	become	VB
cord-260508-z11exbyu	191	17	more	more	RBR
cord-260508-z11exbyu	191	18	precise	precise	JJ
cord-260508-z11exbyu	191	19	and	and	CC
cord-260508-z11exbyu	191	20	the	the	DT
cord-260508-z11exbyu	191	21	confidence	confidence	NN
cord-260508-z11exbyu	191	22	9	9	CD
cord-260508-z11exbyu	191	23	interval	interval	NN
cord-260508-z11exbyu	191	24	significantly	significantly	RB
cord-260508-z11exbyu	191	25	narrowed	narrow	VBD
cord-260508-z11exbyu	191	26	.	.	.
cord-260508-z11exbyu	192	1	We	-PRON-	PRP
cord-260508-z11exbyu	192	2	note	note	VBP
cord-260508-z11exbyu	192	3	that	that	IN
cord-260508-z11exbyu	192	4	the	the	DT
cord-260508-z11exbyu	192	5	mutation	mutation	NN
cord-260508-z11exbyu	192	6	rate	rate	NN
cord-260508-z11exbyu	192	7	we	-PRON-	PRP
cord-260508-z11exbyu	192	8	use	use	VBP
cord-260508-z11exbyu	192	9	here	here	RB
cord-260508-z11exbyu	192	10	are	be	VBP
cord-260508-z11exbyu	192	11	estimated	estimate	VBN
cord-260508-z11exbyu	192	12	based	base	VBN
cord-260508-z11exbyu	192	13	10	10	CD
cord-260508-z11exbyu	192	14	on	on	IN
cord-260508-z11exbyu	192	15	the	the	DT
cord-260508-z11exbyu	192	16	entire	entire	JJ
cord-260508-z11exbyu	192	17	genome	genome	NN
cord-260508-z11exbyu	192	18	,	,	,
cord-260508-z11exbyu	192	19	which	which	WDT
cord-260508-z11exbyu	192	20	may	may	MD
cord-260508-z11exbyu	192	21	differ	differ	VB
cord-260508-z11exbyu	192	22	from	from	IN
cord-260508-z11exbyu	192	23	that	that	DT
cord-260508-z11exbyu	192	24	in	in	IN
cord-260508-z11exbyu	192	25	non	non	JJ
cord-260508-z11exbyu	192	26	-	-	JJ
cord-260508-z11exbyu	192	27	recombination	recombination	JJ
cord-260508-z11exbyu	192	28	regions	region	NNS
cord-260508-z11exbyu	192	29	.	.	.
cord-260508-z11exbyu	193	1	To	to	TO
cord-260508-z11exbyu	193	2	address	address	VB
cord-260508-z11exbyu	193	3	this	this	DT
cord-260508-z11exbyu	193	4	11	11	CD
cord-260508-z11exbyu	193	5	problem	problem	NN
cord-260508-z11exbyu	193	6	,	,	,
cord-260508-z11exbyu	193	7	we	-PRON-	PRP
cord-260508-z11exbyu	193	8	downloaded	download	VBD
cord-260508-z11exbyu	193	9	all	all	PDT
cord-260508-z11exbyu	193	10	the	the	DT
cord-260508-z11exbyu	193	11	SARS	SARS	NNP
cord-260508-z11exbyu	193	12	-	-	HYPH
cord-260508-z11exbyu	193	13	CoV-2	CoV-2	NNP
cord-260508-z11exbyu	193	14	sequences	sequence	NNS
cord-260508-z11exbyu	193	15	that	that	WDT
cord-260508-z11exbyu	193	16	are	be	VBP
cord-260508-z11exbyu	193	17	available	available	JJ
cord-260508-z11exbyu	193	18	until	until	IN
cord-260508-z11exbyu	193	19	2020	2020	CD
cord-260508-z11exbyu	193	20	-	-	:
cord-260508-z11exbyu	193	21	08-	08-	CD
cord-260508-z11exbyu	193	22	17	17	CD
cord-260508-z11exbyu	193	23	12	12	CD
cord-260508-z11exbyu	193	24	from	from	IN
cord-260508-z11exbyu	193	25	GISAID	GISAID	NNP
cord-260508-z11exbyu	193	26	,	,	,
cord-260508-z11exbyu	193	27	and	and	CC
cord-260508-z11exbyu	193	28	obtained	obtain	VBD
cord-260508-z11exbyu	193	29	an	an	DT
cord-260508-z11exbyu	193	30	estimate	estimate	NN
cord-260508-z11exbyu	193	31	of	of	IN
cord-260508-z11exbyu	193	32	1:0.81	1:0.81	CD
cord-260508-z11exbyu	193	33	for	for	IN
cord-260508-z11exbyu	193	34	the	the	DT
cord-260508-z11exbyu	193	35	ratio	ratio	NN
cord-260508-z11exbyu	193	36	of	of	IN
cord-260508-z11exbyu	193	37	mutation	mutation	NN
cord-260508-z11exbyu	193	38	rates	rate	NNS
cord-260508-z11exbyu	193	39	in	in	IN
cord-260508-z11exbyu	193	40	the	the	DT
cord-260508-z11exbyu	193	41	13	13	CD
cord-260508-z11exbyu	193	42	recombination	recombination	NN
cord-260508-z11exbyu	193	43	and	and	CC
cord-260508-z11exbyu	193	44	non	non	JJ
cord-260508-z11exbyu	193	45	-	-	JJ
cord-260508-z11exbyu	193	46	recombination	recombination	JJ
cord-260508-z11exbyu	193	47	regions	region	NNS
cord-260508-z11exbyu	193	48	,	,	,
cord-260508-z11exbyu	193	49	using	use	VBG
cord-260508-z11exbyu	193	50	the	the	DT
cord-260508-z11exbyu	193	51	"	"	``
cord-260508-z11exbyu	193	52	GTRGAMMA	GTRGAMMA	NNP
cord-260508-z11exbyu	193	53	"	"	''
cord-260508-z11exbyu	193	54	model	model	NN
cord-260508-z11exbyu	193	55	implemented	implement	VBN
cord-260508-z11exbyu	193	56	in	in	IN
cord-260508-z11exbyu	193	57	14	14	CD
cord-260508-z11exbyu	193	58	the	the	DT
cord-260508-z11exbyu	193	59	RAxML	RAxML	NNS
cord-260508-z11exbyu	193	60	(	(	-LRB-
cord-260508-z11exbyu	193	61	Stamatakis	Stamatakis	NNP
cord-260508-z11exbyu	193	62	2014	2014	CD
cord-260508-z11exbyu	193	63	)	)	-RRB-
cord-260508-z11exbyu	193	64	.	.	.
cord-260508-z11exbyu	194	1	Given	give	VBN
cord-260508-z11exbyu	194	2	the	the	DT
cord-260508-z11exbyu	194	3	length	length	NN
cord-260508-z11exbyu	194	4	ratio	ratio	NN
cord-260508-z11exbyu	194	5	between	between	IN
cord-260508-z11exbyu	194	6	the	the	DT
cord-260508-z11exbyu	194	7	two	two	CD
cord-260508-z11exbyu	194	8	partitions	partition	NNS
cord-260508-z11exbyu	194	9	is	be	VBZ
cord-260508-z11exbyu	194	10	1:4	1:4	CD
cord-260508-z11exbyu	194	11	,	,	,
cord-260508-z11exbyu	194	12	the	the	DT
cord-260508-z11exbyu	194	13	15	15	CD
cord-260508-z11exbyu	194	14	difference	difference	NN
cord-260508-z11exbyu	194	15	between	between	IN
cord-260508-z11exbyu	194	16	the	the	DT
cord-260508-z11exbyu	194	17	partitions	partition	NNS
cord-260508-z11exbyu	194	18	will	will	MD
cord-260508-z11exbyu	194	19	cause	cause	VB
cord-260508-z11exbyu	194	20	a	a	DT
cord-260508-z11exbyu	194	21	slight	slight	JJ
cord-260508-z11exbyu	194	22	overestimate	overestimate	NN
cord-260508-z11exbyu	194	23	of	of	IN
cord-260508-z11exbyu	194	24	the	the	DT
cord-260508-z11exbyu	194	25	mutation	mutation	NN
cord-260508-z11exbyu	194	26	rate	rate	NN
cord-260508-z11exbyu	194	27	by	by	IN
cord-260508-z11exbyu	194	28	~5	~5	CD
cord-260508-z11exbyu	194	29	%	%	NN
cord-260508-z11exbyu	194	30	,	,	,
cord-260508-z11exbyu	194	31	16	16	CD
cord-260508-z11exbyu	194	32	which	which	WDT
cord-260508-z11exbyu	194	33	is	be	VBZ
cord-260508-z11exbyu	194	34	relatively	relatively	RB
cord-260508-z11exbyu	194	35	small	small	JJ
cord-260508-z11exbyu	194	36	compared	compare	VBN
cord-260508-z11exbyu	194	37	to	to	IN
cord-260508-z11exbyu	194	38	the	the	DT
cord-260508-z11exbyu	194	39	confidence	confidence	NN
cord-260508-z11exbyu	194	40	intervals	interval	NNS
cord-260508-z11exbyu	194	41	and	and	CC
cord-260508-z11exbyu	194	42	the	the	DT
cord-260508-z11exbyu	194	43	potential	potential	NN
cord-260508-z11exbyu	194	44	for	for	IN
cord-260508-z11exbyu	194	45	other	other	JJ
cord-260508-z11exbyu	194	46	17	17	CD
cord-260508-z11exbyu	194	47	unknown	unknown	JJ
cord-260508-z11exbyu	194	48	sources	source	NNS
cord-260508-z11exbyu	194	49	of	of	IN
cord-260508-z11exbyu	194	50	uncertainty	uncertainty	NN
cord-260508-z11exbyu	194	51	.	.	.
cord-260508-z11exbyu	195	1	However	however	RB
cord-260508-z11exbyu	195	2	,	,	,
cord-260508-z11exbyu	195	3	we	-PRON-	PRP
cord-260508-z11exbyu	195	4	warn	warn	VBP
cord-260508-z11exbyu	195	5	that	that	IN
cord-260508-z11exbyu	195	6	a	a	DT
cord-260508-z11exbyu	195	7	residual	residual	JJ
cord-260508-z11exbyu	195	8	cause	cause	NN
cord-260508-z11exbyu	195	9	of	of	IN
cord-260508-z11exbyu	195	10	unmodeled	unmodele	VBN
cord-260508-z11exbyu	195	11	18	18	CD
cord-260508-z11exbyu	195	12	statistical	statistical	JJ
cord-260508-z11exbyu	195	13	uncertainty	uncertainty	NN
cord-260508-z11exbyu	195	14	is	be	VBZ
cord-260508-z11exbyu	195	15	deviations	deviation	NNS
cord-260508-z11exbyu	195	16	from	from	IN
cord-260508-z11exbyu	195	17	the	the	DT
cord-260508-z11exbyu	195	18	molecular	molecular	JJ
cord-260508-z11exbyu	195	19	clock	clock	NN
cord-260508-z11exbyu	195	20	.	.	.
cord-260508-z11exbyu	196	1	Variation	variation	NN
cord-260508-z11exbyu	196	2	in	in	IN
cord-260508-z11exbyu	196	3	the	the	DT
cord-260508-z11exbyu	196	4	molecular	molecular	JJ
cord-260508-z11exbyu	196	5	clock	clock	NN
cord-260508-z11exbyu	196	6	19	19	CD
cord-260508-z11exbyu	196	7	could	could	MD
cord-260508-z11exbyu	196	8	be	be	VB
cord-260508-z11exbyu	196	9	modeled	model	VBN
cord-260508-z11exbyu	196	10	statistically	statistically	RB
cord-260508-z11exbyu	196	11	(	(	-LRB-
cord-260508-z11exbyu	196	12	see	see	VB
cord-260508-z11exbyu	196	13	e.g.	e.g.	RB
cord-260508-z11exbyu	196	14	,	,	,
cord-260508-z11exbyu	196	15	(	(	-LRB-
cord-260508-z11exbyu	196	16	Drummond	Drummond	NNP
cord-260508-z11exbyu	196	17	,	,	,
cord-260508-z11exbyu	196	18	et	et	NNP
cord-260508-z11exbyu	196	19	al	al	NNP
cord-260508-z11exbyu	196	20	.	.	.
cord-260508-z11exbyu	196	21	2006	2006	CD
cord-260508-z11exbyu	196	22	)	)	-RRB-
cord-260508-z11exbyu	196	23	and	and	CC
cord-260508-z11exbyu	196	24	(	(	-LRB-
cord-260508-z11exbyu	196	25	Lartillot	Lartillot	NNP
cord-260508-z11exbyu	196	26	,	,	,
cord-260508-z11exbyu	196	27	et	et	NNP
cord-260508-z11exbyu	196	28	al	al	NNP
cord-260508-z11exbyu	196	29	.	.	.
cord-260508-z11exbyu	196	30	2016	2016	CD
cord-260508-z11exbyu	196	31	)	)	-RRB-
cord-260508-z11exbyu	196	32	)	)	-RRB-
cord-260508-z11exbyu	196	33	,	,	,
cord-260508-z11exbyu	196	34	but	but	CC
cord-260508-z11exbyu	196	35	20	20	CD
cord-260508-z11exbyu	196	36	the	the	DT
cord-260508-z11exbyu	196	37	fact	fact	NN
cord-260508-z11exbyu	196	38	that	that	IN
cord-260508-z11exbyu	196	39	synonymous	synonymous	JJ
cord-260508-z11exbyu	196	40	mutations	mutation	NNS
cord-260508-z11exbyu	196	41	are	be	VBP
cord-260508-z11exbyu	196	42	mostly	mostly	RB
cord-260508-z11exbyu	196	43	saturated	saturated	JJ
cord-260508-z11exbyu	196	44	for	for	IN
cord-260508-z11exbyu	196	45	more	more	RBR
cord-260508-z11exbyu	196	46	divergent	divergent	JJ
cord-260508-z11exbyu	196	47	viruses	virus	NNS
cord-260508-z11exbyu	196	48	that	that	WDT
cord-260508-z11exbyu	196	49	would	would	MD
cord-260508-z11exbyu	196	50	21	21	CD
cord-260508-z11exbyu	196	51	be	be	VB
cord-260508-z11exbyu	196	52	needed	need	VBN
cord-260508-z11exbyu	196	53	to	to	TO
cord-260508-z11exbyu	196	54	train	train	VB
cord-260508-z11exbyu	196	55	such	such	JJ
cord-260508-z11exbyu	196	56	models	model	NNS
cord-260508-z11exbyu	196	57	,	,	,
cord-260508-z11exbyu	196	58	is	be	VBZ
cord-260508-z11exbyu	196	59	a	a	DT
cord-260508-z11exbyu	196	60	challenge	challenge	NN
cord-260508-z11exbyu	196	61	to	to	IN
cord-260508-z11exbyu	196	62	such	such	JJ
cord-260508-z11exbyu	196	63	efforts	effort	NNS
cord-260508-z11exbyu	196	64	.	.	.
cord-260508-z11exbyu	197	1	On	on	IN
cord-260508-z11exbyu	197	2	the	the	DT
cord-260508-z11exbyu	197	3	positive	positive	JJ
cord-260508-z11exbyu	197	4	side	side	NN
cord-260508-z11exbyu	197	5	,	,	,
cord-260508-z11exbyu	197	6	we	-PRON-	PRP
cord-260508-z11exbyu	197	7	note	note	VBP
cord-260508-z11exbyu	197	8	that	that	IN
cord-260508-z11exbyu	197	9	22	22	CD
cord-260508-z11exbyu	197	10	the	the	DT
cord-260508-z11exbyu	197	11	estimates	estimate	NNS
cord-260508-z11exbyu	197	12	of	of	IN
cord-260508-z11exbyu	197	13	d	d	NNP
cord-260508-z11exbyu	197	14	S	S	NNP
cord-260508-z11exbyu	197	15	given	give	VBN
cord-260508-z11exbyu	197	16	in	in	IN
cord-260508-z11exbyu	197	17	Table	Table	NNP
cord-260508-z11exbyu	197	18	3	3	CD
cord-260508-z11exbyu	197	19	very	very	RB
cord-260508-z11exbyu	197	20	different	different	JJ
cord-260508-z11exbyu	197	21	approach	approach	NN
cord-260508-z11exbyu	197	22	based	base	VBN
cord-260508-z11exbyu	197	23	on	on	IN
cord-260508-z11exbyu	197	24	including	include	VBG
cord-260508-z11exbyu	197	25	more	more	JJR
cord-260508-z11exbyu	197	26	divergent	divergent	JJ
cord-260508-z11exbyu	197	27	sequences	sequence	NNS
cord-260508-z11exbyu	197	28	and	and	CC
cord-260508-z11exbyu	197	29	applying	apply	VBG
cord-260508-z11exbyu	197	30	a	a	DT
cord-260508-z11exbyu	197	31	relaxed	relaxed	JJ
cord-260508-z11exbyu	197	32	25	25	CD
cord-260508-z11exbyu	197	33	molecular	molecular	JJ
cord-260508-z11exbyu	197	34	clock	clock	NN
cord-260508-z11exbyu	197	35	.	.	.
cord-260508-z11exbyu	198	1	We	-PRON-	PRP
cord-260508-z11exbyu	198	2	see	see	VBP
cord-260508-z11exbyu	198	3	the	the	DT
cord-260508-z11exbyu	198	4	two	two	CD
cord-260508-z11exbyu	198	5	approaches	approach	NNS
cord-260508-z11exbyu	198	6	as	as	IN
cord-260508-z11exbyu	198	7	being	be	VBG
cord-260508-z11exbyu	198	8	complimentary	complimentary	JJ
cord-260508-z11exbyu	198	9	.	.	.
cord-260508-z11exbyu	199	1	In	in	IN
cord-260508-z11exbyu	199	2	the	the	DT
cord-260508-z11exbyu	199	3	traditional	traditional	JJ
cord-260508-z11exbyu	199	4	relaxed	relaxed	JJ
cord-260508-z11exbyu	199	5	molecular	molecular	JJ
cord-260508-z11exbyu	199	6	clock	clock	NN
cord-260508-z11exbyu	199	7	approach	approach	NN
cord-260508-z11exbyu	199	8	more	more	RBR
cord-260508-z11exbyu	199	9	divergent	divergent	JJ
cord-260508-z11exbyu	199	10	sequences	sequence	NNS
cord-260508-z11exbyu	199	11	are	be	VBP
cord-260508-z11exbyu	199	12	needed	need	VBN
cord-260508-z11exbyu	199	13	that	that	WDT
cord-260508-z11exbyu	199	14	may	may	MD
cord-260508-z11exbyu	199	15	introduce	introduce	VB
cord-260508-z11exbyu	199	16	more	more	JJR
cord-260508-z11exbyu	199	17	1	1	CD
cord-260508-z11exbyu	199	18	uncertainty	uncertainty	NN
cord-260508-z11exbyu	199	19	due	due	JJ
cord-260508-z11exbyu	199	20	to	to	IN
cord-260508-z11exbyu	199	21	various	various	JJ
cord-260508-z11exbyu	199	22	idiosyncrasies	idiosyncrasy	NNS
cord-260508-z11exbyu	199	23	such	such	JJ
cord-260508-z11exbyu	199	24	as	as	IN
cord-260508-z11exbyu	199	25	alignment	alignment	NN
cord-260508-z11exbyu	199	26	errors	error	NNS
cord-260508-z11exbyu	199	27	.	.	.
cord-260508-z11exbyu	200	1	Furthermore	furthermore	RB
cord-260508-z11exbyu	200	2	,	,	,
cord-260508-z11exbyu	200	3	the	the	DT
cord-260508-z11exbyu	200	4	relaxed	relaxed	JJ
cord-260508-z11exbyu	200	5	2	2	CD
cord-260508-z11exbyu	200	6	molecular	molecular	JJ
cord-260508-z11exbyu	200	7	clock	clock	NN
cord-260508-z11exbyu	200	8	uses	use	VBZ
cord-260508-z11exbyu	200	9	both	both	CC
cord-260508-z11exbyu	200	10	synonymous	synonymous	JJ
cord-260508-z11exbyu	200	11	and	and	CC
cord-260508-z11exbyu	200	12	non	non	JJ
cord-260508-z11exbyu	200	13	-	-	JJ
cord-260508-z11exbyu	200	14	synonymous	synonymous	JJ
cord-260508-z11exbyu	200	15	mutations	mutation	NNS
cord-260508-z11exbyu	200	16	and	and	CC
cord-260508-z11exbyu	200	17	is	be	VBZ
cord-260508-z11exbyu	200	18	,	,	,
cord-260508-z11exbyu	200	19	therefore	therefore	RB
cord-260508-z11exbyu	200	20	,	,	,
cord-260508-z11exbyu	200	21	more	more	JJR
cord-260508-z11exbyu	200	22	3	3	CD
cord-260508-z11exbyu	200	23	susceptible	susceptible	JJ
cord-260508-z11exbyu	200	24	to	to	IN
cord-260508-z11exbyu	200	25	the	the	DT
cord-260508-z11exbyu	200	26	effects	effect	NNS
cord-260508-z11exbyu	200	27	of	of	IN
cord-260508-z11exbyu	200	28	selection	selection	NN
cord-260508-z11exbyu	200	29	.	.	.
cord-260508-z11exbyu	201	1	Our	-PRON-	PRP$
cord-260508-z11exbyu	201	2	approach	approach	NN
cord-260508-z11exbyu	201	3	allows	allow	VBZ
cord-260508-z11exbyu	201	4	us	-PRON-	PRP
cord-260508-z11exbyu	201	5	to	to	TO
cord-260508-z11exbyu	201	6	focus	focus	VB
cord-260508-z11exbyu	201	7	on	on	IN
cord-260508-z11exbyu	201	8	just	just	RB
cord-260508-z11exbyu	201	9	the	the	DT
cord-260508-z11exbyu	201	10	relevant	relevant	JJ
cord-260508-z11exbyu	201	11	in-4	in-4	NNP
cord-260508-z11exbyu	201	12	group	group	NN
cord-260508-z11exbyu	201	13	species	specie	NNS
cord-260508-z11exbyu	201	14	and	and	CC
cord-260508-z11exbyu	201	15	to	to	TO
cord-260508-z11exbyu	201	16	use	use	VB
cord-260508-z11exbyu	201	17	only	only	RB
cord-260508-z11exbyu	201	18	synonymous	synonymous	JJ
cord-260508-z11exbyu	201	19	mutations	mutation	NNS
cord-260508-z11exbyu	201	20	.	.	.
cord-260508-z11exbyu	202	1	The	the	DT
cord-260508-z11exbyu	202	2	disadvantage	disadvantage	NN
cord-260508-z11exbyu	202	3	is	be	VBZ
cord-260508-z11exbyu	202	4	that	that	IN
cord-260508-z11exbyu	202	5	we	-PRON-	PRP
cord-260508-z11exbyu	202	6	can	can	MD
cord-260508-z11exbyu	202	7	not	not	RB
cord-260508-z11exbyu	202	8	5	5	CD
cord-260508-z11exbyu	202	9	accommodate	accommodate	VB
cord-260508-z11exbyu	202	10	a	a	DT
cord-260508-z11exbyu	202	11	relaxed	relaxed	JJ
cord-260508-z11exbyu	202	12	molecular	molecular	JJ
cord-260508-z11exbyu	202	13	clock	clock	NN
cord-260508-z11exbyu	202	14	.	.	.
cord-260508-z11exbyu	203	1	However	however	RB
cord-260508-z11exbyu	203	2	,	,	,
cord-260508-z11exbyu	203	3	the	the	DT
cord-260508-z11exbyu	203	4	fact	fact	NN
cord-260508-z11exbyu	203	5	that	that	IN
cord-260508-z11exbyu	203	6	both	both	DT
cord-260508-z11exbyu	203	7	approaches	approach	NNS
cord-260508-z11exbyu	203	8	provide	provide	VBP
cord-260508-z11exbyu	203	9	6	6	CD
cord-260508-z11exbyu	203	10	similar	similar	JJ
cord-260508-z11exbyu	203	11	estimates	estimate	NNS
cord-260508-z11exbyu	203	12	is	be	VBZ
cord-260508-z11exbyu	203	13	reassuring	reassure	VBG
cord-260508-z11exbyu	203	14	and	and	CC
cord-260508-z11exbyu	203	15	suggests	suggest	VBZ
cord-260508-z11exbyu	203	16	that	that	IN
cord-260508-z11exbyu	203	17	neither	neither	DT
cord-260508-z11exbyu	203	18	idiosyncrasies	idiosyncrasy	NNS
cord-260508-z11exbyu	203	19	of	of	IN
cord-260508-z11exbyu	203	20	divergent	divergent	JJ
cord-260508-z11exbyu	203	21	sequences	sequence	NNS
cord-260508-z11exbyu	203	22	,	,	,
cord-260508-z11exbyu	203	23	7	7	CD
cord-260508-z11exbyu	203	24	natural	natural	JJ
cord-260508-z11exbyu	203	25	selection	selection	NN
cord-260508-z11exbyu	203	26	,	,	,
cord-260508-z11exbyu	203	27	or	or	CC
cord-260508-z11exbyu	203	28	deviations	deviation	NNS
cord-260508-z11exbyu	203	29	from	from	IN
cord-260508-z11exbyu	203	30	a	a	DT
cord-260508-z11exbyu	203	31	molecular	molecular	JJ
cord-260508-z11exbyu	203	32	clock	clock	NN
cord-260508-z11exbyu	203	33	has	have	VBZ
cord-260508-z11exbyu	203	34	led	lead	VBN
cord-260508-z11exbyu	203	35	to	to	IN
cord-260508-z11exbyu	203	36	grossly	grossly	RB
cord-260508-z11exbyu	203	37	misleading	misleading	JJ
cord-260508-z11exbyu	203	38	conclusions	conclusion	NNS
cord-260508-z11exbyu	203	39	8	8	CD
cord-260508-z11exbyu	204	1	Another	another	DT
cord-260508-z11exbyu	204	2	advantage	advantage	NN
cord-260508-z11exbyu	204	3	of	of	IN
cord-260508-z11exbyu	204	4	estimation	estimation	NN
cord-260508-z11exbyu	204	5	of	of	IN
cord-260508-z11exbyu	204	6	synonymous	synonymous	JJ
cord-260508-z11exbyu	204	7	and	and	CC
cord-260508-z11exbyu	204	8	nonsynonymous	nonsynonymous	JJ
cord-260508-z11exbyu	204	9	rates	rate	NNS
cord-260508-z11exbyu	204	10	in	in	IN
cord-260508-z11exbyu	204	11	the	the	DT
cord-260508-z11exbyu	204	12	9	9	CD
cord-260508-z11exbyu	204	13	outgroup	outgroup	NN
cord-260508-z11exbyu	204	14	lineage	lineage	NN
cord-260508-z11exbyu	204	15	,	,	,
cord-260508-z11exbyu	204	16	is	be	VBZ
cord-260508-z11exbyu	204	17	that	that	IN
cord-260508-z11exbyu	204	18	it	-PRON-	PRP
cord-260508-z11exbyu	204	19	can	can	MD
cord-260508-z11exbyu	204	20	provide	provide	VB
cord-260508-z11exbyu	204	21	estimates	estimate	NNS
cord-260508-z11exbyu	204	22	of	of	IN
cord-260508-z11exbyu	204	23	the	the	DT
cord-260508-z11exbyu	204	24	mutational	mutational	JJ
cord-260508-z11exbyu	204	25	load	load	NN
cord-260508-z11exbyu	204	26	of	of	IN
cord-260508-z11exbyu	204	27	the	the	DT
cord-260508-z11exbyu	204	28	current	current	JJ
cord-260508-z11exbyu	204	29	pandemic	pandemic	NN
cord-260508-z11exbyu	204	30	.	.	.
cord-260508-z11exbyu	205	1	10	10	CD
cord-260508-z11exbyu	206	1	The	the	DT
cord-260508-z11exbyu	206	2	d	d	NN
cord-260508-z11exbyu	206	3	N	N	NNP
cord-260508-z11exbyu	206	4	/d	/d	NNP
cord-260508-z11exbyu	206	5	S	S	NNP
cord-260508-z11exbyu	206	6	ratio	ratio	NN
cord-260508-z11exbyu	206	7	is	be	VBZ
cord-260508-z11exbyu	206	8	almost	almost	RB
cord-260508-z11exbyu	206	9	14	14	CD
cord-260508-z11exbyu	206	10	times	time	NNS
cord-260508-z11exbyu	206	11	larger	large	JJR
cord-260508-z11exbyu	206	12	in	in	IN
cord-260508-z11exbyu	206	13	the	the	DT
cord-260508-z11exbyu	206	14	circulating	circulate	VBG
cord-260508-z11exbyu	206	15	SARS	SARS	NNP
cord-260508-z11exbyu	206	16	-	-	HYPH
cord-260508-z11exbyu	206	17	CoV-2	CoV-2	NNP
cord-260508-z11exbyu	206	18	strains	strain	NNS
cord-260508-z11exbyu	206	19	than	than	IN
cord-260508-z11exbyu	206	20	in	in	IN
cord-260508-z11exbyu	206	21	the	the	DT
cord-260508-z11exbyu	206	22	11	11	CD
cord-260508-z11exbyu	206	23	outgroup	outgroup	NN
cord-260508-z11exbyu	206	24	lineage	lineage	NN
cord-260508-z11exbyu	206	25	.	.	.
cord-260508-z11exbyu	207	1	While	while	IN
cord-260508-z11exbyu	207	2	some	some	DT
cord-260508-z11exbyu	207	3	of	of	IN
cord-260508-z11exbyu	207	4	this	this	DT
cord-260508-z11exbyu	207	5	difference	difference	NN
cord-260508-z11exbyu	207	6	could	could	MD
cord-260508-z11exbyu	207	7	possibly	possibly	RB
cord-260508-z11exbyu	207	8	be	be	VB
cord-260508-z11exbyu	207	9	explained	explain	VBN
cord-260508-z11exbyu	207	10	by	by	IN
cord-260508-z11exbyu	207	11	positive	positive	JJ
cord-260508-z11exbyu	207	12	12	12	CD
cord-260508-z11exbyu	207	13	selection	selection	NN
cord-260508-z11exbyu	207	14	acting	act	VBG
cord-260508-z11exbyu	207	15	at	at	IN
cord-260508-z11exbyu	207	16	a	a	DT
cord-260508-z11exbyu	207	17	higher	high	JJR
cord-260508-z11exbyu	207	18	rate	rate	NN
cord-260508-z11exbyu	207	19	after	after	IN
cord-260508-z11exbyu	207	20	zoonotic	zoonotic	JJ
cord-260508-z11exbyu	207	21	transfer	transfer	NN
cord-260508-z11exbyu	207	22	,	,	,
cord-260508-z11exbyu	207	23	it	-PRON-	PRP
cord-260508-z11exbyu	207	24	is	be	VBZ
cord-260508-z11exbyu	207	25	perhaps	perhaps	RB
cord-260508-z11exbyu	207	26	more	more	RBR
cord-260508-z11exbyu	207	27	likely	likely	JJ
cord-260508-z11exbyu	207	28	that	that	IN
cord-260508-z11exbyu	207	29	a	a	DT
cord-260508-z11exbyu	207	30	13	13	CD
cord-260508-z11exbyu	207	31	substantial	substantial	JJ
cord-260508-z11exbyu	207	32	proportion	proportion	NN
cord-260508-z11exbyu	207	33	of	of	IN
cord-260508-z11exbyu	207	34	segregating	segregate	VBG
cord-260508-z11exbyu	207	35	nonsynonymous	nonsynonymous	JJ
cord-260508-z11exbyu	207	36	mutations	mutation	NNS
cord-260508-z11exbyu	207	37	are	be	VBP
cord-260508-z11exbyu	207	38	deleterious	deleterious	JJ
cord-260508-z11exbyu	207	39	,	,	,
cord-260508-z11exbyu	207	40	suggesting	suggest	VBG
cord-260508-z11exbyu	207	41	a	a	DT
cord-260508-z11exbyu	207	42	14	14	CD
cord-260508-z11exbyu	207	43	very	very	RB
cord-260508-z11exbyu	207	44	high	high	JJ
cord-260508-z11exbyu	207	45	and	and	CC
cord-260508-z11exbyu	207	46	increasing	increase	VBG
cord-260508-z11exbyu	207	47	mutation	mutation	NN
cord-260508-z11exbyu	207	48	load	load	NN
cord-260508-z11exbyu	207	49	in	in	IN
cord-260508-z11exbyu	207	50	circulating	circulate	VBG
cord-260508-z11exbyu	207	51	SARS	SARS	NNP
cord-260508-z11exbyu	207	52	-	-	HYPH
cord-260508-z11exbyu	207	53	CoV-2	CoV-2	NNP
cord-260508-z11exbyu	207	54	strains	strain	NNS
cord-260508-z11exbyu	207	55	.	.	.
cord-260508-z11exbyu	208	1	15	15	CD
cord-260508-z11exbyu	208	2	16	16	CD
cord-260508-z11exbyu	209	1	We	-PRON-	PRP
cord-260508-z11exbyu	209	2	are	be	VBP
cord-260508-z11exbyu	209	3	grateful	grateful	JJ
cord-260508-z11exbyu	209	4	to	to	IN
cord-260508-z11exbyu	209	5	Dr.	Dr.	NNP
cord-260508-z11exbyu	209	6	E.C	E.C	NNP
cord-260508-z11exbyu	209	7	Holmes	Holmes	NNP
cord-260508-z11exbyu	209	8	for	for	IN
cord-260508-z11exbyu	209	9	providing	provide	VBG
cord-260508-z11exbyu	209	10	the	the	DT
cord-260508-z11exbyu	209	11	genome	genome	NN
cord-260508-z11exbyu	209	12	sequence	sequence	NN
cord-260508-z11exbyu	209	13	of	of	IN
cord-260508-z11exbyu	209	14	RmYN02	RmYN02	NNP
cord-260508-z11exbyu	209	15	.	.	.
cord-260508-z11exbyu	210	1	We	-PRON-	PRP
cord-260508-z11exbyu	210	2	thank	thank	VBP
cord-260508-z11exbyu	210	3	18	18	CD
cord-260508-z11exbyu	210	4	Dr.	Dr.	NNP
cord-260508-z11exbyu	211	1	We	-PRON-	PRP
cord-260508-z11exbyu	211	2	also	also	RB
cord-260508-z11exbyu	211	3	thank	thank	VBP
cord-260508-z11exbyu	211	4	2	2	CD
cord-260508-z11exbyu	211	5	.	.	.
cord-260508-z11exbyu	211	6	replicates	replicate	NNS
cord-260508-z11exbyu	211	7	.	.	.
cord-260508-z11exbyu	212	1	The	the	DT
cord-260508-z11exbyu	212	2	associated	associated	JJ
cord-260508-z11exbyu	212	3	distance	distance	NN
cord-260508-z11exbyu	212	4	matrix	matrix	NN
cord-260508-z11exbyu	212	5	for	for	IN
cord-260508-z11exbyu	212	6	(	(	-LRB-
cord-260508-z11exbyu	212	7	b	b	NN
cord-260508-z11exbyu	212	8	)	)	-RRB-
cord-260508-z11exbyu	213	1	and	and	CC
cord-260508-z11exbyu	213	2	(	(	-LRB-
cord-260508-z11exbyu	213	3	c	c	NN
cord-260508-z11exbyu	213	4	)	)	-RRB-
cord-260508-z11exbyu	213	5	can	can	MD
cord-260508-z11exbyu	213	6	be	be	VB
cord-260508-z11exbyu	213	7	found	find	VBN
cord-260508-z11exbyu	213	8	in	in	IN
cord-260508-z11exbyu	213	9	Table	Table	NNP
cord-260508-z11exbyu	213	10	3	3	CD
cord-260508-z11exbyu	213	11	.	.	.
cord-260508-z11exbyu	213	12	 	 	_SP
cord-260508-z11exbyu	214	1	Basic	basic	JJ
cord-260508-z11exbyu	214	2	local	local	JJ
cord-260508-z11exbyu	214	3	alignment	alignment	NN
cord-260508-z11exbyu	214	4	search	search	NN
cord-260508-z11exbyu	214	5	tool	tool	NN
cord-260508-z11exbyu	215	1	Evolutionary	evolutionary	JJ
cord-260508-z11exbyu	215	2	origins	origin	NNS
cord-260508-z11exbyu	215	3	of	of	IN
cord-260508-z11exbyu	215	4	the	the	DT
cord-260508-z11exbyu	215	5	SARS	SARS	NNP
cord-260508-z11exbyu	215	6	-	-	HYPH
cord-260508-z11exbyu	215	7	CoV-2	CoV-2	NNP
cord-260508-z11exbyu	215	8	sarbecovirus	sarbecovirus	JJ
cord-260508-z11exbyu	215	9	lineage	lineage	NN
cord-260508-z11exbyu	215	10	responsible	responsible	JJ
cord-260508-z11exbyu	215	11	for	for	IN
cord-260508-z11exbyu	215	12	the	the	DT
cord-260508-z11exbyu	215	13	COVID-19	COVID-19	NNP
cord-260508-z11exbyu	215	14	An	an	DT
cord-260508-z11exbyu	215	15	exact	exact	JJ
cord-260508-z11exbyu	215	16	nonparametric	nonparametric	JJ
cord-260508-z11exbyu	215	17	method	method	NN
cord-260508-z11exbyu	215	18	for	for	IN
cord-260508-z11exbyu	215	19	inferring	infer	VBG
cord-260508-z11exbyu	215	20	mosaic	mosaic	NNP
cord-260508-z11exbyu	215	21	10	10	CD
cord-260508-z11exbyu	215	22	structure	structure	NN
cord-260508-z11exbyu	215	23	in	in	IN
cord-260508-z11exbyu	215	24	sequence	sequence	NN
cord-260508-z11exbyu	215	25	triplets	triplet	NNS
cord-260508-z11exbyu	216	1	Hearing	hear	VBG
cord-260508-z11exbyu	216	2	silence	silence	NN
cord-260508-z11exbyu	216	3	:	:	:
cord-260508-z11exbyu	216	4	non	non	JJ
cord-260508-z11exbyu	216	5	-	-	JJ
cord-260508-z11exbyu	216	6	neutral	neutral	JJ
cord-260508-z11exbyu	216	7	evolution	evolution	NN
cord-260508-z11exbyu	216	8	at	at	IN
cord-260508-z11exbyu	216	9	12	12	CD
cord-260508-z11exbyu	216	10	synonymous	synonymous	JJ
cord-260508-z11exbyu	216	11	sites	site	NNS
cord-260508-z11exbyu	216	12	in	in	IN
cord-260508-z11exbyu	216	13	mammals	mammal	NNS
cord-260508-z11exbyu	216	14	Relaxed	relaxed	JJ
cord-260508-z11exbyu	216	15	phylogenetics	phylogenetic	NNS
cord-260508-z11exbyu	216	16	and	and	CC
cord-260508-z11exbyu	216	17	dating	date	VBG
cord-260508-z11exbyu	216	18	with	with	IN
cord-260508-z11exbyu	216	19	14	14	CD
cord-260508-z11exbyu	216	20	confidence	confidence	NN
cord-260508-z11exbyu	216	21	PHYLIP	PHYLIP	NNP
cord-260508-z11exbyu	216	22	(	(	-LRB-
cord-260508-z11exbyu	217	1	Phylogeny	Phylogeny	NNP
cord-260508-z11exbyu	217	2	Inference	Inference	NNP
cord-260508-z11exbyu	217	3	Package	Package	NNP
cord-260508-z11exbyu	217	4	)	)	-RRB-
cord-260508-z11exbyu	217	5	version	version	NN
cord-260508-z11exbyu	217	6	3.7a	3.7a	CD
cord-260508-z11exbyu	217	7	.	.	.
cord-260508-z11exbyu	218	1	Distributed	distribute	VBN
cord-260508-z11exbyu	218	2	by	by	IN
cord-260508-z11exbyu	218	3	the	the	DT
cord-260508-z11exbyu	218	4	16	16	CD
cord-260508-z11exbyu	218	5	author	author	NN
cord-260508-z11exbyu	218	6	MAFFT	MAFFT	NNP
cord-260508-z11exbyu	218	7	multiple	multiple	JJ
cord-260508-z11exbyu	218	8	sequence	sequence	NN
cord-260508-z11exbyu	218	9	alignment	alignment	NN
cord-260508-z11exbyu	218	10	software	software	NN
cord-260508-z11exbyu	218	11	version	version	NN
cord-260508-z11exbyu	218	12	7	7	CD
cord-260508-z11exbyu	218	13	:	:	SYM
cord-260508-z11exbyu	218	14	4	4	CD
cord-260508-z11exbyu	218	15	improvements	improvement	NNS
cord-260508-z11exbyu	218	16	in	in	IN
cord-260508-z11exbyu	218	17	performance	performance	NN
cord-260508-z11exbyu	218	18	and	and	CC
cord-260508-z11exbyu	218	19	usability	usability	NN
cord-260508-z11exbyu	219	1	Identifying	identify	VBG
cord-260508-z11exbyu	219	2	SARS	SARS	NNP
cord-260508-z11exbyu	219	3	-	-	HYPH
cord-260508-z11exbyu	219	4	CoV-2	CoV-2	NNP
cord-260508-z11exbyu	219	5	related	relate	VBN
cord-260508-z11exbyu	219	6	coronaviruses	coronaviruse	NNS
cord-260508-z11exbyu	219	7	in	in	IN
cord-260508-z11exbyu	219	8	Malayan	malayan	JJ
cord-260508-z11exbyu	219	9	pangolins	pangolin	NNS
cord-260508-z11exbyu	220	1	A	a	DT
cord-260508-z11exbyu	220	2	mixed	mixed	JJ
cord-260508-z11exbyu	220	3	relaxed	relaxed	JJ
cord-260508-z11exbyu	220	4	clock	clock	NN
cord-260508-z11exbyu	220	5	model	model	NN
cord-260508-z11exbyu	220	6	Emergence	Emergence	NNP
cord-260508-z11exbyu	220	7	of	of	IN
cord-260508-z11exbyu	220	8	SARS	SARS	NNP
cord-260508-z11exbyu	220	9	-	-	HYPH
cord-260508-z11exbyu	220	10	CoV-2	CoV-2	NNP
cord-260508-z11exbyu	220	11	through	through	IN
cord-260508-z11exbyu	220	12	recombination	recombination	NN
cord-260508-z11exbyu	220	13	and	and	CC
cord-260508-z11exbyu	220	14	strong	strong	JJ
cord-260508-z11exbyu	220	15	purifying	purify	VBG
cord-260508-z11exbyu	220	16	14	14	CD
cord-260508-z11exbyu	220	17	selection	selection	NN
cord-260508-z11exbyu	221	1	Phylogeny	phylogeny	NN
cord-260508-z11exbyu	221	2	-	-	HYPH
cord-260508-z11exbyu	221	3	aware	aware	JJ
cord-260508-z11exbyu	221	4	alignment	alignment	NN
cord-260508-z11exbyu	221	5	with	with	IN
cord-260508-z11exbyu	221	6	PRANK	PRANK	NNP
cord-260508-z11exbyu	221	7	Genomic	Genomic	NNP
cord-260508-z11exbyu	221	8	characterisation	characterisation	NN
cord-260508-z11exbyu	221	9	and	and	CC
cord-260508-z11exbyu	221	10	epidemiology	epidemiology	NN
cord-260508-z11exbyu	221	11	of	of	IN
cord-260508-z11exbyu	221	12	2019	2019	CD
cord-260508-z11exbyu	221	13	novel	novel	JJ
cord-260508-z11exbyu	221	14	coronavirus	coronavirus	NN
cord-260508-z11exbyu	221	15	:	:	:
cord-260508-z11exbyu	221	16	implications	implication	NNS
cord-260508-z11exbyu	221	17	for	for	IN
cord-260508-z11exbyu	221	18	virus	virus	NN
cord-260508-z11exbyu	221	19	18	18	CD
cord-260508-z11exbyu	221	20	origins	origin	NNS
cord-260508-z11exbyu	221	21	and	and	CC
cord-260508-z11exbyu	221	22	receptor	receptor	NN
cord-260508-z11exbyu	221	23	binding	bind	VBG
cord-260508-z11exbyu	221	24	RDP	rdp	NN
cord-260508-z11exbyu	221	25	:	:	:
cord-260508-z11exbyu	221	26	detection	detection	NN
cord-260508-z11exbyu	221	27	of	of	IN
cord-260508-z11exbyu	221	28	recombination	recombination	NN
cord-260508-z11exbyu	221	29	amongst	amongst	IN
cord-260508-z11exbyu	221	30	aligned	align	VBN
cord-260508-z11exbyu	221	31	sequences	sequence	NNS
cord-260508-z11exbyu	221	32	Evaluation	Evaluation	NNP
cord-260508-z11exbyu	221	33	of	of	IN
cord-260508-z11exbyu	221	34	methods	method	NNS
cord-260508-z11exbyu	221	35	for	for	IN
cord-260508-z11exbyu	221	36	detecting	detect	VBG
cord-260508-z11exbyu	221	37	recombination	recombination	NN
cord-260508-z11exbyu	221	38	from	from	IN
cord-260508-z11exbyu	221	39	DNA	dna	NN
cord-260508-z11exbyu	221	40	3	3	CD
cord-260508-z11exbyu	221	41	sequences	sequence	NNS
cord-260508-z11exbyu	221	42	:	:	:
cord-260508-z11exbyu	221	43	computer	computer	NN
cord-260508-z11exbyu	221	44	simulations	simulation	NNS
cord-260508-z11exbyu	221	45	Identification	identification	NN
cord-260508-z11exbyu	221	46	of	of	IN
cord-260508-z11exbyu	221	47	breakpoints	breakpoint	NNS
cord-260508-z11exbyu	221	48	in	in	IN
cord-260508-z11exbyu	221	49	5	5	CD
cord-260508-z11exbyu	221	50	intergenotypic	intergenotypic	JJ
cord-260508-z11exbyu	221	51	recombinants	recombinant	NNS
cord-260508-z11exbyu	221	52	of	of	IN
cord-260508-z11exbyu	221	53	HIV	HIV	NNP
cord-260508-z11exbyu	221	54	type	type	NN
cord-260508-z11exbyu	221	55	1	1	CD
cord-260508-z11exbyu	221	56	by	by	IN
cord-260508-z11exbyu	221	57	bootscanning	bootscanne	VBG
cord-260508-z11exbyu	221	58	Analyzing	analyze	VBG
cord-260508-z11exbyu	221	59	the	the	DT
cord-260508-z11exbyu	221	60	mosaic	mosaic	JJ
cord-260508-z11exbyu	221	61	structure	structure	NN
cord-260508-z11exbyu	221	62	of	of	IN
cord-260508-z11exbyu	221	63	genes	gene	NNS
cord-260508-z11exbyu	221	64	Detection	Detection	NNP
cord-260508-z11exbyu	221	65	of	of	IN
cord-260508-z11exbyu	221	66	novel	novel	JJ
cord-260508-z11exbyu	221	67	coronaviruses	coronaviruse	NNS
cord-260508-z11exbyu	221	68	in	in	IN
cord-260508-z11exbyu	221	69	bats	bat	NNS
cord-260508-z11exbyu	221	70	in	in	IN
cord-260508-z11exbyu	221	71	Myanmar	Myanmar	NNP
cord-260508-z11exbyu	221	72	Coronavirus	Coronavirus	NNP
cord-260508-z11exbyu	221	73	from	from	IN
cord-260508-z11exbyu	221	74	Wuhan	Wuhan	NNP
cord-260508-z11exbyu	221	75	:	:	:
cord-260508-z11exbyu	221	76	an	an	DT
cord-260508-z11exbyu	221	77	Analysis	Analysis	NNP
cord-260508-z11exbyu	221	78	Based	base	VBN
cord-260508-z11exbyu	221	79	on	on	IN
cord-260508-z11exbyu	221	80	Decade	decade	NN
cord-260508-z11exbyu	221	81	-	-	HYPH
cord-260508-z11exbyu	221	82	Long	Long	NNP
cord-260508-z11exbyu	221	83	Structural	Structural	NNP
cord-260508-z11exbyu	221	84	Studies	Studies	NNPS
cord-260508-z11exbyu	221	85	of	of	IN
cord-260508-z11exbyu	221	86	SARS	SARS	NNP
cord-260508-z11exbyu	221	87	13	13	CD
cord-260508-z11exbyu	222	1	A	a	DT
cord-260508-z11exbyu	222	2	new	new	JJ
cord-260508-z11exbyu	222	3	coronavirus	coronavirus	NN
cord-260508-z11exbyu	222	4	associated	associate	VBN
cord-260508-z11exbyu	222	5	with	with	IN
cord-260508-z11exbyu	222	6	human	human	JJ
cord-260508-z11exbyu	222	7	respiratory	respiratory	JJ
cord-260508-z11exbyu	222	8	disease	disease	NN
cord-260508-z11exbyu	222	9	in	in	IN
cord-260508-z11exbyu	222	10	China	China	NNP
cord-260508-z11exbyu	222	11	Isolation	Isolation	NNP
cord-260508-z11exbyu	222	12	of	of	IN
cord-260508-z11exbyu	222	13	SARS	SARS	NNP
cord-260508-z11exbyu	222	14	-	-	HYPH
cord-260508-z11exbyu	222	15	CoV-2-related	cov-2-relate	VBN
cord-260508-z11exbyu	222	16	coronavirus	coronavirus	NN
cord-260508-z11exbyu	222	17	from	from	IN
cord-260508-z11exbyu	222	18	Malayan	malayan	JJ
cord-260508-z11exbyu	222	19	pangolins	pangolin	NNS
cord-260508-z11exbyu	222	20	PAML	PAML	NNP
cord-260508-z11exbyu	222	21	4	4	CD
cord-260508-z11exbyu	222	22	:	:	:
cord-260508-z11exbyu	222	23	phylogenetic	phylogenetic	JJ
cord-260508-z11exbyu	222	24	analysis	analysis	NN
cord-260508-z11exbyu	222	25	by	by	IN
cord-260508-z11exbyu	222	26	maximum	maximum	JJ
cord-260508-z11exbyu	222	27	likelihood	likelihood	NN
cord-260508-z11exbyu	223	1	The	the	DT
cord-260508-z11exbyu	223	2	mean	mean	NN
cord-260508-z11exbyu	223	3	of	of	IN
cord-260508-z11exbyu	223	4	d	d	NNP
cord-260508-z11exbyu	223	5	S	S	NNP
cord-260508-z11exbyu	223	6	estimates	estimate	NNS
cord-260508-z11exbyu	223	7	using	use	VBG
cord-260508-z11exbyu	223	8	different	different	JJ
cord-260508-z11exbyu	223	9	methods	method	NNS
cord-260508-z11exbyu	223	10	;	;	:
cord-260508-z11exbyu	223	11	ML.corr	ML.corr	NNP
cord-260508-z11exbyu	223	12	and	and	CC
cord-260508-z11exbyu	223	13	yn00.corr	yn00.corr	NNP
cord-260508-z11exbyu	223	14	are	be	VBP
cord-260508-z11exbyu	223	15	the	the	DT
cord-260508-z11exbyu	223	16	bias	bias	NN
cord-260508-z11exbyu	223	17	corrected	correct	VBD
cord-260508-z11exbyu	223	18	versions	version	NNS
cord-260508-z11exbyu	223	19	of	of	IN
cord-260508-z11exbyu	223	20	the	the	DT
cord-260508-z11exbyu	223	21	ML	ML	NNP
cord-260508-z11exbyu	223	22	and	and	CC
cord-260508-z11exbyu	223	23	yn00	yn00	NNP
cord-260508-z11exbyu	223	24	methods	method	NNS
cord-260508-z11exbyu	223	25	,	,	,
cord-260508-z11exbyu	223	26	respectively	respectively	RB
cord-260508-z11exbyu	223	27	.	.	.
cord-260508-z11exbyu	224	1	(	(	-LRB-
cord-260508-z11exbyu	224	2	b	b	NN
cord-260508-z11exbyu	224	3	)	)	-RRB-
cord-260508-z11exbyu	224	4	Errors	error	NNS
cord-260508-z11exbyu	224	5	in	in	IN
cord-260508-z11exbyu	224	6	d	d	NNP
cord-260508-z11exbyu	224	7	S	S	NNP
cord-260508-z11exbyu	224	8	estimates	estimate	NNS
cord-260508-z11exbyu	224	9	as	as	IN
cord-260508-z11exbyu	224	10	measured	measure	VBN
cord-260508-z11exbyu	224	11	using	use	VBG
cord-260508-z11exbyu	224	12	the	the	DT
cord-260508-z11exbyu	224	13	ratio	ratio	NN
cord-260508-z11exbyu	224	14	of	of	IN
cord-260508-z11exbyu	224	15	square	square	JJ
cord-260508-z11exbyu	224	16	root	root	NN
cord-260508-z11exbyu	224	17	of	of	IN
cord-260508-z11exbyu	224	18	mean	mean	JJ
cord-260508-z11exbyu	224	19	squared	squared	JJ
cord-260508-z11exbyu	224	20	error	error	NN
cord-260508-z11exbyu	224	21	(	(	-LRB-
cord-260508-z11exbyu	224	22	MSE	MSE	NNP
cord-260508-z11exbyu	224	23	)	)	-RRB-
cord-260508-z11exbyu	224	24	to	to	IN
cord-260508-z11exbyu	224	25	true	true	JJ
cord-260508-z11exbyu	224	26	d	d	NNP
cord-260508-z11exbyu	224	27	S	s	NN
cord-260508-z11exbyu	224	28	.	.	.
cord-260508-z11exbyu	225	1	All	all	PDT
cord-260508-z11exbyu	225	2	the	the	DT
cord-260508-z11exbyu	225	3	estimates	estimate	NNS
cord-260508-z11exbyu	225	4	are	be	VBP
cord-260508-z11exbyu	225	5	based	base	VBN
cord-260508-z11exbyu	225	6	on	on	IN
cord-260508-z11exbyu	225	7	10,000	10,000	CD
cord-260508-z11exbyu	225	8	simulations	simulation	NNS
cord-260508-z11exbyu	225	9	.	.	.
cord-260508-z11exbyu	226	1	ML	ml	NN
cord-260508-z11exbyu	226	2	:	:	:
cord-260508-z11exbyu	226	3	maximum	maximum	JJ
cord-260508-z11exbyu	226	4	-	-	HYPH
cord-260508-z11exbyu	226	5	likelihood	likelihood	NN
cord-260508-z11exbyu	226	6	estimates	estimate	NNS
cord-260508-z11exbyu	226	7	using	use	VBG
cord-260508-z11exbyu	226	8	the	the	DT
cord-260508-z11exbyu	226	9	f3x4	f3x4	NNP
cord-260508-z11exbyu	226	10	model	model	NN
cord-260508-z11exbyu	226	11	in	in	IN
cord-260508-z11exbyu	226	12	codeml	codeml	NN
cord-260508-z11exbyu	227	1	;	;	:
cord-260508-z11exbyu	227	2	ML.corr	ML.corr	NNP
cord-260508-z11exbyu	227	3	,	,	,
cord-260508-z11exbyu	227	4	maximumlikelihood	maximumlikelihood	NN
cord-260508-z11exbyu	227	5	estimates	estimate	NNS
cord-260508-z11exbyu	227	6	with	with	IN
cord-260508-z11exbyu	227	7	bias	bias	NN
cord-260508-z11exbyu	227	8	correction	correction	NN
cord-260508-z11exbyu	227	9	;	;	:
cord-260508-z11exbyu	227	10	yn00	yn00	NNP
cord-260508-z11exbyu	227	11	,	,	,
cord-260508-z11exbyu	227	12	count	count	NN
cord-260508-z11exbyu	227	13	-	-	HYPH
cord-260508-z11exbyu	227	14	based	base	VBN
cord-260508-z11exbyu	227	15	estimates	estimate	NNS
cord-260508-z11exbyu	227	16	in	in	IN
cord-260508-z11exbyu	227	17	(	(	-LRB-
cord-260508-z11exbyu	227	18	Yang	Yang	NNP
cord-260508-z11exbyu	227	19	and	and	CC
cord-260508-z11exbyu	227	20	Nielsen	Nielsen	NNP
cord-260508-z11exbyu	227	21	2000	2000	CD
cord-260508-z11exbyu	227	22	)	)	-RRB-
cord-260508-z11exbyu	227	23	;	;	:
cord-260508-z11exbyu	227	24	yn00.corr	yn00.corr	NNP
cord-260508-z11exbyu	227	25	,	,	,
cord-260508-z11exbyu	227	26	yn00	yn00	NNP
cord-260508-z11exbyu	227	27	estimates	estimate	VBZ
cord-260508-z11exbyu	227	28	with	with	IN
cord-260508-z11exbyu	227	29	bias	bias	NN
cord-260508-z11exbyu	227	30	correction	correction	NN