id	sid	tid	token	lemma	pos
cord-305054-4d84b2g6	1	1	key	key	JJ
cord-305054-4d84b2g6	1	2	:	:	:
cord-305054-4d84b2g6	1	3	cord-305054	cord-305054	NNP
cord-305054-4d84b2g6	1	4	-	-	HYPH
cord-305054-4d84b2g6	1	5	4d84b2g6	4d84b2g6	CD
cord-305054-4d84b2g6	1	6	authors	author	NNS
cord-305054-4d84b2g6	1	7	:	:	:
cord-305054-4d84b2g6	1	8	Liu	Liu	NNP
cord-305054-4d84b2g6	1	9	,	,	,
cord-305054-4d84b2g6	1	10	Yuan	Yuan	NNP
cord-305054-4d84b2g6	1	11	;	;	:
cord-305054-4d84b2g6	2	1	Yan	Yan	NNP
cord-305054-4d84b2g6	2	2	,	,	,
cord-305054-4d84b2g6	2	3	Changhui	Changhui	NNP
cord-305054-4d84b2g6	2	4	title	title	NN
cord-305054-4d84b2g6	2	5	:	:	:
cord-305054-4d84b2g6	2	6	The	the	DT
cord-305054-4d84b2g6	2	7	selection	selection	NN
cord-305054-4d84b2g6	2	8	of	of	IN
cord-305054-4d84b2g6	2	9	reference	reference	NN
cord-305054-4d84b2g6	2	10	genome	genome	NN
cord-305054-4d84b2g6	2	11	and	and	CC
cord-305054-4d84b2g6	2	12	the	the	DT
cord-305054-4d84b2g6	2	13	search	search	NN
cord-305054-4d84b2g6	2	14	for	for	IN
cord-305054-4d84b2g6	2	15	the	the	DT
cord-305054-4d84b2g6	2	16	origin	origin	NN
cord-305054-4d84b2g6	2	17	of	of	IN
cord-305054-4d84b2g6	2	18	SARS	SARS	NNP
cord-305054-4d84b2g6	2	19	-	-	HYPH
cord-305054-4d84b2g6	2	20	CoV-2	CoV-2	NNP
cord-305054-4d84b2g6	2	21	date	date	NN
cord-305054-4d84b2g6	2	22	:	:	:
cord-305054-4d84b2g6	2	23	2020	2020	CD
cord-305054-4d84b2g6	2	24	-	-	HYPH
cord-305054-4d84b2g6	2	25	08	08	CD
cord-305054-4d84b2g6	2	26	-	-	HYPH
cord-305054-4d84b2g6	2	27	11	11	CD
cord-305054-4d84b2g6	2	28	journal	journal	NN
cord-305054-4d84b2g6	2	29	:	:	:
cord-305054-4d84b2g6	3	1	bioRxiv	biorxiv	IN
cord-305054-4d84b2g6	3	2	DOI	DOI	NNP
cord-305054-4d84b2g6	3	3	:	:	:
cord-305054-4d84b2g6	4	1	10.1101/2020.08.10.245290	10.1101/2020.08.10.245290	LS
cord-305054-4d84b2g6	5	1	sha	sha	NNP
cord-305054-4d84b2g6	5	2	:	:	:
cord-305054-4d84b2g6	6	1	4321e6d28b6a5e0033fd6cfb4e1d1c092c501427	4321e6d28b6a5e0033fd6cfb4e1d1c092c501427	CD
cord-305054-4d84b2g6	6	2	doc_id	doc_id	CD
cord-305054-4d84b2g6	6	3	:	:	:
cord-305054-4d84b2g6	6	4	305054	305054	CD
cord-305054-4d84b2g6	6	5	cord_uid	cord_uid	NNS
cord-305054-4d84b2g6	6	6	:	:	:
cord-305054-4d84b2g6	6	7	4d84b2g6	4d84b2g6	CD
cord-305054-4d84b2g6	7	1	The	the	DT
cord-305054-4d84b2g6	7	2	pandemic	pandemic	NN
cord-305054-4d84b2g6	7	3	caused	cause	VBN
cord-305054-4d84b2g6	7	4	by	by	IN
cord-305054-4d84b2g6	7	5	SARS	SARS	NNP
cord-305054-4d84b2g6	7	6	-	-	HYPH
cord-305054-4d84b2g6	7	7	CoV-2	CoV-2	NNP
cord-305054-4d84b2g6	7	8	has	have	VBZ
cord-305054-4d84b2g6	7	9	a	a	DT
cord-305054-4d84b2g6	7	10	great	great	JJ
cord-305054-4d84b2g6	7	11	impact	impact	NN
cord-305054-4d84b2g6	7	12	on	on	IN
cord-305054-4d84b2g6	7	13	the	the	DT
cord-305054-4d84b2g6	7	14	whole	whole	JJ
cord-305054-4d84b2g6	7	15	world	world	NN
cord-305054-4d84b2g6	7	16	.	.	.
cord-305054-4d84b2g6	8	1	In	in	IN
cord-305054-4d84b2g6	8	2	a	a	DT
cord-305054-4d84b2g6	8	3	theory	theory	NN
cord-305054-4d84b2g6	8	4	of	of	IN
cord-305054-4d84b2g6	8	5	the	the	DT
cord-305054-4d84b2g6	8	6	origin	origin	NN
cord-305054-4d84b2g6	8	7	of	of	IN
cord-305054-4d84b2g6	8	8	SARS	SARS	NNP
cord-305054-4d84b2g6	8	9	-	-	HYPH
cord-305054-4d84b2g6	8	10	CoV-2	CoV-2	NNP
cord-305054-4d84b2g6	8	11	,	,	,
cord-305054-4d84b2g6	8	12	pangolins	pangolin	NNS
cord-305054-4d84b2g6	8	13	were	be	VBD
cord-305054-4d84b2g6	8	14	considered	consider	VBN
cord-305054-4d84b2g6	8	15	a	a	DT
cord-305054-4d84b2g6	8	16	potential	potential	JJ
cord-305054-4d84b2g6	8	17	intermediate	intermediate	JJ
cord-305054-4d84b2g6	8	18	host	host	NN
cord-305054-4d84b2g6	8	19	.	.	.
cord-305054-4d84b2g6	9	1	To	to	TO
cord-305054-4d84b2g6	9	2	assemble	assemble	VB
cord-305054-4d84b2g6	9	3	the	the	DT
cord-305054-4d84b2g6	9	4	coronavirus	coronavirus	NN
cord-305054-4d84b2g6	9	5	found	find	VBN
cord-305054-4d84b2g6	9	6	in	in	IN
cord-305054-4d84b2g6	9	7	pangolins	pangolin	NNS
cord-305054-4d84b2g6	9	8	,	,	,
cord-305054-4d84b2g6	9	9	SARS	SARS	NNP
cord-305054-4d84b2g6	9	10	-	-	HYPH
cord-305054-4d84b2g6	9	11	CoV-2	CoV-2	NNP
cord-305054-4d84b2g6	9	12	were	be	VBD
cord-305054-4d84b2g6	9	13	used	use	VBN
cord-305054-4d84b2g6	9	14	a	a	DT
cord-305054-4d84b2g6	9	15	reference	reference	NN
cord-305054-4d84b2g6	9	16	genome	genome	NN
cord-305054-4d84b2g6	9	17	in	in	IN
cord-305054-4d84b2g6	9	18	most	most	JJS
cord-305054-4d84b2g6	9	19	of	of	IN
cord-305054-4d84b2g6	9	20	studies	study	NNS
cord-305054-4d84b2g6	9	21	,	,	,
cord-305054-4d84b2g6	9	22	assuming	assume	VBG
cord-305054-4d84b2g6	9	23	that	that	IN
cord-305054-4d84b2g6	9	24	pangolins	pangolin	NNS
cord-305054-4d84b2g6	9	25	CoV	CoV	NNP
cord-305054-4d84b2g6	9	26	and	and	CC
cord-305054-4d84b2g6	9	27	SARS	SARS	NNP
cord-305054-4d84b2g6	9	28	-	-	HYPH
cord-305054-4d84b2g6	9	29	CoV-2	CoV-2	NNP
cord-305054-4d84b2g6	9	30	are	be	VBP
cord-305054-4d84b2g6	9	31	the	the	DT
cord-305054-4d84b2g6	9	32	closest	close	JJS
cord-305054-4d84b2g6	9	33	neighbors	neighbor	NNS
cord-305054-4d84b2g6	9	34	in	in	IN
cord-305054-4d84b2g6	9	35	the	the	DT
cord-305054-4d84b2g6	9	36	evolution	evolution	NN
cord-305054-4d84b2g6	9	37	.	.	.
cord-305054-4d84b2g6	10	1	However	however	RB
cord-305054-4d84b2g6	10	2	,	,	,
cord-305054-4d84b2g6	10	3	this	this	DT
cord-305054-4d84b2g6	10	4	assumption	assumption	NN
cord-305054-4d84b2g6	10	5	may	may	MD
cord-305054-4d84b2g6	10	6	not	not	RB
cord-305054-4d84b2g6	10	7	be	be	VB
cord-305054-4d84b2g6	10	8	true	true	JJ
cord-305054-4d84b2g6	10	9	.	.	.
cord-305054-4d84b2g6	11	1	We	-PRON-	PRP
cord-305054-4d84b2g6	11	2	investigated	investigate	VBD
cord-305054-4d84b2g6	11	3	how	how	WRB
cord-305054-4d84b2g6	11	4	the	the	DT
cord-305054-4d84b2g6	11	5	selection	selection	NN
cord-305054-4d84b2g6	11	6	of	of	IN
cord-305054-4d84b2g6	11	7	reference	reference	NN
cord-305054-4d84b2g6	11	8	genome	genome	NN
cord-305054-4d84b2g6	11	9	affect	affect	VBP
cord-305054-4d84b2g6	11	10	the	the	DT
cord-305054-4d84b2g6	11	11	resulting	result	VBG
cord-305054-4d84b2g6	11	12	CoV	CoV	NNP
cord-305054-4d84b2g6	11	13	genome	genome	NNP
cord-305054-4d84b2g6	11	14	assembly	assembly	NNP
cord-305054-4d84b2g6	11	15	.	.	.
cord-305054-4d84b2g6	12	1	We	-PRON-	PRP
cord-305054-4d84b2g6	12	2	explored	explore	VBD
cord-305054-4d84b2g6	12	3	various	various	JJ
cord-305054-4d84b2g6	12	4	representative	representative	JJ
cord-305054-4d84b2g6	12	5	CoV	cov	NN
cord-305054-4d84b2g6	12	6	as	as	IN
cord-305054-4d84b2g6	12	7	reference	reference	NN
cord-305054-4d84b2g6	12	8	genome	genome	NN
cord-305054-4d84b2g6	12	9	,	,	,
cord-305054-4d84b2g6	12	10	and	and	CC
cord-305054-4d84b2g6	12	11	found	find	VBD
cord-305054-4d84b2g6	12	12	significant	significant	JJ
cord-305054-4d84b2g6	12	13	differences	difference	NNS
cord-305054-4d84b2g6	12	14	in	in	IN
cord-305054-4d84b2g6	12	15	the	the	DT
cord-305054-4d84b2g6	12	16	resulting	result	VBG
cord-305054-4d84b2g6	12	17	assemblies	assembly	NNS
cord-305054-4d84b2g6	12	18	.	.	.
cord-305054-4d84b2g6	13	1	The	the	DT
cord-305054-4d84b2g6	13	2	assembly	assembly	NN
cord-305054-4d84b2g6	13	3	obtained	obtain	VBD
cord-305054-4d84b2g6	13	4	using	use	VBG
cord-305054-4d84b2g6	13	5	RaTG13	RaTG13	NNP
cord-305054-4d84b2g6	13	6	as	as	IN
cord-305054-4d84b2g6	13	7	reference	reference	NN
cord-305054-4d84b2g6	13	8	showed	show	VBD
cord-305054-4d84b2g6	13	9	better	well	JJR
cord-305054-4d84b2g6	13	10	statistics	statistic	NNS
cord-305054-4d84b2g6	13	11	in	in	IN
cord-305054-4d84b2g6	13	12	total	total	JJ
cord-305054-4d84b2g6	13	13	length	length	NN
cord-305054-4d84b2g6	13	14	and	and	CC
cord-305054-4d84b2g6	13	15	N50	N50	NNP
cord-305054-4d84b2g6	13	16	than	than	IN
cord-305054-4d84b2g6	13	17	the	the	DT
cord-305054-4d84b2g6	13	18	assembly	assembly	NN
cord-305054-4d84b2g6	13	19	guided	guide	VBN
cord-305054-4d84b2g6	13	20	by	by	IN
cord-305054-4d84b2g6	13	21	SARS	SARS	NNP
cord-305054-4d84b2g6	13	22	-	-	HYPH
cord-305054-4d84b2g6	13	23	CoV-2	CoV-2	NNP
cord-305054-4d84b2g6	13	24	,	,	,
cord-305054-4d84b2g6	13	25	indicating	indicate	VBG
cord-305054-4d84b2g6	13	26	that	that	IN
cord-305054-4d84b2g6	13	27	RaTG13	RaTG13	NNP
cord-305054-4d84b2g6	14	1	maybe	maybe	RB
cord-305054-4d84b2g6	14	2	a	a	DT
cord-305054-4d84b2g6	14	3	better	well	JJR
cord-305054-4d84b2g6	14	4	reference	reference	NN
cord-305054-4d84b2g6	14	5	for	for	IN
cord-305054-4d84b2g6	14	6	assembling	assemble	VBG
cord-305054-4d84b2g6	14	7	CoV	cov	NN
cord-305054-4d84b2g6	14	8	in	in	IN
cord-305054-4d84b2g6	14	9	pangolin	pangolin	NN
cord-305054-4d84b2g6	14	10	or	or	CC
cord-305054-4d84b2g6	14	11	other	other	JJ
cord-305054-4d84b2g6	14	12	potential	potential	JJ
cord-305054-4d84b2g6	14	13	intermediate	intermediate	JJ
cord-305054-4d84b2g6	14	14	hosts	host	NNS
cord-305054-4d84b2g6	14	15	.	.	.
cord-305054-4d84b2g6	15	1	Recently	recently	RB
cord-305054-4d84b2g6	15	2	,	,	,
cord-305054-4d84b2g6	15	3	the	the	DT
cord-305054-4d84b2g6	15	4	outbreak	outbreak	NN
cord-305054-4d84b2g6	15	5	of	of	IN
cord-305054-4d84b2g6	15	6	SARS	SARS	NNP
cord-305054-4d84b2g6	15	7	-	-	HYPH
cord-305054-4d84b2g6	15	8	CoV-2	CoV-2	NNP
cord-305054-4d84b2g6	15	9	(	(	-LRB-
cord-305054-4d84b2g6	15	10	COVID-19	COVID-19	NNP
cord-305054-4d84b2g6	15	11	)	)	-RRB-
cord-305054-4d84b2g6	15	12	has	have	VBZ
cord-305054-4d84b2g6	15	13	caused	cause	VBN
cord-305054-4d84b2g6	15	14	an	an	DT
cord-305054-4d84b2g6	15	15	ongoing	ongoing	JJ
cord-305054-4d84b2g6	15	16	global	global	JJ
cord-305054-4d84b2g6	15	17	pandemic	pandemic	NN
cord-305054-4d84b2g6	15	18	.	.	.
cord-305054-4d84b2g6	16	1	As	as	IN
cord-305054-4d84b2g6	16	2	of	of	IN
cord-305054-4d84b2g6	16	3	July	July	NNP
cord-305054-4d84b2g6	16	4	21	21	CD
cord-305054-4d84b2g6	16	5	,	,	,
cord-305054-4d84b2g6	16	6	2020	2020	CD
cord-305054-4d84b2g6	16	7	,	,	,
cord-305054-4d84b2g6	16	8	the	the	DT
cord-305054-4d84b2g6	16	9	pandemic	pandemic	NN
cord-305054-4d84b2g6	16	10	resulting	result	VBG
cord-305054-4d84b2g6	16	11	in	in	IN
cord-305054-4d84b2g6	16	12	a	a	DT
cord-305054-4d84b2g6	16	13	total	total	NN
cord-305054-4d84b2g6	16	14	of	of	IN
cord-305054-4d84b2g6	16	15	14,562,550	14,562,550	CD
cord-305054-4d84b2g6	16	16	clinical	clinical	JJ
cord-305054-4d84b2g6	16	17	cases	case	NNS
cord-305054-4d84b2g6	16	18	and	and	CC
cord-305054-4d84b2g6	16	19	607,781	607,781	CD
cord-305054-4d84b2g6	16	20	deaths	death	NNS
cord-305054-4d84b2g6	16	21	all	all	RB
cord-305054-4d84b2g6	16	22	over	over	IN
cord-305054-4d84b2g6	16	23	the	the	DT
cord-305054-4d84b2g6	16	24	world	world	NN
cord-305054-4d84b2g6	16	25	(	(	-LRB-
cord-305054-4d84b2g6	16	26	www.who.int	www.who.int	NNP
cord-305054-4d84b2g6	16	27	)	)	-RRB-
cord-305054-4d84b2g6	16	28	.	.	.
cord-305054-4d84b2g6	17	1	With	with	IN
cord-305054-4d84b2g6	17	2	an	an	DT
cord-305054-4d84b2g6	17	3	effort	effort	NN
cord-305054-4d84b2g6	17	4	of	of	IN
cord-305054-4d84b2g6	17	5	metagenomic	metagenomic	NNP
cord-305054-4d84b2g6	17	6	RNA	RNA	NNP
cord-305054-4d84b2g6	17	7	deep	deep	JJ
cord-305054-4d84b2g6	17	8	sequencing	sequencing	NN
cord-305054-4d84b2g6	17	9	,	,	,
cord-305054-4d84b2g6	17	10	the	the	DT
cord-305054-4d84b2g6	17	11	genome	genome	NN
cord-305054-4d84b2g6	17	12	of	of	IN
cord-305054-4d84b2g6	17	13	a	a	DT
cord-305054-4d84b2g6	17	14	SARS	SARS	NNP
cord-305054-4d84b2g6	17	15	-	-	HYPH
cord-305054-4d84b2g6	17	16	CoV-2	CoV-2	NNP
cord-305054-4d84b2g6	17	17	isolate	isolate	VB
cord-305054-4d84b2g6	17	18	,	,	,
cord-305054-4d84b2g6	17	19	Wuhan	Wuhan	NNP
cord-305054-4d84b2g6	17	20	-	-	HYPH
cord-305054-4d84b2g6	17	21	Hu-1	Hu-1	NNP
cord-305054-4d84b2g6	17	22	,	,	,
cord-305054-4d84b2g6	17	23	was	be	VBD
cord-305054-4d84b2g6	17	24	published	publish	VBN
cord-305054-4d84b2g6	17	25	in	in	IN
cord-305054-4d84b2g6	17	26	[	[	-LRB-
cord-305054-4d84b2g6	17	27	11	11	CD
cord-305054-4d84b2g6	17	28	]	]	-RRB-
cord-305054-4d84b2g6	17	29	.	.	.
cord-305054-4d84b2g6	18	1	The	the	DT
cord-305054-4d84b2g6	18	2	genome	genome	NN
cord-305054-4d84b2g6	18	3	showed	show	VBD
cord-305054-4d84b2g6	18	4	high	high	JJ
cord-305054-4d84b2g6	18	5	nucleotide	nucleotide	JJ
cord-305054-4d84b2g6	18	6	similarity	similarity	NN
cord-305054-4d84b2g6	18	7	(	(	-LRB-
cord-305054-4d84b2g6	18	8	89.1	89.1	CD
cord-305054-4d84b2g6	18	9	%	%	NN
cord-305054-4d84b2g6	18	10	)	)	-RRB-
cord-305054-4d84b2g6	18	11	to	to	IN
cord-305054-4d84b2g6	18	12	a	a	DT
cord-305054-4d84b2g6	18	13	group	group	NN
cord-305054-4d84b2g6	18	14	of	of	IN
cord-305054-4d84b2g6	18	15	SARS	SARS	NNP
cord-305054-4d84b2g6	18	16	-	-	HYPH
cord-305054-4d84b2g6	18	17	like	like	JJ
cord-305054-4d84b2g6	18	18	coronavirus	coronavirus	NN
cord-305054-4d84b2g6	18	19	that	that	WDT
cord-305054-4d84b2g6	18	20	were	be	VBD
cord-305054-4d84b2g6	18	21	identified	identify	VBN
cord-305054-4d84b2g6	18	22	in	in	IN
cord-305054-4d84b2g6	18	23	bats	bat	NNS
cord-305054-4d84b2g6	18	24	in	in	IN
cord-305054-4d84b2g6	18	25	China	China	NNP
cord-305054-4d84b2g6	18	26	,	,	,
cord-305054-4d84b2g6	18	27	which	which	WDT
cord-305054-4d84b2g6	18	28	indicated	indicate	VBD
cord-305054-4d84b2g6	18	29	the	the	DT
cord-305054-4d84b2g6	18	30	possibility	possibility	NN
cord-305054-4d84b2g6	18	31	of	of	IN
cord-305054-4d84b2g6	18	32	animal	animal	NN
cord-305054-4d84b2g6	18	33	origin	origin	NN
cord-305054-4d84b2g6	18	34	.	.	.
cord-305054-4d84b2g6	19	1	To	to	TO
cord-305054-4d84b2g6	19	2	identify	identify	VB
cord-305054-4d84b2g6	19	3	potential	potential	JJ
cord-305054-4d84b2g6	19	4	direct	direct	JJ
cord-305054-4d84b2g6	19	5	or	or	CC
cord-305054-4d84b2g6	19	6	intermediate	intermediate	JJ
cord-305054-4d84b2g6	19	7	host	host	NN
cord-305054-4d84b2g6	19	8	of	of	IN
cord-305054-4d84b2g6	19	9	SARS	SARS	NNP
cord-305054-4d84b2g6	19	10	-	-	HYPH
cord-305054-4d84b2g6	19	11	CoV-2	CoV-2	NNP
cord-305054-4d84b2g6	19	12	,	,	,
cord-305054-4d84b2g6	19	13	coronavirus	coronavirus	NN
cord-305054-4d84b2g6	19	14	in	in	IN
cord-305054-4d84b2g6	19	15	several	several	JJ
cord-305054-4d84b2g6	19	16	animals	animal	NNS
cord-305054-4d84b2g6	19	17	were	be	VBD
cord-305054-4d84b2g6	19	18	studied	study	VBN
cord-305054-4d84b2g6	19	19	and	and	CC
cord-305054-4d84b2g6	19	20	compared	compare	VBN
cord-305054-4d84b2g6	19	21	with	with	IN
cord-305054-4d84b2g6	19	22	SARS	SARS	NNP
cord-305054-4d84b2g6	19	23	-	-	HYPH
cord-305054-4d84b2g6	19	24	CoV-2	CoV-2	NNP
cord-305054-4d84b2g6	19	25	.	.	.
cord-305054-4d84b2g6	20	1	Bat	bat	NN
cord-305054-4d84b2g6	20	2	and	and	CC
cord-305054-4d84b2g6	20	3	pangolin	pangolin	NN
cord-305054-4d84b2g6	20	4	were	be	VBD
cord-305054-4d84b2g6	20	5	the	the	DT
cord-305054-4d84b2g6	20	6	two	two	CD
cord-305054-4d84b2g6	20	7	mostly	mostly	RB
cord-305054-4d84b2g6	20	8	investigated	investigate	VBN
cord-305054-4d84b2g6	20	9	species	specie	NNS
cord-305054-4d84b2g6	20	10	.	.	.
cord-305054-4d84b2g6	21	1	A	a	DT
cord-305054-4d84b2g6	21	2	CoV	cov	NN
cord-305054-4d84b2g6	21	3	in	in	IN
cord-305054-4d84b2g6	21	4	bat	bat	NN
cord-305054-4d84b2g6	21	5	,	,	,
cord-305054-4d84b2g6	21	6	RaTG13	RaTG13	NNP
cord-305054-4d84b2g6	21	7	,	,	,
cord-305054-4d84b2g6	21	8	showed	show	VBD
cord-305054-4d84b2g6	21	9	96	96	CD
cord-305054-4d84b2g6	21	10	%	%	NN
cord-305054-4d84b2g6	21	11	full	full	JJ
cord-305054-4d84b2g6	21	12	-	-	HYPH
cord-305054-4d84b2g6	21	13	genome	genome	NN
cord-305054-4d84b2g6	21	14	similarity	similarity	NN
cord-305054-4d84b2g6	21	15	with	with	IN
cord-305054-4d84b2g6	21	16	SARS	SARS	NNP
cord-305054-4d84b2g6	21	17	-	-	HYPH
cord-305054-4d84b2g6	21	18	CoV-2	CoV-2	NNP
cord-305054-4d84b2g6	21	19	[	[	-LRB-
cord-305054-4d84b2g6	21	20	14	14	CD
cord-305054-4d84b2g6	21	21	]	]	-RRB-
cord-305054-4d84b2g6	21	22	.	.	.
cord-305054-4d84b2g6	22	1	Other	other	JJ
cord-305054-4d84b2g6	22	2	virus	virus	NN
cord-305054-4d84b2g6	22	3	isolates	isolate	VBZ
cord-305054-4d84b2g6	22	4	from	from	IN
cord-305054-4d84b2g6	22	5	bat	bat	NN
cord-305054-4d84b2g6	22	6	,	,	,
cord-305054-4d84b2g6	22	7	ZXC21	ZXC21	NNP
cord-305054-4d84b2g6	22	8	and	and	CC
cord-305054-4d84b2g6	22	9	ZC45	ZC45	NNP
cord-305054-4d84b2g6	22	10	also	also	RB
cord-305054-4d84b2g6	22	11	shared	share	VBD
cord-305054-4d84b2g6	22	12	85	85	CD
cord-305054-4d84b2g6	22	13	%	%	NN
cord-305054-4d84b2g6	22	14	of	of	IN
cord-305054-4d84b2g6	22	15	similarity	similarity	NN
cord-305054-4d84b2g6	22	16	to	to	IN
cord-305054-4d84b2g6	22	17	SARS	SARS	NNP
cord-305054-4d84b2g6	22	18	-	-	HYPH
cord-305054-4d84b2g6	22	19	CoV-2	CoV-2	NNP
cord-305054-4d84b2g6	22	20	.	.	.
cord-305054-4d84b2g6	23	1	These	these	DT
cord-305054-4d84b2g6	23	2	results	result	NNS
cord-305054-4d84b2g6	23	3	led	lead	VBD
cord-305054-4d84b2g6	23	4	to	to	IN
cord-305054-4d84b2g6	23	5	the	the	DT
cord-305054-4d84b2g6	23	6	hypothesis	hypothesis	NN
cord-305054-4d84b2g6	23	7	that	that	IN
cord-305054-4d84b2g6	23	8	the	the	DT
cord-305054-4d84b2g6	23	9	progenitor	progenitor	NN
cord-305054-4d84b2g6	23	10	of	of	IN
cord-305054-4d84b2g6	23	11	SARS	SARS	NNP
cord-305054-4d84b2g6	23	12	-	-	HYPH
cord-305054-4d84b2g6	23	13	CoV-2	CoV-2	NNP
cord-305054-4d84b2g6	23	14	originated	originate	VBD
cord-305054-4d84b2g6	23	15	in	in	IN
cord-305054-4d84b2g6	23	16	Bats	bat	NNS
cord-305054-4d84b2g6	23	17	and	and	CC
cord-305054-4d84b2g6	23	18	it	-PRON-	PRP
cord-305054-4d84b2g6	23	19	spilled	spill	VBD
cord-305054-4d84b2g6	23	20	over	over	RP
cord-305054-4d84b2g6	23	21	to	to	IN
cord-305054-4d84b2g6	23	22	humans	human	NNS
cord-305054-4d84b2g6	23	23	using	use	VBG
cord-305054-4d84b2g6	23	24	another	another	DT
cord-305054-4d84b2g6	23	25	animal	animal	NN
cord-305054-4d84b2g6	23	26	as	as	IN
cord-305054-4d84b2g6	23	27	intermediate	intermediate	JJ
cord-305054-4d84b2g6	23	28	host	host	NN
cord-305054-4d84b2g6	23	29	.	.	.
cord-305054-4d84b2g6	24	1	Many	many	JJ
cord-305054-4d84b2g6	24	2	researchers	researcher	NNS
cord-305054-4d84b2g6	24	3	believed	believe	VBD
cord-305054-4d84b2g6	24	4	that	that	IN
cord-305054-4d84b2g6	24	5	pangolins	pangolin	NNS
cord-305054-4d84b2g6	24	6	are	be	VBP
cord-305054-4d84b2g6	24	7	a	a	DT
cord-305054-4d84b2g6	24	8	potential	potential	JJ
cord-305054-4d84b2g6	24	9	intermediate	intermediate	JJ
cord-305054-4d84b2g6	24	10	host	host	NN
cord-305054-4d84b2g6	24	11	and	and	CC
cord-305054-4d84b2g6	24	12	they	-PRON-	PRP
cord-305054-4d84b2g6	24	13	attempted	attempt	VBD
cord-305054-4d84b2g6	24	14	to	to	TO
cord-305054-4d84b2g6	24	15	characterize	characterize	VB
cord-305054-4d84b2g6	24	16	coronavirus	coronavirus	NN
cord-305054-4d84b2g6	24	17	in	in	IN
cord-305054-4d84b2g6	24	18	pangolin	pangolin	NN
cord-305054-4d84b2g6	24	19	.	.	.
cord-305054-4d84b2g6	25	1	Liu	Liu	NNP
cord-305054-4d84b2g6	25	2	,	,	,
cord-305054-4d84b2g6	25	3	Chen	Chen	NNP
cord-305054-4d84b2g6	25	4	,	,	,
cord-305054-4d84b2g6	25	5	and	and	CC
cord-305054-4d84b2g6	25	6	Chen	Chen	NNP
cord-305054-4d84b2g6	25	7	[	[	-LRB-
cord-305054-4d84b2g6	25	8	8	8	CD
cord-305054-4d84b2g6	25	9	]	]	-RRB-
cord-305054-4d84b2g6	25	10	constructed	construct	VBN
cord-305054-4d84b2g6	25	11	coronavirus	coronavirus	NN
cord-305054-4d84b2g6	25	12	contigs	contigs	NN
cord-305054-4d84b2g6	25	13	using	use	VBG
cord-305054-4d84b2g6	25	14	de	de	NNP
cord-305054-4d84b2g6	25	15	novo	novo	NNP
cord-305054-4d84b2g6	25	16	assembly	assembly	NNP
cord-305054-4d84b2g6	25	17	method	method	NN
cord-305054-4d84b2g6	25	18	from	from	IN
cord-305054-4d84b2g6	25	19	organ	organ	NN
cord-305054-4d84b2g6	25	20	samples	sample	NNS
cord-305054-4d84b2g6	25	21	of	of	IN
cord-305054-4d84b2g6	25	22	dead	dead	JJ
cord-305054-4d84b2g6	25	23	Malayan	malayan	JJ
cord-305054-4d84b2g6	25	24	pangolins	pangolin	NNS
cord-305054-4d84b2g6	25	25	rescued	rescue	VBN
cord-305054-4d84b2g6	25	26	at	at	IN
cord-305054-4d84b2g6	25	27	the	the	DT
cord-305054-4d84b2g6	25	28	Guangdong	Guangdong	NNP
cord-305054-4d84b2g6	25	29	Wildlife	Wildlife	NNP
cord-305054-4d84b2g6	25	30	Rescue	Rescue	NNP
cord-305054-4d84b2g6	25	31	Center	Center	NNP
cord-305054-4d84b2g6	25	32	.	.	.
cord-305054-4d84b2g6	26	1	Of	of	IN
cord-305054-4d84b2g6	26	2	the	the	DT
cord-305054-4d84b2g6	26	3	11	11	CD
cord-305054-4d84b2g6	26	4	collected	collect	VBN
cord-305054-4d84b2g6	26	5	pangolins	pangolin	NNS
cord-305054-4d84b2g6	26	6	,	,	,
cord-305054-4d84b2g6	26	7	coronavirus	coronavirus	NN
cord-305054-4d84b2g6	26	8	was	be	VBD
cord-305054-4d84b2g6	26	9	detected	detect	VBN
cord-305054-4d84b2g6	26	10	in	in	IN
cord-305054-4d84b2g6	26	11	two	two	CD
cord-305054-4d84b2g6	26	12	.	.	.
cord-305054-4d84b2g6	27	1	Zhang	Zhang	NNP
cord-305054-4d84b2g6	27	2	,	,	,
cord-305054-4d84b2g6	27	3	Wu	Wu	NNP
cord-305054-4d84b2g6	27	4	,	,	,
cord-305054-4d84b2g6	27	5	and	and	CC
cord-305054-4d84b2g6	27	6	Zhang	Zhang	NNP
cord-305054-4d84b2g6	27	7	[	[	-LRB-
cord-305054-4d84b2g6	27	8	13	13	CD
cord-305054-4d84b2g6	27	9	]	]	-RRB-
cord-305054-4d84b2g6	27	10	re	re	VBD
cord-305054-4d84b2g6	27	11	-	-	VBN
cord-305054-4d84b2g6	27	12	analyzed	analyze	VBD
cord-305054-4d84b2g6	27	13	the	the	DT
cord-305054-4d84b2g6	27	14	RNA	RNA	NNP
cord-305054-4d84b2g6	27	15	-	-	HYPH
cord-305054-4d84b2g6	27	16	Seq	Seq	NNP
cord-305054-4d84b2g6	27	17	reads	read	VBZ
cord-305054-4d84b2g6	27	18	from	from	IN
cord-305054-4d84b2g6	27	19	two	two	CD
cord-305054-4d84b2g6	27	20	pangolins	pangolin	NNS
cord-305054-4d84b2g6	27	21	carrying	carry	VBG
cord-305054-4d84b2g6	27	22	coronavirus	coronavirus	NN
cord-305054-4d84b2g6	27	23	using	use	VBG
cord-305054-4d84b2g6	27	24	reference	reference	NN
cord-305054-4d84b2g6	27	25	-	-	HYPH
cord-305054-4d84b2g6	27	26	guided	guide	VBN
cord-305054-4d84b2g6	27	27	de	de	FW
cord-305054-4d84b2g6	27	28	novo	novo	NNP
cord-305054-4d84b2g6	27	29	assembly	assembly	NNP
cord-305054-4d84b2g6	27	30	method	method	NN
cord-305054-4d84b2g6	27	31	,	,	,
cord-305054-4d84b2g6	27	32	with	with	IN
cord-305054-4d84b2g6	27	33	Wuhan	Wuhan	NNP
cord-305054-4d84b2g6	27	34	-	-	HYPH
cord-305054-4d84b2g6	27	35	Hu-1	Hu-1	NNP
cord-305054-4d84b2g6	27	36	as	as	IN
cord-305054-4d84b2g6	27	37	the	the	DT
cord-305054-4d84b2g6	27	38	reference	reference	NN
cord-305054-4d84b2g6	27	39	genome	genome	NN
cord-305054-4d84b2g6	27	40	.	.	.
cord-305054-4d84b2g6	28	1	The	the	DT
cord-305054-4d84b2g6	28	2	resulting	result	VBG
cord-305054-4d84b2g6	28	3	draft	draft	NN
cord-305054-4d84b2g6	28	4	genome	genome	NN
cord-305054-4d84b2g6	28	5	shared	share	VBD
cord-305054-4d84b2g6	28	6	91.02	91.02	CD
cord-305054-4d84b2g6	28	7	and	and	CC
cord-305054-4d84b2g6	28	8	90.55	90.55	CD
cord-305054-4d84b2g6	28	9	%	%	NN
cord-305054-4d84b2g6	28	10	whole	whole	JJ
cord-305054-4d84b2g6	28	11	genome	genome	NN
cord-305054-4d84b2g6	28	12	similarity	similarity	NN
cord-305054-4d84b2g6	28	13	with	with	IN
cord-305054-4d84b2g6	28	14	Wuhan	Wuhan	NNP
cord-305054-4d84b2g6	28	15	-	-	HYPH
cord-305054-4d84b2g6	28	16	Hu-1	Hu-1	NNP
cord-305054-4d84b2g6	29	1	and	and	CC
cord-305054-4d84b2g6	29	2	RaTG13	RaTG13	NNP
cord-305054-4d84b2g6	29	3	,	,	,
cord-305054-4d84b2g6	29	4	respectively	respectively	RB
cord-305054-4d84b2g6	29	5	.	.	.
cord-305054-4d84b2g6	30	1	Xiao	Xiao	NNP
cord-305054-4d84b2g6	30	2	et	et	NNP
cord-305054-4d84b2g6	30	3	al	al	NNP
cord-305054-4d84b2g6	30	4	.	.	.
cord-305054-4d84b2g6	31	1	[	[	-LRB-
cord-305054-4d84b2g6	31	2	12	12	CD
cord-305054-4d84b2g6	31	3	]	]	-RRB-
cord-305054-4d84b2g6	31	4	obtained	obtain	VBN
cord-305054-4d84b2g6	31	5	21	21	CD
cord-305054-4d84b2g6	31	6	samples	sample	NNS
cord-305054-4d84b2g6	31	7	from	from	IN
cord-305054-4d84b2g6	31	8	pangolins	pangolin	NNS
cord-305054-4d84b2g6	31	9	rescued	rescue	VBN
cord-305054-4d84b2g6	31	10	by	by	IN
cord-305054-4d84b2g6	31	11	Guangdong	Guangdong	NNP
cord-305054-4d84b2g6	31	12	Customs	Customs	NNP
cord-305054-4d84b2g6	31	13	and	and	CC
cord-305054-4d84b2g6	31	14	conducted	conduct	VBN
cord-305054-4d84b2g6	31	15	reference	reference	NN
cord-305054-4d84b2g6	31	16	-	-	HYPH
cord-305054-4d84b2g6	31	17	guided	guide	VBN
cord-305054-4d84b2g6	31	18	genome	genome	NN
cord-305054-4d84b2g6	31	19	assembly	assembly	NN
cord-305054-4d84b2g6	31	20	,	,	,
cord-305054-4d84b2g6	31	21	with	with	IN
cord-305054-4d84b2g6	31	22	Wuhan	Wuhan	NNP
cord-305054-4d84b2g6	31	23	-	-	HYPH
cord-305054-4d84b2g6	31	24	Hu-1	Hu-1	NNP
cord-305054-4d84b2g6	31	25	as	as	IN
cord-305054-4d84b2g6	31	26	the	the	DT
cord-305054-4d84b2g6	31	27	reference	reference	NN
cord-305054-4d84b2g6	31	28	genome	genome	NN
cord-305054-4d84b2g6	31	29	.	.	.
cord-305054-4d84b2g6	32	1	The	the	DT
cord-305054-4d84b2g6	32	2	derived	derive	VBN
cord-305054-4d84b2g6	32	3	viral	viral	JJ
cord-305054-4d84b2g6	32	4	genome	genome	NN
cord-305054-4d84b2g6	32	5	showed	show	VBD
cord-305054-4d84b2g6	32	6	80	80	CD
cord-305054-4d84b2g6	32	7	and	and	CC
cord-305054-4d84b2g6	32	8	98	98	CD
cord-305054-4d84b2g6	32	9	%	%	NN
cord-305054-4d84b2g6	32	10	whole	whole	JJ
cord-305054-4d84b2g6	32	11	genome	genome	NN
cord-305054-4d84b2g6	32	12	sequence	sequence	NN
cord-305054-4d84b2g6	32	13	identity	identity	NN
cord-305054-4d84b2g6	32	14	to	to	IN
cord-305054-4d84b2g6	32	15	SARS	SARS	NNP
cord-305054-4d84b2g6	32	16	-	-	HYPH
cord-305054-4d84b2g6	32	17	CoV-2	CoV-2	NNP
cord-305054-4d84b2g6	32	18	and	and	CC
cord-305054-4d84b2g6	32	19	RaTG13	RaTG13	NNP
cord-305054-4d84b2g6	32	20	,	,	,
cord-305054-4d84b2g6	32	21	respectively	respectively	RB
cord-305054-4d84b2g6	32	22	.	.	.
cord-305054-4d84b2g6	33	1	Lam	Lam	NNP
cord-305054-4d84b2g6	33	2	et	et	NNP
cord-305054-4d84b2g6	33	3	al	al	NNP
cord-305054-4d84b2g6	33	4	.	.	.
cord-305054-4d84b2g6	34	1	[	[	-LRB-
cord-305054-4d84b2g6	34	2	3	3	CD
cord-305054-4d84b2g6	34	3	]	]	-RRB-
cord-305054-4d84b2g6	34	4	collected	collect	VBD
cord-305054-4d84b2g6	34	5	43	43	CD
cord-305054-4d84b2g6	34	6	samples	sample	NNS
cord-305054-4d84b2g6	34	7	from	from	IN
cord-305054-4d84b2g6	34	8	18	18	CD
cord-305054-4d84b2g6	34	9	pangolins	pangolin	NNS
cord-305054-4d84b2g6	34	10	from	from	IN
cord-305054-4d84b2g6	34	11	Guangxi	Guangxi	NNP
cord-305054-4d84b2g6	34	12	Medical	Medical	NNP
cord-305054-4d84b2g6	34	13	University	University	NNP
cord-305054-4d84b2g6	34	14	,	,	,
cord-305054-4d84b2g6	34	15	China	China	NNP
cord-305054-4d84b2g6	34	16	,	,	,
cord-305054-4d84b2g6	34	17	and	and	CC
cord-305054-4d84b2g6	34	18	six	six	CD
cord-305054-4d84b2g6	34	19	samples	sample	NNS
cord-305054-4d84b2g6	34	20	contained	contain	VBD
cord-305054-4d84b2g6	34	21	coronavirus	coronavirus	NN
cord-305054-4d84b2g6	34	22	sequences	sequence	NNS
cord-305054-4d84b2g6	34	23	.	.	.
cord-305054-4d84b2g6	35	1	The	the	DT
cord-305054-4d84b2g6	35	2	viral	viral	JJ
cord-305054-4d84b2g6	35	3	genomes	genome	NNS
cord-305054-4d84b2g6	35	4	of	of	IN
cord-305054-4d84b2g6	35	5	six	six	CD
cord-305054-4d84b2g6	35	6	samples	sample	NNS
cord-305054-4d84b2g6	35	7	were	be	VBD
cord-305054-4d84b2g6	35	8	de	de	IN
cord-305054-4d84b2g6	35	9	novo	novo	NNP
cord-305054-4d84b2g6	35	10	assembled	assemble	VBD
cord-305054-4d84b2g6	35	11	.	.	.
cord-305054-4d84b2g6	36	1	They	-PRON-	PRP
cord-305054-4d84b2g6	36	2	also	also	RB
cord-305054-4d84b2g6	36	3	performed	perform	VBD
cord-305054-4d84b2g6	36	4	RNA	RNA	NNP
cord-305054-4d84b2g6	36	5	sequencing	sequencing	NN
cord-305054-4d84b2g6	36	6	in	in	IN
cord-305054-4d84b2g6	36	7	five	five	CD
cord-305054-4d84b2g6	36	8	archived	archived	JJ
cord-305054-4d84b2g6	36	9	pangolins	pangolin	NNS
cord-305054-4d84b2g6	36	10	samples	sample	NNS
cord-305054-4d84b2g6	36	11	from	from	IN
cord-305054-4d84b2g6	36	12	Guangdong	Guangdong	NNP
cord-305054-4d84b2g6	36	13	,	,	,
cord-305054-4d84b2g6	36	14	and	and	CC
cord-305054-4d84b2g6	36	15	assembled	assemble	VBD
cord-305054-4d84b2g6	36	16	the	the	DT
cord-305054-4d84b2g6	36	17	genomes	genome	NNS
cord-305054-4d84b2g6	36	18	using	use	VBG
cord-305054-4d84b2g6	36	19	WIV04	WIV04	NNP
cord-305054-4d84b2g6	36	20	,	,	,
cord-305054-4d84b2g6	36	21	another	another	DT
cord-305054-4d84b2g6	36	22	SARS	SARS	NNP
cord-305054-4d84b2g6	36	23	-	-	HYPH
cord-305054-4d84b2g6	36	24	CoV-2	CoV-2	NNP
cord-305054-4d84b2g6	36	25	genome	genome	NN
cord-305054-4d84b2g6	36	26	from	from	IN
cord-305054-4d84b2g6	36	27	human	human	JJ
cord-305054-4d84b2g6	36	28	,	,	,
cord-305054-4d84b2g6	36	29	as	as	IN
cord-305054-4d84b2g6	36	30	reference	reference	NN
cord-305054-4d84b2g6	36	31	genome	genome	NN
cord-305054-4d84b2g6	36	32	.	.	.
cord-305054-4d84b2g6	37	1	The	the	DT
cord-305054-4d84b2g6	37	2	resultant	resultant	JJ
cord-305054-4d84b2g6	37	3	draft	draft	NN
cord-305054-4d84b2g6	37	4	genomes	genome	NNS
cord-305054-4d84b2g6	37	5	have	have	VBP
cord-305054-4d84b2g6	37	6	85.5	85.5	CD
cord-305054-4d84b2g6	37	7	%	%	NN
cord-305054-4d84b2g6	37	8	to	to	IN
cord-305054-4d84b2g6	37	9	92.4	92.4	CD
cord-305054-4d84b2g6	37	10	%	%	NN
cord-305054-4d84b2g6	37	11	identity	identity	NN
cord-305054-4d84b2g6	37	12	to	to	IN
cord-305054-4d84b2g6	37	13	the	the	DT
cord-305054-4d84b2g6	37	14	SARS	SARS	NNP
cord-305054-4d84b2g6	37	15	-	-	HYPH
cord-305054-4d84b2g6	37	16	CoV-2	CoV-2	NNP
cord-305054-4d84b2g6	37	17	genome	genome	NN
cord-305054-4d84b2g6	37	18	.	.	.
cord-305054-4d84b2g6	38	1	They	-PRON-	PRP
cord-305054-4d84b2g6	38	2	suggested	suggest	VBD
cord-305054-4d84b2g6	38	3	two	two	CD
cord-305054-4d84b2g6	38	4	sub	sub	NN
cord-305054-4d84b2g6	38	5	-	-	NNS
cord-305054-4d84b2g6	38	6	lineages	lineage	NNS
cord-305054-4d84b2g6	38	7	of	of	IN
cord-305054-4d84b2g6	38	8	coronavirus	coronavirus	NN
cord-305054-4d84b2g6	38	9	existed	exist	VBD
cord-305054-4d84b2g6	38	10	in	in	IN
cord-305054-4d84b2g6	38	11	pangolins	pangolin	NNS
cord-305054-4d84b2g6	38	12	.	.	.
cord-305054-4d84b2g6	39	1	In	in	IN
cord-305054-4d84b2g6	39	2	terms	term	NNS
cord-305054-4d84b2g6	39	3	of	of	IN
cord-305054-4d84b2g6	39	4	all	all	DT
cord-305054-4d84b2g6	39	5	coding	code	VBG
cord-305054-4d84b2g6	39	6	sites	site	NNS
cord-305054-4d84b2g6	39	7	,	,	,
cord-305054-4d84b2g6	39	8	coronavirus	coronavirus	NN
cord-305054-4d84b2g6	39	9	identified	identify	VBN
cord-305054-4d84b2g6	39	10	in	in	IN
cord-305054-4d84b2g6	39	11	pangolins	pangolin	NNS
cord-305054-4d84b2g6	39	12	from	from	IN
cord-305054-4d84b2g6	39	13	Guangdong	Guangdong	NNP
cord-305054-4d84b2g6	39	14	is	be	VBZ
cord-305054-4d84b2g6	39	15	more	more	RBR
cord-305054-4d84b2g6	39	16	closely	closely	RB
cord-305054-4d84b2g6	39	17	related	related	JJ
cord-305054-4d84b2g6	39	18	to	to	IN
cord-305054-4d84b2g6	39	19	WIV04	WIV04	NNP
cord-305054-4d84b2g6	39	20	than	than	IN
cord-305054-4d84b2g6	39	21	Bat	Bat	NNP
cord-305054-4d84b2g6	39	22	-	-	HYPH
cord-305054-4d84b2g6	39	23	CoV	cov	NN
cord-305054-4d84b2g6	39	24	RaTG13	RaTG13	NNP
cord-305054-4d84b2g6	39	25	,	,	,
cord-305054-4d84b2g6	39	26	whereas	whereas	IN
cord-305054-4d84b2g6	39	27	coronavirus	coronavirus	NN
cord-305054-4d84b2g6	39	28	genome	genome	NN
cord-305054-4d84b2g6	39	29	of	of	IN
cord-305054-4d84b2g6	39	30	pangolins	pangolin	NNS
cord-305054-4d84b2g6	39	31	in	in	IN
cord-305054-4d84b2g6	39	32	Guangxi	Guangxi	NNP
cord-305054-4d84b2g6	39	33	showed	show	VBD
cord-305054-4d84b2g6	39	34	lower	low	JJR
cord-305054-4d84b2g6	39	35	genome	genome	NN
cord-305054-4d84b2g6	39	36	similarity	similarity	NN
cord-305054-4d84b2g6	39	37	to	to	IN
cord-305054-4d84b2g6	39	38	WIV04	WIV04	NNP
cord-305054-4d84b2g6	39	39	than	than	IN
cord-305054-4d84b2g6	39	40	Bat	Bat	NNP
cord-305054-4d84b2g6	39	41	-	-	HYPH
cord-305054-4d84b2g6	39	42	CoV	cov	NN
cord-305054-4d84b2g6	39	43	RaTG13	ratg13	NN
cord-305054-4d84b2g6	39	44	.	.	.
cord-305054-4d84b2g6	40	1	Liu	Liu	NNP
cord-305054-4d84b2g6	40	2	et	et	NNP
cord-305054-4d84b2g6	40	3	al	al	NNP
cord-305054-4d84b2g6	40	4	.	.	.
cord-305054-4d84b2g6	41	1	[	[	-LRB-
cord-305054-4d84b2g6	41	2	8	8	CD
cord-305054-4d84b2g6	41	3	]	]	-RRB-
cord-305054-4d84b2g6	41	4	took	take	VBD
cord-305054-4d84b2g6	41	5	samples	sample	NNS
cord-305054-4d84b2g6	41	6	from	from	IN
cord-305054-4d84b2g6	41	7	three	three	CD
cord-305054-4d84b2g6	41	8	coronavirus	coronavirus	NN
cord-305054-4d84b2g6	41	9	positive	positive	JJ
cord-305054-4d84b2g6	41	10	pangolins	pangolin	NNS
cord-305054-4d84b2g6	41	11	rescued	rescue	VBN
cord-305054-4d84b2g6	41	12	in	in	IN
cord-305054-4d84b2g6	41	13	Guangdong	Guangdong	NNP
cord-305054-4d84b2g6	41	14	and	and	CC
cord-305054-4d84b2g6	41	15	performed	perform	VBN
cord-305054-4d84b2g6	41	16	deep	deep	JJ
cord-305054-4d84b2g6	41	17	sequencing	sequencing	NN
cord-305054-4d84b2g6	41	18	.	.	.
cord-305054-4d84b2g6	42	1	Using	use	VBG
cord-305054-4d84b2g6	42	2	de	de	FW
cord-305054-4d84b2g6	42	3	novo	novo	NNP
cord-305054-4d84b2g6	42	4	assembly	assembly	NNP
cord-305054-4d84b2g6	42	5	method	method	NN
cord-305054-4d84b2g6	42	6	,	,	,
cord-305054-4d84b2g6	42	7	they	-PRON-	PRP
cord-305054-4d84b2g6	42	8	obtained	obtain	VBD
cord-305054-4d84b2g6	42	9	viral	viral	JJ
cord-305054-4d84b2g6	42	10	genome	genome	NN
cord-305054-4d84b2g6	42	11	that	that	WDT
cord-305054-4d84b2g6	42	12	showed	show	VBD
cord-305054-4d84b2g6	42	13	90.32	90.32	CD
cord-305054-4d84b2g6	42	14	%	%	NN
cord-305054-4d84b2g6	42	15	and	and	CC
cord-305054-4d84b2g6	42	16	90.24	90.24	CD
cord-305054-4d84b2g6	42	17	%	%	NN
cord-305054-4d84b2g6	42	18	of	of	IN
cord-305054-4d84b2g6	42	19	whole	whole	JJ
cord-305054-4d84b2g6	42	20	genome	genome	NN
cord-305054-4d84b2g6	42	21	identify	identify	NN
cord-305054-4d84b2g6	42	22	to	to	IN
cord-305054-4d84b2g6	42	23	Wuhan	Wuhan	NNP
cord-305054-4d84b2g6	42	24	-	-	HYPH
cord-305054-4d84b2g6	42	25	Hu-1and	hu-1and	JJ
cord-305054-4d84b2g6	42	26	Bat	Bat	NNP
cord-305054-4d84b2g6	42	27	-	-	HYPH
cord-305054-4d84b2g6	42	28	CoV	cov	NN
cord-305054-4d84b2g6	42	29	RaTG13	RaTG13	NNP
cord-305054-4d84b2g6	42	30	,	,	,
cord-305054-4d84b2g6	42	31	respectively	respectively	RB
cord-305054-4d84b2g6	42	32	.	.	.
cord-305054-4d84b2g6	43	1	All	all	DT
cord-305054-4d84b2g6	43	2	of	of	IN
cord-305054-4d84b2g6	43	3	the	the	DT
cord-305054-4d84b2g6	43	4	pangolins	pangolin	NNS
cord-305054-4d84b2g6	43	5	involved	involve	VBN
cord-305054-4d84b2g6	43	6	in	in	IN
cord-305054-4d84b2g6	43	7	published	publish	VBN
cord-305054-4d84b2g6	43	8	coronavirus	coronavirus	NN
cord-305054-4d84b2g6	43	9	analysis	analysis	NN
cord-305054-4d84b2g6	43	10	were	be	VBD
cord-305054-4d84b2g6	43	11	from	from	IN
cord-305054-4d84b2g6	43	12	either	either	CC
cord-305054-4d84b2g6	43	13	the	the	DT
cord-305054-4d84b2g6	43	14	Guangdong	Guangdong	NNP
cord-305054-4d84b2g6	43	15	collection	collection	NN
cord-305054-4d84b2g6	43	16	or	or	CC
cord-305054-4d84b2g6	43	17	the	the	DT
cord-305054-4d84b2g6	43	18	Guangxi	Guangxi	NNP
cord-305054-4d84b2g6	43	19	collection	collection	NN
cord-305054-4d84b2g6	43	20	.	.	.
cord-305054-4d84b2g6	44	1	Pangolins	pangolin	NNS
cord-305054-4d84b2g6	44	2	from	from	IN
cord-305054-4d84b2g6	44	3	the	the	DT
cord-305054-4d84b2g6	44	4	Guangdong	Guangdong	NNP
cord-305054-4d84b2g6	44	5	collection	collection	NN
cord-305054-4d84b2g6	44	6	were	be	VBD
cord-305054-4d84b2g6	44	7	investigated	investigate	VBN
cord-305054-4d84b2g6	44	8	in	in	IN
cord-305054-4d84b2g6	44	9	most	most	JJS
cord-305054-4d84b2g6	44	10	studies	study	NNS
cord-305054-4d84b2g6	44	11	[	[	-LRB-
cord-305054-4d84b2g6	44	12	3	3	CD
cord-305054-4d84b2g6	44	13	,	,	,
cord-305054-4d84b2g6	44	14	8	8	CD
cord-305054-4d84b2g6	44	15	,	,	,
cord-305054-4d84b2g6	44	16	9	9	CD
cord-305054-4d84b2g6	44	17	,	,	,
cord-305054-4d84b2g6	44	18	12	12	CD
cord-305054-4d84b2g6	44	19	]	]	-RRB-
cord-305054-4d84b2g6	44	20	.	.	.
cord-305054-4d84b2g6	45	1	The	the	DT
cord-305054-4d84b2g6	45	2	resulting	result	VBG
cord-305054-4d84b2g6	45	3	viral	viral	JJ
cord-305054-4d84b2g6	45	4	genomes	genome	NNS
cord-305054-4d84b2g6	45	5	were	be	VBD
cord-305054-4d84b2g6	45	6	derived	derive	VBN
cord-305054-4d84b2g6	45	7	from	from	IN
cord-305054-4d84b2g6	45	8	de	de	NNP
cord-305054-4d84b2g6	45	9	novo	novo	NNP
cord-305054-4d84b2g6	45	10	assembly	assembly	NNP
cord-305054-4d84b2g6	45	11	with	with	IN
cord-305054-4d84b2g6	45	12	or	or	CC
cord-305054-4d84b2g6	45	13	without	without	IN
cord-305054-4d84b2g6	45	14	a	a	DT
cord-305054-4d84b2g6	45	15	guided	guide	VBN
cord-305054-4d84b2g6	45	16	reference	reference	NN
cord-305054-4d84b2g6	45	17	and	and	CC
cord-305054-4d84b2g6	45	18	further	further	RB
cord-305054-4d84b2g6	45	19	curated	curate	VBN
cord-305054-4d84b2g6	45	20	using	use	VBG
cord-305054-4d84b2g6	45	21	blast	blast	NN
cord-305054-4d84b2g6	45	22	annotation	annotation	NN
cord-305054-4d84b2g6	45	23	or	or	CC
cord-305054-4d84b2g6	45	24	PCR	PCR	NNP
cord-305054-4d84b2g6	45	25	amplicon	amplicon	NN
cord-305054-4d84b2g6	45	26	sequencing	sequencing	NN
cord-305054-4d84b2g6	45	27	.	.	.
cord-305054-4d84b2g6	46	1	All	all	DT
cord-305054-4d84b2g6	46	2	studies	study	NNS
cord-305054-4d84b2g6	46	3	have	have	VBP
cord-305054-4d84b2g6	46	4	showed	show	VBN
cord-305054-4d84b2g6	46	5	that	that	IN
cord-305054-4d84b2g6	46	6	CoV	cov	NN
cord-305054-4d84b2g6	46	7	in	in	IN
cord-305054-4d84b2g6	46	8	pangolin	pangolin	NN
cord-305054-4d84b2g6	46	9	was	be	VBD
cord-305054-4d84b2g6	46	10	highly	highly	RB
cord-305054-4d84b2g6	46	11	related	relate	VBN
cord-305054-4d84b2g6	46	12	to	to	IN
cord-305054-4d84b2g6	46	13	Bat	Bat	NNP
cord-305054-4d84b2g6	46	14	-	-	HYPH
cord-305054-4d84b2g6	46	15	CoV	CoV	NNP
cord-305054-4d84b2g6	46	16	and	and	CC
cord-305054-4d84b2g6	46	17	SARS	SARS	NNP
cord-305054-4d84b2g6	46	18	-	-	HYPH
cord-305054-4d84b2g6	46	19	CoV-2	CoV-2	NNP
cord-305054-4d84b2g6	46	20	.	.	.
cord-305054-4d84b2g6	47	1	In	in	IN
cord-305054-4d84b2g6	47	2	all	all	DT
cord-305054-4d84b2g6	47	3	of	of	IN
cord-305054-4d84b2g6	47	4	the	the	DT
cord-305054-4d84b2g6	47	5	studies	study	NNS
cord-305054-4d84b2g6	47	6	that	that	WDT
cord-305054-4d84b2g6	47	7	used	use	VBD
cord-305054-4d84b2g6	47	8	reference	reference	NN
cord-305054-4d84b2g6	47	9	-	-	HYPH
cord-305054-4d84b2g6	47	10	guided	guide	VBN
cord-305054-4d84b2g6	47	11	de	de	FW
cord-305054-4d84b2g6	47	12	novo	novo	NNP
cord-305054-4d84b2g6	47	13	assemblies	assembly	NNS
cord-305054-4d84b2g6	47	14	,	,	,
cord-305054-4d84b2g6	47	15	a	a	DT
cord-305054-4d84b2g6	47	16	SARS	SARS	NNP
cord-305054-4d84b2g6	47	17	-	-	HYPH
cord-305054-4d84b2g6	47	18	CoV-2	CoV-2	NNP
cord-305054-4d84b2g6	47	19	genome	genome	NN
cord-305054-4d84b2g6	47	20	(	(	-LRB-
cord-305054-4d84b2g6	47	21	Wuhan	Wuhan	NNP
cord-305054-4d84b2g6	47	22	-	-	HYPH
cord-305054-4d84b2g6	47	23	Hu-1	Hu-1	NNP
cord-305054-4d84b2g6	47	24	or	or	CC
cord-305054-4d84b2g6	47	25	WIV04	WIV04	NNP
cord-305054-4d84b2g6	47	26	)	)	-RRB-
cord-305054-4d84b2g6	47	27	was	be	VBD
cord-305054-4d84b2g6	47	28	chosen	choose	VBN
cord-305054-4d84b2g6	47	29	as	as	IN
cord-305054-4d84b2g6	47	30	reference	reference	NN
cord-305054-4d84b2g6	47	31	[	[	-LRB-
cord-305054-4d84b2g6	47	32	3	3	CD
cord-305054-4d84b2g6	47	33	,	,	,
cord-305054-4d84b2g6	47	34	12	12	CD
cord-305054-4d84b2g6	47	35	,	,	,
cord-305054-4d84b2g6	47	36	13	13	CD
cord-305054-4d84b2g6	47	37	]	]	-RRB-
cord-305054-4d84b2g6	47	38	.	.	.
cord-305054-4d84b2g6	48	1	This	this	DT
cord-305054-4d84b2g6	48	2	choice	choice	NN
cord-305054-4d84b2g6	48	3	was	be	VBD
cord-305054-4d84b2g6	48	4	based	base	VBN
cord-305054-4d84b2g6	48	5	on	on	IN
cord-305054-4d84b2g6	48	6	the	the	DT
cord-305054-4d84b2g6	48	7	assumption	assumption	NN
cord-305054-4d84b2g6	48	8	that	that	IN
cord-305054-4d84b2g6	48	9	SARS	SARS	NNP
cord-305054-4d84b2g6	48	10	-	-	HYPH
cord-305054-4d84b2g6	48	11	CoV-2	CoV-2	NNP
cord-305054-4d84b2g6	48	12	was	be	VBD
cord-305054-4d84b2g6	48	13	the	the	DT
cord-305054-4d84b2g6	48	14	closest	close	JJS
cord-305054-4d84b2g6	48	15	neighbor	neighbor	NN
cord-305054-4d84b2g6	48	16	of	of	IN
cord-305054-4d84b2g6	48	17	the	the	DT
cord-305054-4d84b2g6	48	18	Pangolin	Pangolin	NNP
cord-305054-4d84b2g6	48	19	CoV	cov	NN
cord-305054-4d84b2g6	48	20	in	in	IN
cord-305054-4d84b2g6	48	21	the	the	DT
cord-305054-4d84b2g6	48	22	phylogeny	phylogeny	NN
cord-305054-4d84b2g6	48	23	tree	tree	NN
cord-305054-4d84b2g6	48	24	.	.	.
cord-305054-4d84b2g6	49	1	However	however	RB
cord-305054-4d84b2g6	49	2	,	,	,
cord-305054-4d84b2g6	49	3	this	this	DT
cord-305054-4d84b2g6	49	4	assumption	assumption	NN
cord-305054-4d84b2g6	49	5	may	may	MD
cord-305054-4d84b2g6	49	6	not	not	RB
cord-305054-4d84b2g6	49	7	necessary	necessary	JJ
cord-305054-4d84b2g6	49	8	be	be	VB
cord-305054-4d84b2g6	49	9	true	true	JJ
cord-305054-4d84b2g6	49	10	.	.	.
cord-305054-4d84b2g6	50	1	Therefore	therefore	RB
cord-305054-4d84b2g6	50	2	,	,	,
cord-305054-4d84b2g6	50	3	choosing	choose	VBG
cord-305054-4d84b2g6	50	4	the	the	DT
cord-305054-4d84b2g6	50	5	SARS	SARS	NNP
cord-305054-4d84b2g6	50	6	-	-	HYPH
cord-305054-4d84b2g6	50	7	CoV-2	CoV-2	NNP
cord-305054-4d84b2g6	50	8	genome	genome	NN
cord-305054-4d84b2g6	50	9	as	as	IN
cord-305054-4d84b2g6	50	10	reference	reference	NN
cord-305054-4d84b2g6	50	11	could	could	MD
cord-305054-4d84b2g6	50	12	inadvertently	inadvertently	RB
cord-305054-4d84b2g6	50	13	introduce	introduce	VB
cord-305054-4d84b2g6	50	14	bias	bias	NN
cord-305054-4d84b2g6	50	15	in	in	IN
cord-305054-4d84b2g6	50	16	the	the	DT
cord-305054-4d84b2g6	50	17	genome	genome	NN
cord-305054-4d84b2g6	50	18	assembly	assembly	NN
cord-305054-4d84b2g6	50	19	,	,	,
cord-305054-4d84b2g6	50	20	leading	lead	VBG
cord-305054-4d84b2g6	50	21	to	to	IN
cord-305054-4d84b2g6	50	22	inaccurate	inaccurate	JJ
cord-305054-4d84b2g6	50	23	or	or	CC
cord-305054-4d84b2g6	50	24	incomplete	incomplete	JJ
cord-305054-4d84b2g6	50	25	results	result	NNS
cord-305054-4d84b2g6	50	26	.	.	.
cord-305054-4d84b2g6	51	1	In	in	IN
cord-305054-4d84b2g6	51	2	this	this	DT
cord-305054-4d84b2g6	51	3	study	study	NN
cord-305054-4d84b2g6	51	4	,	,	,
cord-305054-4d84b2g6	51	5	we	-PRON-	PRP
cord-305054-4d84b2g6	51	6	assembled	assemble	VBD
cord-305054-4d84b2g6	51	7	the	the	DT
cord-305054-4d84b2g6	51	8	Pangolin	Pangolin	NNP
cord-305054-4d84b2g6	51	9	CoV	cov	NN
cord-305054-4d84b2g6	51	10	genome	genome	NN
cord-305054-4d84b2g6	51	11	using	use	VBG
cord-305054-4d84b2g6	51	12	several	several	JJ
cord-305054-4d84b2g6	51	13	different	different	JJ
cord-305054-4d84b2g6	51	14	genomes	genome	NNS
cord-305054-4d84b2g6	51	15	as	as	IN
cord-305054-4d84b2g6	51	16	reference	reference	NN
cord-305054-4d84b2g6	51	17	.	.	.
cord-305054-4d84b2g6	52	1	We	-PRON-	PRP
cord-305054-4d84b2g6	52	2	investigated	investigate	VBD
cord-305054-4d84b2g6	52	3	how	how	WRB
cord-305054-4d84b2g6	52	4	the	the	DT
cord-305054-4d84b2g6	52	5	reference	reference	NN
cord-305054-4d84b2g6	52	6	genome	genome	NN
cord-305054-4d84b2g6	52	7	impact	impact	NN
cord-305054-4d84b2g6	52	8	the	the	DT
cord-305054-4d84b2g6	52	9	resulting	result	VBG
cord-305054-4d84b2g6	52	10	genome	genome	NN
cord-305054-4d84b2g6	52	11	and	and	CC
cord-305054-4d84b2g6	52	12	its	-PRON-	PRP$
cord-305054-4d84b2g6	52	13	phylogenetic	phylogenetic	JJ
cord-305054-4d84b2g6	52	14	relationship	relationship	NN
cord-305054-4d84b2g6	52	15	with	with	IN
cord-305054-4d84b2g6	52	16	others	other	NNS
cord-305054-4d84b2g6	52	17	.	.	.
cord-305054-4d84b2g6	53	1	The	the	DT
cord-305054-4d84b2g6	53	2	results	result	NNS
cord-305054-4d84b2g6	53	3	from	from	IN
cord-305054-4d84b2g6	53	4	this	this	DT
cord-305054-4d84b2g6	53	5	study	study	NN
cord-305054-4d84b2g6	53	6	will	will	MD
cord-305054-4d84b2g6	53	7	provide	provide	VB
cord-305054-4d84b2g6	53	8	guidance	guidance	NN
cord-305054-4d84b2g6	53	9	for	for	IN
cord-305054-4d84b2g6	53	10	future	future	JJ
cord-305054-4d84b2g6	53	11	studies	study	NNS
cord-305054-4d84b2g6	53	12	on	on	IN
cord-305054-4d84b2g6	53	13	how	how	WRB
cord-305054-4d84b2g6	53	14	to	to	TO
cord-305054-4d84b2g6	53	15	accurately	accurately	RB
cord-305054-4d84b2g6	53	16	construct	construct	VB
cord-305054-4d84b2g6	53	17	CoV	cov	NN
cord-305054-4d84b2g6	53	18	genomes	genome	NNS
cord-305054-4d84b2g6	53	19	from	from	IN
cord-305054-4d84b2g6	53	20	pangolin	pangolin	NN
cord-305054-4d84b2g6	53	21	or	or	CC
cord-305054-4d84b2g6	53	22	other	other	JJ
cord-305054-4d84b2g6	53	23	potential	potential	JJ
cord-305054-4d84b2g6	53	24	intermediate	intermediate	JJ
cord-305054-4d84b2g6	53	25	hosts	host	NNS
cord-305054-4d84b2g6	53	26	.	.	.
cord-305054-4d84b2g6	54	1	Two	two	CD
cord-305054-4d84b2g6	54	2	RNA	RNA	NNP
cord-305054-4d84b2g6	54	3	-	-	HYPH
cord-305054-4d84b2g6	54	4	seq	seq	NN
cord-305054-4d84b2g6	54	5	samples	sample	NNS
cord-305054-4d84b2g6	54	6	,	,	,
cord-305054-4d84b2g6	54	7	lung07	lung07	NNP
cord-305054-4d84b2g6	54	8	and	and	CC
cord-305054-4d84b2g6	54	9	lung08	lung08	NNP
cord-305054-4d84b2g6	54	10	,	,	,
cord-305054-4d84b2g6	54	11	were	be	VBD
cord-305054-4d84b2g6	54	12	downloaded	download	VBN
cord-305054-4d84b2g6	54	13	from	from	IN
cord-305054-4d84b2g6	54	14	NCBI	NCBI	NNP
cord-305054-4d84b2g6	54	15	SRA	SRA	NNP
cord-305054-4d84b2g6	54	16	under	under	IN
cord-305054-4d84b2g6	54	17	BioProject	BioProject	NNP
cord-305054-4d84b2g6	54	18	SRA	SRA	NNP
cord-305054-4d84b2g6	54	19	:	:	:
cord-305054-4d84b2g6	55	1	PRJNA573298	PRJNA573298	NNP
cord-305054-4d84b2g6	55	2	.	.	.
cord-305054-4d84b2g6	56	1	The	the	DT
cord-305054-4d84b2g6	56	2	two	two	CD
cord-305054-4d84b2g6	56	3	samples	sample	NNS
cord-305054-4d84b2g6	56	4	were	be	VBD
cord-305054-4d84b2g6	56	5	originally	originally	RB
cord-305054-4d84b2g6	56	6	published	publish	VBN
cord-305054-4d84b2g6	56	7	in	in	IN
cord-305054-4d84b2g6	56	8	[	[	-LRB-
cord-305054-4d84b2g6	56	9	8	8	CD
cord-305054-4d84b2g6	56	10	]	]	-RRB-
cord-305054-4d84b2g6	56	11	for	for	IN
cord-305054-4d84b2g6	56	12	viral	viral	JJ
cord-305054-4d84b2g6	56	13	metagenomics	metagenomic	NNS
cord-305054-4d84b2g6	56	14	analysis	analysis	NN
cord-305054-4d84b2g6	56	15	.	.	.
cord-305054-4d84b2g6	57	1	Adaptor	adaptor	NN
cord-305054-4d84b2g6	57	2	trimming	trimming	NN
cord-305054-4d84b2g6	57	3	and	and	CC
cord-305054-4d84b2g6	57	4	quality	quality	NN
cord-305054-4d84b2g6	57	5	control	control	NN
cord-305054-4d84b2g6	57	6	were	be	VBD
cord-305054-4d84b2g6	57	7	performed	perform	VBN
cord-305054-4d84b2g6	57	8	on	on	IN
cord-305054-4d84b2g6	57	9	the	the	DT
cord-305054-4d84b2g6	57	10	raw	raw	JJ
cord-305054-4d84b2g6	57	11	sequence	sequence	NN
cord-305054-4d84b2g6	57	12	reads	read	VBZ
cord-305054-4d84b2g6	57	13	using	use	VBG
cord-305054-4d84b2g6	57	14	with	with	IN
cord-305054-4d84b2g6	57	15	the	the	DT
cord-305054-4d84b2g6	57	16	Trimmonmatic	Trimmonmatic	NNP
cord-305054-4d84b2g6	57	17	program	program	NN
cord-305054-4d84b2g6	57	18	(	(	-LRB-
cord-305054-4d84b2g6	57	19	verson	verson	NNP
cord-305054-4d84b2g6	57	20	0.39	0.39	CD
cord-305054-4d84b2g6	57	21	)	)	-RRB-
cord-305054-4d84b2g6	58	1	[	[	-LRB-
cord-305054-4d84b2g6	58	2	1	1	CD
cord-305054-4d84b2g6	58	3	]	]	-RRB-
cord-305054-4d84b2g6	58	4	.	.	.
cord-305054-4d84b2g6	59	1	To	to	TO
cord-305054-4d84b2g6	59	2	eliminate	eliminate	VB
cord-305054-4d84b2g6	59	3	host	host	NN
cord-305054-4d84b2g6	59	4	contamination	contamination	NN
cord-305054-4d84b2g6	59	5	,	,	,
cord-305054-4d84b2g6	59	6	the	the	DT
cord-305054-4d84b2g6	59	7	remaining	remain	VBG
cord-305054-4d84b2g6	59	8	reads	read	NNS
cord-305054-4d84b2g6	59	9	were	be	VBD
cord-305054-4d84b2g6	59	10	aligned	align	VBN
cord-305054-4d84b2g6	59	11	to	to	IN
cord-305054-4d84b2g6	59	12	the	the	DT
cord-305054-4d84b2g6	59	13	Manis	Manis	NNP
cord-305054-4d84b2g6	59	14	javanica	javanica	NN
cord-305054-4d84b2g6	59	15	genome	genome	NN
cord-305054-4d84b2g6	59	16	(	(	-LRB-
cord-305054-4d84b2g6	59	17	SRA	SRA	NNP
cord-305054-4d84b2g6	59	18	:	:	:
cord-305054-4d84b2g6	59	19	PRJNA256023	prjna256023	LS
cord-305054-4d84b2g6	59	20	)	)	-RRB-
cord-305054-4d84b2g6	59	21	using	use	VBG
cord-305054-4d84b2g6	59	22	BWAaln	BWAaln	NNP
cord-305054-4d84b2g6	59	23	(	(	-LRB-
cord-305054-4d84b2g6	59	24	version	version	NN
cord-305054-4d84b2g6	59	25	0.7.17	0.7.17	CD
cord-305054-4d84b2g6	59	26	)	)	-RRB-
cord-305054-4d84b2g6	59	27	[	[	-LRB-
cord-305054-4d84b2g6	59	28	6	6	CD
cord-305054-4d84b2g6	59	29	]	]	-RRB-
cord-305054-4d84b2g6	59	30	and	and	CC
cord-305054-4d84b2g6	59	31	reads	read	VBZ
cord-305054-4d84b2g6	59	32	mapped	map	VBN
cord-305054-4d84b2g6	59	33	to	to	IN
cord-305054-4d84b2g6	59	34	the	the	DT
cord-305054-4d84b2g6	59	35	host	host	NN
cord-305054-4d84b2g6	59	36	genome	genome	NN
cord-305054-4d84b2g6	59	37	were	be	VBD
cord-305054-4d84b2g6	59	38	discarded	discard	VBN
cord-305054-4d84b2g6	59	39	.	.	.
cord-305054-4d84b2g6	60	1	Reads	read	VBZ
cord-305054-4d84b2g6	60	2	unmapped	unmapped	JJ
cord-305054-4d84b2g6	60	3	to	to	IN
cord-305054-4d84b2g6	60	4	the	the	DT
cord-305054-4d84b2g6	60	5	host	host	NN
cord-305054-4d84b2g6	60	6	reference	reference	NN
cord-305054-4d84b2g6	60	7	genome	genome	NN
cord-305054-4d84b2g6	60	8	were	be	VBD
cord-305054-4d84b2g6	60	9	used	use	VBN
cord-305054-4d84b2g6	60	10	to	to	TO
cord-305054-4d84b2g6	60	11	construct	construct	VB
cord-305054-4d84b2g6	60	12	genome	genome	NN
cord-305054-4d84b2g6	60	13	in	in	IN
cord-305054-4d84b2g6	60	14	the	the	DT
cord-305054-4d84b2g6	60	15	subsequent	subsequent	JJ
cord-305054-4d84b2g6	60	16	de	de	FW
cord-305054-4d84b2g6	60	17	novo	novo	NNP
cord-305054-4d84b2g6	60	18	assembly	assembly	NNP
cord-305054-4d84b2g6	60	19	.	.	.
cord-305054-4d84b2g6	60	20	 	 	_SP
cord-305054-4d84b2g6	61	1	Cleaned	clean	VBN
cord-305054-4d84b2g6	61	2	reads	read	NNS
cord-305054-4d84b2g6	61	3	were	be	VBD
cord-305054-4d84b2g6	61	4	used	use	VBN
cord-305054-4d84b2g6	61	5	to	to	TO
cord-305054-4d84b2g6	61	6	assemble	assemble	VB
cord-305054-4d84b2g6	61	7	genome	genome	NN
cord-305054-4d84b2g6	61	8	using	use	VBG
cord-305054-4d84b2g6	61	9	reference	reference	NN
cord-305054-4d84b2g6	61	10	-	-	HYPH
cord-305054-4d84b2g6	61	11	guided	guide	VBN
cord-305054-4d84b2g6	61	12	de	de	FW
cord-305054-4d84b2g6	61	13	novo	novo	NNP
cord-305054-4d84b2g6	61	14	assembly	assembly	NNP
cord-305054-4d84b2g6	61	15	.	.	.
cord-305054-4d84b2g6	62	1	To	to	TO
cord-305054-4d84b2g6	62	2	investigate	investigate	VB
cord-305054-4d84b2g6	62	3	how	how	WRB
cord-305054-4d84b2g6	62	4	the	the	DT
cord-305054-4d84b2g6	62	5	results	result	NNS
cord-305054-4d84b2g6	62	6	were	be	VBD
cord-305054-4d84b2g6	62	7	influenced	influence	VBN
cord-305054-4d84b2g6	62	8	by	by	IN
cord-305054-4d84b2g6	62	9	the	the	DT
cord-305054-4d84b2g6	62	10	choice	choice	NN
cord-305054-4d84b2g6	62	11	of	of	IN
cord-305054-4d84b2g6	62	12	reference	reference	NN
cord-305054-4d84b2g6	62	13	genome	genome	NN
cord-305054-4d84b2g6	62	14	,	,	,
cord-305054-4d84b2g6	62	15	we	-PRON-	PRP
cord-305054-4d84b2g6	62	16	explored	explore	VBD
cord-305054-4d84b2g6	62	17	a	a	DT
cord-305054-4d84b2g6	62	18	few	few	JJ
cord-305054-4d84b2g6	62	19	representative	representative	JJ
cord-305054-4d84b2g6	62	20	virus	virus	NN
cord-305054-4d84b2g6	62	21	genomes	genome	NNS
cord-305054-4d84b2g6	62	22	on	on	IN
cord-305054-4d84b2g6	62	23	the	the	DT
cord-305054-4d84b2g6	62	24	phylogeny	phylogeny	NN
cord-305054-4d84b2g6	62	25	tree	tree	NN
cord-305054-4d84b2g6	62	26	(	(	-LRB-
cord-305054-4d84b2g6	62	27	Table	table	NN
cord-305054-4d84b2g6	62	28	1	1	CD
cord-305054-4d84b2g6	62	29	)	)	-RRB-
cord-305054-4d84b2g6	62	30	as	as	IN
cord-305054-4d84b2g6	62	31	the	the	DT
cord-305054-4d84b2g6	62	32	reference	reference	NN
cord-305054-4d84b2g6	62	33	genome	genome	NN
cord-305054-4d84b2g6	62	34	.	.	.
cord-305054-4d84b2g6	63	1	These	these	DT
cord-305054-4d84b2g6	63	2	genomes	genome	NNS
cord-305054-4d84b2g6	63	3	were	be	VBD
cord-305054-4d84b2g6	63	4	selected	select	VBN
cord-305054-4d84b2g6	63	5	based	base	VBN
cord-305054-4d84b2g6	63	6	on	on	IN
cord-305054-4d84b2g6	63	7	previous	previous	JJ
cord-305054-4d84b2g6	63	8	studies	study	NNS
cord-305054-4d84b2g6	63	9	[	[	-LRB-
cord-305054-4d84b2g6	63	10	3	3	CD
cord-305054-4d84b2g6	63	11	,	,	,
cord-305054-4d84b2g6	63	12	9	9	CD
cord-305054-4d84b2g6	63	13	,	,	,
cord-305054-4d84b2g6	63	14	11	11	CD
cord-305054-4d84b2g6	63	15	,	,	,
cord-305054-4d84b2g6	63	16	13	13	CD
cord-305054-4d84b2g6	63	17	]	]	-RRB-
cord-305054-4d84b2g6	63	18	.	.	.
cord-305054-4d84b2g6	64	1	Once	once	RB
cord-305054-4d84b2g6	64	2	a	a	DT
cord-305054-4d84b2g6	64	3	reference	reference	NN
cord-305054-4d84b2g6	64	4	genome	genome	NN
cord-305054-4d84b2g6	64	5	was	be	VBD
cord-305054-4d84b2g6	64	6	picked	pick	VBN
cord-305054-4d84b2g6	64	7	,	,	,
cord-305054-4d84b2g6	64	8	the	the	DT
cord-305054-4d84b2g6	64	9	cleaned	clean	VBN
cord-305054-4d84b2g6	64	10	reads	read	NNS
cord-305054-4d84b2g6	64	11	were	be	VBD
cord-305054-4d84b2g6	64	12	aligned	align	VBN
cord-305054-4d84b2g6	64	13	to	to	IN
cord-305054-4d84b2g6	64	14	the	the	DT
cord-305054-4d84b2g6	64	15	reference	reference	NN
cord-305054-4d84b2g6	64	16	genome	genome	NN
cord-305054-4d84b2g6	64	17	using	use	VBG
cord-305054-4d84b2g6	64	18	BWA	BWA	NNP
cord-305054-4d84b2g6	64	19	-	-	HYPH
cord-305054-4d84b2g6	64	20	MEM	MEM	NNP
cord-305054-4d84b2g6	64	21	[	[	-LRB-
cord-305054-4d84b2g6	64	22	5	5	CD
cord-305054-4d84b2g6	64	23	]	]	-RRB-
cord-305054-4d84b2g6	64	24	,	,	,
cord-305054-4d84b2g6	64	25	and	and	CC
cord-305054-4d84b2g6	64	26	the	the	DT
cord-305054-4d84b2g6	64	27	mapped	map	VBN
cord-305054-4d84b2g6	64	28	reads	read	NNS
cord-305054-4d84b2g6	64	29	were	be	VBD
cord-305054-4d84b2g6	64	30	assembled	assemble	VBN
cord-305054-4d84b2g6	64	31	de	de	IN
cord-305054-4d84b2g6	64	32	novo	novo	NNP
cord-305054-4d84b2g6	64	33	using	use	VBG
cord-305054-4d84b2g6	64	34	MEGHIT	MEGHIT	NNP
cord-305054-4d84b2g6	64	35	(	(	-LRB-
cord-305054-4d84b2g6	64	36	version	version	NN
cord-305054-4d84b2g6	64	37	1.1.3	1.1.3	CD
cord-305054-4d84b2g6	64	38	)	)	-RRB-
cord-305054-4d84b2g6	64	39	with	with	IN
cord-305054-4d84b2g6	64	40	meta	meta	JJ
cord-305054-4d84b2g6	64	41	-	-	HYPH
cord-305054-4d84b2g6	64	42	sensitive	sensitive	JJ
cord-305054-4d84b2g6	64	43	mode	mode	NN
cord-305054-4d84b2g6	64	44	[	[	-LRB-
cord-305054-4d84b2g6	64	45	4	4	CD
cord-305054-4d84b2g6	64	46	]	]	-RRB-
cord-305054-4d84b2g6	64	47	.	.	.
cord-305054-4d84b2g6	65	1	The	the	DT
cord-305054-4d84b2g6	65	2	resulting	result	VBG
cord-305054-4d84b2g6	65	3	contigs	contig	NNS
cord-305054-4d84b2g6	65	4	were	be	VBD
cord-305054-4d84b2g6	65	5	concatenated	concatenate	VBN
cord-305054-4d84b2g6	65	6	into	into	IN
cord-305054-4d84b2g6	65	7	an	an	DT
cord-305054-4d84b2g6	65	8	assembly	assembly	NN
cord-305054-4d84b2g6	65	9	by	by	IN
cord-305054-4d84b2g6	65	10	aligning	align	VBG
cord-305054-4d84b2g6	65	11	them	-PRON-	PRP
cord-305054-4d84b2g6	65	12	to	to	IN
cord-305054-4d84b2g6	65	13	the	the	DT
cord-305054-4d84b2g6	65	14	reference	reference	NN
cord-305054-4d84b2g6	65	15	genome	genome	NN
cord-305054-4d84b2g6	65	16	.	.	.
cord-305054-4d84b2g6	66	1	Phylogenetic	phylogenetic	JJ
cord-305054-4d84b2g6	66	2	distance	distance	NN
cord-305054-4d84b2g6	66	3	analysis	analysis	NN
cord-305054-4d84b2g6	66	4	was	be	VBD
cord-305054-4d84b2g6	66	5	performed	perform	VBN
cord-305054-4d84b2g6	66	6	using	use	VBG
cord-305054-4d84b2g6	66	7	MEGA	MEGA	NNP
cord-305054-4d84b2g6	66	8	X	X	NNP
cord-305054-4d84b2g6	66	9	(	(	-LRB-
cord-305054-4d84b2g6	66	10	version	version	NN
cord-305054-4d84b2g6	66	11	10.1.8	10.1.8	CD
cord-305054-4d84b2g6	66	12	)	)	-RRB-
cord-305054-4d84b2g6	66	13	[	[	-LRB-
cord-305054-4d84b2g6	66	14	2	2	CD
cord-305054-4d84b2g6	66	15	]	]	-RRB-
cord-305054-4d84b2g6	66	16	.The	.The	.
cord-305054-4d84b2g6	67	1	whole	whole	JJ
cord-305054-4d84b2g6	67	2	genome	genome	NN
cord-305054-4d84b2g6	67	3	was	be	VBD
cord-305054-4d84b2g6	67	4	used	use	VBN
cord-305054-4d84b2g6	67	5	in	in	IN
cord-305054-4d84b2g6	67	6	phylogenetic	phylogenetic	NN
cord-305054-4d84b2g6	67	7	and	and	CC
cord-305054-4d84b2g6	67	8	distance	distance	NN
cord-305054-4d84b2g6	67	9	analysis	analysis	NN
cord-305054-4d84b2g6	67	10	,	,	,
cord-305054-4d84b2g6	67	11	and	and	CC
cord-305054-4d84b2g6	67	12	phylogenetic	phylogenetic	JJ
cord-305054-4d84b2g6	67	13	trees	tree	NNS
cord-305054-4d84b2g6	67	14	were	be	VBD
cord-305054-4d84b2g6	67	15	constructed	construct	VBN
cord-305054-4d84b2g6	67	16	in	in	IN
cord-305054-4d84b2g6	67	17	the	the	DT
cord-305054-4d84b2g6	67	18	best	good	JJS
cord-305054-4d84b2g6	67	19	-	-	HYPH
cord-305054-4d84b2g6	67	20	fit	fit	JJ
cord-305054-4d84b2g6	67	21	DNA	dna	NN
cord-305054-4d84b2g6	67	22	/	/	SYM
cord-305054-4d84b2g6	67	23	amino	amino	NN
cord-305054-4d84b2g6	67	24	acid	acid	NN
cord-305054-4d84b2g6	67	25	substitution	substitution	NN
cord-305054-4d84b2g6	67	26	mode	mode	NN
cord-305054-4d84b2g6	67	27	with	with	IN
cord-305054-4d84b2g6	67	28	1000	1000	CD
cord-305054-4d84b2g6	67	29	bootstrap	bootstrap	NN
cord-305054-4d84b2g6	67	30	replications	replication	NNS
cord-305054-4d84b2g6	67	31	.	.	.
cord-305054-4d84b2g6	68	1	The	the	DT
cord-305054-4d84b2g6	68	2	whole	whole	JJ
cord-305054-4d84b2g6	68	3	genome	genome	NN
cord-305054-4d84b2g6	68	4	nucleotide	nucleotide	JJ
cord-305054-4d84b2g6	68	5	identity	identity	NN
cord-305054-4d84b2g6	68	6	analysis	analysis	NN
cord-305054-4d84b2g6	68	7	was	be	VBD
cord-305054-4d84b2g6	68	8	performed	perform	VBN
cord-305054-4d84b2g6	68	9	in	in	IN
cord-305054-4d84b2g6	68	10	SimPlot	SimPlot	NNP
cord-305054-4d84b2g6	68	11	3.5.1	3.5.1	CD
cord-305054-4d84b2g6	68	12	[	[	-LRB-
cord-305054-4d84b2g6	68	13	10	10	CD
cord-305054-4d84b2g6	68	14	]	]	-RRB-
cord-305054-4d84b2g6	68	15	.	.	.
cord-305054-4d84b2g6	69	1	A	a	DT
cord-305054-4d84b2g6	69	2	total	total	NN
cord-305054-4d84b2g6	69	3	of	of	IN
cord-305054-4d84b2g6	69	4	eight	eight	CD
cord-305054-4d84b2g6	69	5	viral	viral	JJ
cord-305054-4d84b2g6	69	6	genomes	genome	NNS
cord-305054-4d84b2g6	69	7	were	be	VBD
cord-305054-4d84b2g6	69	8	tested	test	VBN
cord-305054-4d84b2g6	69	9	as	as	IN
cord-305054-4d84b2g6	69	10	the	the	DT
cord-305054-4d84b2g6	69	11	reference	reference	NN
cord-305054-4d84b2g6	69	12	genome	genome	NN
cord-305054-4d84b2g6	69	13	in	in	IN
cord-305054-4d84b2g6	69	14	reference	reference	NN
cord-305054-4d84b2g6	69	15	-	-	HYPH
cord-305054-4d84b2g6	69	16	guided	guide	VBN
cord-305054-4d84b2g6	69	17	de	de	IN
cord-305054-4d84b2g6	69	18	novo	novo	NNP
cord-305054-4d84b2g6	69	19	assembling	assembling	NN
cord-305054-4d84b2g6	69	20	.	.	.
cord-305054-4d84b2g6	70	1	Numbers	number	NNS
cord-305054-4d84b2g6	70	2	of	of	IN
cord-305054-4d84b2g6	70	3	mapped	map	VBN
cord-305054-4d84b2g6	70	4	reads	read	VBZ
cord-305054-4d84b2g6	70	5	ranged	range	VBN
cord-305054-4d84b2g6	70	6	from	from	IN
cord-305054-4d84b2g6	70	7	2	2	CD
cord-305054-4d84b2g6	70	8	to	to	IN
cord-305054-4d84b2g6	70	9	3,060	3,060	CD
cord-305054-4d84b2g6	70	10	,	,	,
cord-305054-4d84b2g6	70	11	and	and	CC
cord-305054-4d84b2g6	70	12	length	length	NN
cord-305054-4d84b2g6	70	13	of	of	IN
cord-305054-4d84b2g6	70	14	the	the	DT
cord-305054-4d84b2g6	70	15	resulting	result	VBG
cord-305054-4d84b2g6	70	16	draft	draft	NN
cord-305054-4d84b2g6	70	17	assemblies	assembly	NNS
cord-305054-4d84b2g6	70	18	varied	vary	VBN
cord-305054-4d84b2g6	70	19	from	from	IN
cord-305054-4d84b2g6	70	20	5,969	5,969	CD
cord-305054-4d84b2g6	70	21	to	to	IN
cord-305054-4d84b2g6	70	22	22,419	22,419	CD
cord-305054-4d84b2g6	70	23	bp	bp	NNP
cord-305054-4d84b2g6	70	24	(	(	-LRB-
cord-305054-4d84b2g6	70	25	Table	Table	NNP
cord-305054-4d84b2g6	70	26	2	2	CD
cord-305054-4d84b2g6	70	27	)	)	-RRB-
cord-305054-4d84b2g6	70	28	.	.	.
cord-305054-4d84b2g6	71	1	Two	two	CD
cord-305054-4d84b2g6	71	2	reference	reference	NN
cord-305054-4d84b2g6	71	3	genomes	genome	NNS
cord-305054-4d84b2g6	71	4	,	,	,
cord-305054-4d84b2g6	71	5	MersCoV	MersCoV	,
cord-305054-4d84b2g6	71	6	and	and	CC
cord-305054-4d84b2g6	71	7	Bat	Bat	NNP
cord-305054-4d84b2g6	71	8	Hp	Hp	NNP
cord-305054-4d84b2g6	71	9	-	-	HYPH
cord-305054-4d84b2g6	71	10	BetaCoV	BetaCoV	NNS
cord-305054-4d84b2g6	71	11	Zhejiang2013	Zhejiang2013	NNP
cord-305054-4d84b2g6	71	12	,	,	,
cord-305054-4d84b2g6	71	13	failed	fail	VBD
cord-305054-4d84b2g6	71	14	in	in	IN
cord-305054-4d84b2g6	71	15	reads	read	NNS
cord-305054-4d84b2g6	71	16	assembling	assemble	VBG
cord-305054-4d84b2g6	71	17	due	due	IN
cord-305054-4d84b2g6	71	18	to	to	IN
cord-305054-4d84b2g6	71	19	the	the	DT
cord-305054-4d84b2g6	71	20	limited	limited	JJ
cord-305054-4d84b2g6	71	21	number	number	NN
cord-305054-4d84b2g6	71	22	of	of	IN
cord-305054-4d84b2g6	71	23	remaining	remain	VBG
cord-305054-4d84b2g6	71	24	reads	read	NNS
cord-305054-4d84b2g6	71	25	.	.	.
cord-305054-4d84b2g6	72	1	Less	Less	JJR
cord-305054-4d84b2g6	72	2	than	than	IN
cord-305054-4d84b2g6	72	3	1,000	1,000	CD
cord-305054-4d84b2g6	72	4	reads	read	NNS
cord-305054-4d84b2g6	72	5	were	be	VBD
cord-305054-4d84b2g6	72	6	mapped	map	VBN
cord-305054-4d84b2g6	72	7	to	to	IN
cord-305054-4d84b2g6	72	8	three	three	CD
cord-305054-4d84b2g6	72	9	reference	reference	NN
cord-305054-4d84b2g6	72	10	genomes	genome	NNS
cord-305054-4d84b2g6	72	11	,	,	,
cord-305054-4d84b2g6	72	12	BJ01	BJ01	NNP
cord-305054-4d84b2g6	72	13	,	,	,
cord-305054-4d84b2g6	72	14	BM48_31	BM48_31	NNP
cord-305054-4d84b2g6	72	15	,	,	,
cord-305054-4d84b2g6	72	16	and	and	CC
cord-305054-4d84b2g6	72	17	Longquan140	Longquan140	NNP
cord-305054-4d84b2g6	72	18	,	,	,
cord-305054-4d84b2g6	72	19	resulting	result	VBG
cord-305054-4d84b2g6	72	20	in	in	IN
cord-305054-4d84b2g6	72	21	shorter	short	JJR
cord-305054-4d84b2g6	72	22	assemblies	assembly	NNS
cord-305054-4d84b2g6	72	23	.	.	.
cord-305054-4d84b2g6	73	1	A	a	DT
cord-305054-4d84b2g6	73	2	total	total	NN
cord-305054-4d84b2g6	73	3	of	of	IN
cord-305054-4d84b2g6	73	4	1,061	1,061	CD
cord-305054-4d84b2g6	73	5	reads	read	NNS
cord-305054-4d84b2g6	73	6	were	be	VBD
cord-305054-4d84b2g6	73	7	mapped	map	VBN
cord-305054-4d84b2g6	73	8	to	to	IN
cord-305054-4d84b2g6	73	9	ZC45	ZC45	NNP
cord-305054-4d84b2g6	73	10	and	and	CC
cord-305054-4d84b2g6	73	11	subsequently	subsequently	RB
cord-305054-4d84b2g6	73	12	assembled	assemble	VBD
cord-305054-4d84b2g6	73	13	into	into	IN
cord-305054-4d84b2g6	73	14	a	a	DT
cord-305054-4d84b2g6	73	15	21,819-bp	21,819-bp	CD
cord-305054-4d84b2g6	73	16	assembly	assembly	NN
cord-305054-4d84b2g6	73	17	with	with	IN
cord-305054-4d84b2g6	73	18	67.8	67.8	CD
cord-305054-4d84b2g6	73	19	%	%	NN
cord-305054-4d84b2g6	73	20	of	of	IN
cord-305054-4d84b2g6	73	21	coverage	coverage	NN
cord-305054-4d84b2g6	73	22	.	.	.
cord-305054-4d84b2g6	74	1	RaTG13	RaTG13	NNP
cord-305054-4d84b2g6	74	2	,	,	,
cord-305054-4d84b2g6	74	3	which	which	WDT
cord-305054-4d84b2g6	74	4	is	be	VBZ
cord-305054-4d84b2g6	74	5	a	a	DT
cord-305054-4d84b2g6	74	6	bat	bat	NN
cord-305054-4d84b2g6	74	7	CoV	cov	NN
cord-305054-4d84b2g6	74	8	,	,	,
cord-305054-4d84b2g6	74	9	had	have	VBD
cord-305054-4d84b2g6	74	10	1,287	1,287	CD
cord-305054-4d84b2g6	74	11	reads	read	NNS
cord-305054-4d84b2g6	74	12	mapped	map	VBN
cord-305054-4d84b2g6	74	13	to	to	IN
cord-305054-4d84b2g6	74	14	it	-PRON-	PRP
cord-305054-4d84b2g6	74	15	,	,	,
cord-305054-4d84b2g6	74	16	and	and	CC
cord-305054-4d84b2g6	74	17	the	the	DT
cord-305054-4d84b2g6	74	18	resulting	result	VBG
cord-305054-4d84b2g6	74	19	assembly	assembly	NN
cord-305054-4d84b2g6	74	20	has	have	VBZ
cord-305054-4d84b2g6	74	21	total	total	JJ
cord-305054-4d84b2g6	74	22	length	length	NN
cord-305054-4d84b2g6	74	23	of	of	IN
cord-305054-4d84b2g6	74	24	21,925	21,925	CD
cord-305054-4d84b2g6	74	25	and	and	CC
cord-305054-4d84b2g6	74	26	N50	N50	NNP
cord-305054-4d84b2g6	74	27	of	of	IN
cord-305054-4d84b2g6	74	28	1,428	1,428	CD
cord-305054-4d84b2g6	74	29	.	.	.
cord-305054-4d84b2g6	75	1	A	a	DT
cord-305054-4d84b2g6	75	2	total	total	NN
cord-305054-4d84b2g6	75	3	of	of	IN
cord-305054-4d84b2g6	75	4	3,060	3,060	CD
cord-305054-4d84b2g6	75	5	reads	read	NNS
cord-305054-4d84b2g6	75	6	were	be	VBD
cord-305054-4d84b2g6	75	7	mapped	map	VBN
cord-305054-4d84b2g6	75	8	to	to	IN
cord-305054-4d84b2g6	75	9	Wuhan	Wuhan	NNP
cord-305054-4d84b2g6	75	10	-	-	HYPH
cord-305054-4d84b2g6	75	11	Hu-1	Hu-1	NNP
cord-305054-4d84b2g6	75	12	,	,	,
cord-305054-4d84b2g6	75	13	a	a	DT
cord-305054-4d84b2g6	75	14	human	human	JJ
cord-305054-4d84b2g6	75	15	SARS	SARS	NNP
cord-305054-4d84b2g6	75	16	-	-	HYPH
cord-305054-4d84b2g6	75	17	CoV-2	CoV-2	NNP
cord-305054-4d84b2g6	75	18	strain	strain	NN
cord-305054-4d84b2g6	75	19	,	,	,
cord-305054-4d84b2g6	75	20	which	which	WDT
cord-305054-4d84b2g6	75	21	was	be	VBD
cord-305054-4d84b2g6	75	22	the	the	DT
cord-305054-4d84b2g6	75	23	highest	high	JJS
cord-305054-4d84b2g6	75	24	number	number	NN
cord-305054-4d84b2g6	75	25	among	among	IN
cord-305054-4d84b2g6	75	26	all	all	DT
cord-305054-4d84b2g6	75	27	genomes	genome	NNS
cord-305054-4d84b2g6	75	28	we	-PRON-	PRP
cord-305054-4d84b2g6	75	29	surveyed	survey	VBD
cord-305054-4d84b2g6	75	30	.	.	.
cord-305054-4d84b2g6	76	1	The	the	DT
cord-305054-4d84b2g6	76	2	assembly	assembly	NN
cord-305054-4d84b2g6	76	3	guided	guide	VBN
cord-305054-4d84b2g6	76	4	by	by	IN
cord-305054-4d84b2g6	76	5	RaTG13	RaTG13	NNP
cord-305054-4d84b2g6	76	6	and	and	CC
cord-305054-4d84b2g6	76	7	Wuhan	Wuhan	NNP
cord-305054-4d84b2g6	76	8	-	-	HYPH
cord-305054-4d84b2g6	76	9	Hu-1	Hu-1	NNP
cord-305054-4d84b2g6	76	10	showed	show	VBD
cord-305054-4d84b2g6	76	11	similar	similar	JJ
cord-305054-4d84b2g6	76	12	coverage	coverage	NN
cord-305054-4d84b2g6	76	13	at	at	IN
cord-305054-4d84b2g6	76	14	about	about	RB
cord-305054-4d84b2g6	76	15	eighty	eighty	CD
cord-305054-4d84b2g6	76	16	percent	percent	NN
cord-305054-4d84b2g6	76	17	.	.	.
cord-305054-4d84b2g6	77	1	However	however	RB
cord-305054-4d84b2g6	77	2	,	,	,
cord-305054-4d84b2g6	77	3	the	the	DT
cord-305054-4d84b2g6	77	4	resulting	result	VBG
cord-305054-4d84b2g6	77	5	assembly	assembly	NN
cord-305054-4d84b2g6	77	6	had	have	VBD
cord-305054-4d84b2g6	77	7	shorter	short	JJR
cord-305054-4d84b2g6	77	8	total	total	JJ
cord-305054-4d84b2g6	77	9	length	length	NN
cord-305054-4d84b2g6	77	10	(	(	-LRB-
cord-305054-4d84b2g6	77	11	21,819	21,819	CD
cord-305054-4d84b2g6	77	12	)	)	-RRB-
cord-305054-4d84b2g6	77	13	and	and	CC
cord-305054-4d84b2g6	77	14	N50	N50	NNP
cord-305054-4d84b2g6	77	15	(	(	-LRB-
cord-305054-4d84b2g6	77	16	1	1	CD
cord-305054-4d84b2g6	77	17	,	,	,
cord-305054-4d84b2g6	77	18	195	195	CD
cord-305054-4d84b2g6	77	19	)	)	-RRB-
cord-305054-4d84b2g6	77	20	than	than	IN
cord-305054-4d84b2g6	77	21	those	those	DT
cord-305054-4d84b2g6	77	22	of	of	IN
cord-305054-4d84b2g6	77	23	the	the	DT
cord-305054-4d84b2g6	77	24	assembly	assembly	NN
cord-305054-4d84b2g6	77	25	that	that	WDT
cord-305054-4d84b2g6	77	26	used	use	VBD
cord-305054-4d84b2g6	77	27	RaTG13	RaTG13	NNP
cord-305054-4d84b2g6	77	28	as	as	IN
cord-305054-4d84b2g6	77	29	reference	reference	NN
cord-305054-4d84b2g6	77	30	.	.	.
cord-305054-4d84b2g6	78	1	To	to	TO
cord-305054-4d84b2g6	78	2	understand	understand	VB
cord-305054-4d84b2g6	78	3	this	this	DT
cord-305054-4d84b2g6	78	4	seemly	seemly	JJ
cord-305054-4d84b2g6	78	5	contradiction	contradiction	NN
cord-305054-4d84b2g6	78	6	,	,	,
cord-305054-4d84b2g6	78	7	we	-PRON-	PRP
cord-305054-4d84b2g6	78	8	investigated	investigate	VBD
cord-305054-4d84b2g6	78	9	the	the	DT
cord-305054-4d84b2g6	78	10	reads	read	NNS
cord-305054-4d84b2g6	78	11	coverage	coverage	NN
cord-305054-4d84b2g6	78	12	and	and	CC
cord-305054-4d84b2g6	78	13	depth	depth	NN
cord-305054-4d84b2g6	78	14	on	on	IN
cord-305054-4d84b2g6	78	15	RaTG13	RaTG13	NNP
cord-305054-4d84b2g6	78	16	and	and	CC
cord-305054-4d84b2g6	78	17	Wuhan	Wuhan	NNP
cord-305054-4d84b2g6	78	18	-	-	HYPH
cord-305054-4d84b2g6	78	19	Hu-1	Hu-1	NNP
cord-305054-4d84b2g6	78	20	.	.	.
cord-305054-4d84b2g6	79	1	The	the	DT
cord-305054-4d84b2g6	79	2	results	result	NNS
cord-305054-4d84b2g6	79	3	(	(	-LRB-
cord-305054-4d84b2g6	79	4	Figure	figure	NN
cord-305054-4d84b2g6	79	5	1	1	CD
cord-305054-4d84b2g6	79	6	)	)	-RRB-
cord-305054-4d84b2g6	79	7	show	show	VBP
cord-305054-4d84b2g6	79	8	that	that	IN
cord-305054-4d84b2g6	79	9	there	there	EX
cord-305054-4d84b2g6	79	10	were	be	VBD
cord-305054-4d84b2g6	79	11	an	an	DT
cord-305054-4d84b2g6	79	12	excessive	excessive	JJ
cord-305054-4d84b2g6	79	13	number	number	NN
cord-305054-4d84b2g6	79	14	of	of	IN
cord-305054-4d84b2g6	79	15	reads	read	NNS
cord-305054-4d84b2g6	79	16	mapped	map	VBN
cord-305054-4d84b2g6	79	17	to	to	IN
cord-305054-4d84b2g6	79	18	distal	distal	JJ
cord-305054-4d84b2g6	79	19	regions	region	NNS
cord-305054-4d84b2g6	79	20	of	of	IN
cord-305054-4d84b2g6	79	21	Wuhan	Wuhan	NNP
cord-305054-4d84b2g6	79	22	-	-	HYPH
cord-305054-4d84b2g6	79	23	Hu-1	Hu-1	NNP
cord-305054-4d84b2g6	79	24	,	,	,
cord-305054-4d84b2g6	79	25	which	which	WDT
cord-305054-4d84b2g6	79	26	could	could	MD
cord-305054-4d84b2g6	79	27	indicate	indicate	VB
cord-305054-4d84b2g6	79	28	artifacts	artifact	NNS
cord-305054-4d84b2g6	79	29	or	or	CC
cord-305054-4d84b2g6	79	30	contaminations	contamination	NNS
cord-305054-4d84b2g6	79	31	during	during	IN
cord-305054-4d84b2g6	79	32	the	the	DT
cord-305054-4d84b2g6	79	33	sequencing	sequencing	NN
cord-305054-4d84b2g6	79	34	.	.	.
cord-305054-4d84b2g6	80	1	After	after	IN
cord-305054-4d84b2g6	80	2	removing	remove	VBG
cord-305054-4d84b2g6	80	3	these	these	DT
cord-305054-4d84b2g6	80	4	tail	tail	NN
cord-305054-4d84b2g6	80	5	regions	region	NNS
cord-305054-4d84b2g6	80	6	(	(	-LRB-
cord-305054-4d84b2g6	80	7	with	with	IN
cord-305054-4d84b2g6	80	8	>	>	XX
cord-305054-4d84b2g6	80	9	200X	200x	CD
cord-305054-4d84b2g6	80	10	depth	depth	NN
cord-305054-4d84b2g6	80	11	)	)	-RRB-
cord-305054-4d84b2g6	80	12	,	,	,
cord-305054-4d84b2g6	80	13	62	62	CD
cord-305054-4d84b2g6	80	14	more	more	JJR
cord-305054-4d84b2g6	80	15	unique	unique	JJ
cord-305054-4d84b2g6	80	16	reads	read	NNS
cord-305054-4d84b2g6	80	17	were	be	VBD
cord-305054-4d84b2g6	80	18	mapped	map	VBN
cord-305054-4d84b2g6	80	19	to	to	IN
cord-305054-4d84b2g6	80	20	Wuhan	Wuhan	NNP
cord-305054-4d84b2g6	80	21	-	-	HYPH
cord-305054-4d84b2g6	80	22	Hu-1	Hu-1	NNP
cord-305054-4d84b2g6	80	23	.	.	.
cord-305054-4d84b2g6	81	1	Figure	figure	NN
cord-305054-4d84b2g6	81	2	2	2	CD
cord-305054-4d84b2g6	81	3	shows	show	VBZ
cord-305054-4d84b2g6	81	4	the	the	DT
cord-305054-4d84b2g6	81	5	overlap	overlap	NN
cord-305054-4d84b2g6	81	6	of	of	IN
cord-305054-4d84b2g6	81	7	between	between	IN
cord-305054-4d84b2g6	81	8	the	the	DT
cord-305054-4d84b2g6	81	9	unique	unique	JJ
cord-305054-4d84b2g6	81	10	reads	read	NNS
cord-305054-4d84b2g6	81	11	mapped	map	VBN
cord-305054-4d84b2g6	81	12	to	to	IN
cord-305054-4d84b2g6	81	13	RaTG13	RaTG13	NNP
cord-305054-4d84b2g6	81	14	and	and	CC
cord-305054-4d84b2g6	81	15	Wuhan	Wuhan	NNP
cord-305054-4d84b2g6	81	16	-	-	HYPH
cord-305054-4d84b2g6	81	17	Hu-1	Hu-1	NNP
cord-305054-4d84b2g6	81	18	.	.	.
cord-305054-4d84b2g6	82	1	unique	unique	JJ
cord-305054-4d84b2g6	82	2	reads	read	NNS
cord-305054-4d84b2g6	82	3	were	be	VBD
cord-305054-4d84b2g6	82	4	used	use	VBN
cord-305054-4d84b2g6	82	5	to	to	TO
cord-305054-4d84b2g6	82	6	construct	construct	VB
cord-305054-4d84b2g6	82	7	Venn	Venn	NNP
cord-305054-4d84b2g6	82	8	diagrams	diagram	NNS
cord-305054-4d84b2g6	82	9	.	.	.
cord-305054-4d84b2g6	83	1	All	all	DT
cord-305054-4d84b2g6	83	2	reads	read	VBZ
cord-305054-4d84b2g6	83	3	mapped	map	VBN
cord-305054-4d84b2g6	83	4	to	to	IN
cord-305054-4d84b2g6	83	5	Italy	Italy	NNP
cord-305054-4d84b2g6	83	6	strain	strain	NN
cord-305054-4d84b2g6	83	7	were	be	VBD
cord-305054-4d84b2g6	83	8	also	also	RB
cord-305054-4d84b2g6	83	9	mapped	map	VBN
cord-305054-4d84b2g6	83	10	to	to	IN
cord-305054-4d84b2g6	83	11	Wuahn	Wuahn	NNP
cord-305054-4d84b2g6	83	12	-	-	HYPH
cord-305054-4d84b2g6	83	13	Hu-1	Hu-1	NNP
cord-305054-4d84b2g6	83	14	genome	genome	NN
cord-305054-4d84b2g6	84	1	(	(	-LRB-
cord-305054-4d84b2g6	84	2	Figure	figure	NN
cord-305054-4d84b2g6	84	3	2	2	CD
cord-305054-4d84b2g6	84	4	)	)	-RRB-
cord-305054-4d84b2g6	84	5	.	.	.
cord-305054-4d84b2g6	85	1	The	the	DT
cord-305054-4d84b2g6	85	2	additional	additional	JJ
cord-305054-4d84b2g6	85	3	1516	1516	CD
cord-305054-4d84b2g6	85	4	unique	unique	JJ
cord-305054-4d84b2g6	85	5	reads	read	NNS
cord-305054-4d84b2g6	85	6	were	be	VBD
cord-305054-4d84b2g6	85	7	mapped	map	VBN
cord-305054-4d84b2g6	85	8	to	to	IN
cord-305054-4d84b2g6	85	9	Wuhan	Wuhan	NNP
cord-305054-4d84b2g6	85	10	-	-	HYPH
cord-305054-4d84b2g6	85	11	Hu-1	Hu-1	NNP
cord-305054-4d84b2g6	85	12	.	.	.
cord-305054-4d84b2g6	86	1	Most	Most	JJS
cord-305054-4d84b2g6	86	2	reads	read	NNS
cord-305054-4d84b2g6	86	3	were	be	VBD
cord-305054-4d84b2g6	86	4	mapped	map	VBN
cord-305054-4d84b2g6	86	5	to	to	IN
cord-305054-4d84b2g6	86	6	both	both	DT
cord-305054-4d84b2g6	86	7	RaTG13	RaTG13	NNP
cord-305054-4d84b2g6	86	8	and	and	CC
cord-305054-4d84b2g6	86	9	Italy	Italy	NNP
cord-305054-4d84b2g6	86	10	strain	strain	VBP
cord-305054-4d84b2g6	86	11	,	,	,
cord-305054-4d84b2g6	86	12	but	but	CC
cord-305054-4d84b2g6	86	13	a	a	DT
cord-305054-4d84b2g6	86	14	total	total	NN
cord-305054-4d84b2g6	86	15	of	of	IN
cord-305054-4d84b2g6	86	16	45	45	CD
cord-305054-4d84b2g6	86	17	reads	read	NNS
cord-305054-4d84b2g6	86	18	were	be	VBD
cord-305054-4d84b2g6	86	19	aligned	align	VBN
cord-305054-4d84b2g6	86	20	to	to	IN
cord-305054-4d84b2g6	86	21	either	either	DT
cord-305054-4d84b2g6	86	22	one	one	NN
cord-305054-4d84b2g6	86	23	.	.	.
cord-305054-4d84b2g6	87	1	Bat	bat	NN
cord-305054-4d84b2g6	87	2	-	-	HYPH
cord-305054-4d84b2g6	87	3	CoV	CoV	NNP
cord-305054-4d84b2g6	87	4	,	,	,
cord-305054-4d84b2g6	87	5	ZC45	ZC45	NNP
cord-305054-4d84b2g6	87	6	and	and	CC
cord-305054-4d84b2g6	87	7	RaTG13	RaTG13	NNP
cord-305054-4d84b2g6	87	8	,	,	,
cord-305054-4d84b2g6	87	9	shared	share	VBD
cord-305054-4d84b2g6	87	10	999	999	CD
cord-305054-4d84b2g6	87	11	reads	read	NNS
cord-305054-4d84b2g6	87	12	in	in	IN
cord-305054-4d84b2g6	87	13	alignment	alignment	NN
cord-305054-4d84b2g6	87	14	,	,	,
cord-305054-4d84b2g6	87	15	and	and	CC
cord-305054-4d84b2g6	87	16	RaTG13	RaTG13	NNP
cord-305054-4d84b2g6	87	17	genome	genome	NN
cord-305054-4d84b2g6	87	18	guided	guide	VBN
cord-305054-4d84b2g6	87	19	over	over	IN
cord-305054-4d84b2g6	87	20	two	two	CD
cord-305054-4d84b2g6	87	21	hundred	hundred	CD
cord-305054-4d84b2g6	87	22	more	more	JJR
cord-305054-4d84b2g6	87	23	reads	read	NNS
cord-305054-4d84b2g6	87	24	into	into	IN
cord-305054-4d84b2g6	87	25	assembly	assembly	NN
cord-305054-4d84b2g6	87	26	.	.	.
cord-305054-4d84b2g6	88	1	The	the	DT
cord-305054-4d84b2g6	88	2	two	two	CD
cord-305054-4d84b2g6	88	3	assemblies	assembly	NNS
cord-305054-4d84b2g6	88	4	that	that	WDT
cord-305054-4d84b2g6	88	5	used	use	VBD
cord-305054-4d84b2g6	88	6	RaTG13	RaTG13	NNP
cord-305054-4d84b2g6	88	7	and	and	CC
cord-305054-4d84b2g6	88	8	Wuhan	Wuhan	NNP
cord-305054-4d84b2g6	88	9	-	-	HYPH
cord-305054-4d84b2g6	88	10	Hu-1	Hu-1	NNP
cord-305054-4d84b2g6	88	11	as	as	IN
cord-305054-4d84b2g6	88	12	reference	reference	NN
cord-305054-4d84b2g6	88	13	genomes	genome	NNS
cord-305054-4d84b2g6	88	14	respectively	respectively	RB
cord-305054-4d84b2g6	88	15	,	,	,
cord-305054-4d84b2g6	88	16	were	be	VBD
cord-305054-4d84b2g6	88	17	aligned	align	VBN
cord-305054-4d84b2g6	88	18	with	with	IN
cord-305054-4d84b2g6	88	19	the	the	DT
cord-305054-4d84b2g6	88	20	eight	eight	CD
cord-305054-4d84b2g6	88	21	reference	reference	NN
cord-305054-4d84b2g6	88	22	viral	viral	JJ
cord-305054-4d84b2g6	88	23	genomes	genome	NNS
cord-305054-4d84b2g6	88	24	in	in	IN
cord-305054-4d84b2g6	88	25	Table	Table	NNP
cord-305054-4d84b2g6	88	26	1	1	CD
cord-305054-4d84b2g6	88	27	in	in	IN
cord-305054-4d84b2g6	88	28	a	a	DT
cord-305054-4d84b2g6	88	29	multiple	multiple	JJ
cord-305054-4d84b2g6	88	30	alignment	alignment	NN
cord-305054-4d84b2g6	88	31	.	.	.
cord-305054-4d84b2g6	89	1	The	the	DT
cord-305054-4d84b2g6	89	2	multiple	multiple	JJ
cord-305054-4d84b2g6	89	3	alignment	alignment	NN
cord-305054-4d84b2g6	89	4	result	result	NN
cord-305054-4d84b2g6	89	5	was	be	VBD
cord-305054-4d84b2g6	89	6	used	use	VBN
cord-305054-4d84b2g6	89	7	for	for	IN
cord-305054-4d84b2g6	89	8	similarity	similarity	NN
cord-305054-4d84b2g6	89	9	analysis	analysis	NN
cord-305054-4d84b2g6	89	10	and	and	CC
cord-305054-4d84b2g6	89	11	phylogenetic	phylogenetic	NN
cord-305054-4d84b2g6	89	12	analysis	analysis	NN
cord-305054-4d84b2g6	89	13	.	.	.
cord-305054-4d84b2g6	90	1	In	in	IN
cord-305054-4d84b2g6	90	2	terms	term	NNS
cord-305054-4d84b2g6	90	3	of	of	IN
cord-305054-4d84b2g6	90	4	the	the	DT
cord-305054-4d84b2g6	90	5	whole	whole	JJ
cord-305054-4d84b2g6	90	6	genome	genome	NN
cord-305054-4d84b2g6	90	7	nucleotide	nucleotide	NN
cord-305054-4d84b2g6	90	8	,	,	,
cord-305054-4d84b2g6	90	9	the	the	DT
cord-305054-4d84b2g6	90	10	RaTG13-guided	RaTG13-guided	NNP
cord-305054-4d84b2g6	90	11	assembly	assembly	NN
cord-305054-4d84b2g6	90	12	showed	show	VBD
cord-305054-4d84b2g6	90	13	85.8	85.8	CD
cord-305054-4d84b2g6	90	14	%	%	NN
cord-305054-4d84b2g6	90	15	and	and	CC
cord-305054-4d84b2g6	90	16	85.2	85.2	CD
cord-305054-4d84b2g6	90	17	%	%	NN
cord-305054-4d84b2g6	90	18	identity	identity	NN
cord-305054-4d84b2g6	90	19	to	to	IN
cord-305054-4d84b2g6	90	20	RaTG13	RaTG13	NNP
cord-305054-4d84b2g6	90	21	and	and	CC
cord-305054-4d84b2g6	90	22	Wuhan	Wuhan	NNP
cord-305054-4d84b2g6	90	23	-	-	HYPH
cord-305054-4d84b2g6	90	24	Hu-1	Hu-1	NNP
cord-305054-4d84b2g6	90	25	,	,	,
cord-305054-4d84b2g6	90	26	respectively	respectively	RB
cord-305054-4d84b2g6	90	27	,	,	,
cord-305054-4d84b2g6	90	28	and	and	CC
cord-305054-4d84b2g6	90	29	the	the	DT
cord-305054-4d84b2g6	90	30	Wuhan	Wuhan	NNP
cord-305054-4d84b2g6	90	31	-	-	HYPH
cord-305054-4d84b2g6	90	32	Hu-1-guided	hu-1-guide	VBN
cord-305054-4d84b2g6	90	33	assembly	assembly	NNP
cord-305054-4d84b2g6	90	34	showed	show	VBD
cord-305054-4d84b2g6	90	35	88.6	88.6	CD
cord-305054-4d84b2g6	90	36	and	and	CC
cord-305054-4d84b2g6	90	37	88.8	88.8	CD
cord-305054-4d84b2g6	90	38	%	%	NN
cord-305054-4d84b2g6	90	39	identity	identity	NN
cord-305054-4d84b2g6	90	40	to	to	IN
cord-305054-4d84b2g6	90	41	RaTG13	RaTG13	NNP
cord-305054-4d84b2g6	90	42	and	and	CC
cord-305054-4d84b2g6	90	43	Wuhan	Wuhan	NNP
cord-305054-4d84b2g6	90	44	-	-	HYPH
cord-305054-4d84b2g6	90	45	Hu-1	Hu-1	NNP
cord-305054-4d84b2g6	90	46	respectively	respectively	RB
cord-305054-4d84b2g6	90	47	.	.	.
cord-305054-4d84b2g6	91	1	The	the	DT
cord-305054-4d84b2g6	91	2	difference	difference	NN
cord-305054-4d84b2g6	91	3	between	between	IN
cord-305054-4d84b2g6	91	4	Wuhan	Wuhan	NNP
cord-305054-4d84b2g6	91	5	-	-	HYPH
cord-305054-4d84b2g6	91	6	Hu-1-guided	hu-1-guide	VBN
cord-305054-4d84b2g6	91	7	assembly	assembly	NN
cord-305054-4d84b2g6	91	8	and	and	CC
cord-305054-4d84b2g6	91	9	RaTG13-guided	RaTG13-guided	NNP
cord-305054-4d84b2g6	91	10	assembly	assembly	NN
cord-305054-4d84b2g6	91	11	was	be	VBD
cord-305054-4d84b2g6	91	12	not	not	RB
cord-305054-4d84b2g6	91	13	always	always	RB
cord-305054-4d84b2g6	91	14	consistent	consistent	JJ
cord-305054-4d84b2g6	91	15	with	with	IN
cord-305054-4d84b2g6	91	16	difference	difference	NN
cord-305054-4d84b2g6	91	17	between	between	IN
cord-305054-4d84b2g6	91	18	RaTG13	RaTG13	NNP
cord-305054-4d84b2g6	91	19	and	and	CC
cord-305054-4d84b2g6	91	20	Wuhan	Wuhan	NNP
cord-305054-4d84b2g6	91	21	-	-	HYPH
cord-305054-4d84b2g6	91	22	Hu-1	Hu-1	NNP
cord-305054-4d84b2g6	91	23	(	(	-LRB-
cord-305054-4d84b2g6	91	24	Table	Table	NNP
cord-305054-4d84b2g6	91	25	S1	S1	NNP
cord-305054-4d84b2g6	91	26	)	)	-RRB-
cord-305054-4d84b2g6	91	27	.	.	.
cord-305054-4d84b2g6	92	1	The	the	DT
cord-305054-4d84b2g6	92	2	differences	difference	NNS
cord-305054-4d84b2g6	92	3	between	between	IN
cord-305054-4d84b2g6	92	4	RaTG13-guided	RaTG13-guided	NNP
cord-305054-4d84b2g6	92	5	and	and	CC
cord-305054-4d84b2g6	92	6	Wuhan	Wuhan	NNP
cord-305054-4d84b2g6	92	7	-	-	HYPH
cord-305054-4d84b2g6	92	8	Hu-1-guided	hu-1-guide	VBN
cord-305054-4d84b2g6	92	9	assemblies	assembly	NNS
cord-305054-4d84b2g6	92	10	in	in	IN
cord-305054-4d84b2g6	92	11	the	the	DT
cord-305054-4d84b2g6	92	12	regions	region	NNS
cord-305054-4d84b2g6	92	13	of	of	IN
cord-305054-4d84b2g6	92	14	18,431	18,431	CD
cord-305054-4d84b2g6	92	15	-	-	SYM
cord-305054-4d84b2g6	92	16	18,601	18,601	CD
cord-305054-4d84b2g6	92	17	bp	bp	NNP
cord-305054-4d84b2g6	92	18	were	be	VBD
cord-305054-4d84b2g6	92	19	probably	probably	RB
cord-305054-4d84b2g6	92	20	due	due	JJ
cord-305054-4d84b2g6	92	21	to	to	IN
cord-305054-4d84b2g6	92	22	references	reference	NNS
cord-305054-4d84b2g6	92	23	between	between	IN
cord-305054-4d84b2g6	92	24	the	the	DT
cord-305054-4d84b2g6	92	25	reference	reference	NN
cord-305054-4d84b2g6	92	26	genomes	genome	NNS
cord-305054-4d84b2g6	92	27	(	(	-LRB-
cord-305054-4d84b2g6	92	28	Table	Table	NNP
cord-305054-4d84b2g6	92	29	S1	S1	NNP
cord-305054-4d84b2g6	92	30	)	)	-RRB-
cord-305054-4d84b2g6	92	31	.	.	.
cord-305054-4d84b2g6	93	1	However	however	RB
cord-305054-4d84b2g6	93	2	,	,	,
cord-305054-4d84b2g6	93	3	the	the	DT
cord-305054-4d84b2g6	93	4	differences	difference	NNS
cord-305054-4d84b2g6	93	5	in	in	IN
cord-305054-4d84b2g6	93	6	some	some	DT
cord-305054-4d84b2g6	93	7	regions	region	NNS
cord-305054-4d84b2g6	93	8	including	include	VBG
cord-305054-4d84b2g6	93	9	4,761	4,761	CD
cord-305054-4d84b2g6	93	10	-	-	SYM
cord-305054-4d84b2g6	93	11	5,021	5,021	CD
cord-305054-4d84b2g6	93	12	bp	bp	NNP
cord-305054-4d84b2g6	93	13	and	and	CC
cord-305054-4d84b2g6	93	14	10,121	10,121	CD
cord-305054-4d84b2g6	93	15	-	-	SYM
cord-305054-4d84b2g6	93	16	11,321	11,321	CD
cord-305054-4d84b2g6	93	17	bp	bp	NNP
cord-305054-4d84b2g6	93	18	,	,	,
cord-305054-4d84b2g6	93	19	were	be	VBD
cord-305054-4d84b2g6	93	20	not	not	RB
cord-305054-4d84b2g6	93	21	due	due	JJ
cord-305054-4d84b2g6	93	22	to	to	IN
cord-305054-4d84b2g6	93	23	differences	difference	NNS
cord-305054-4d84b2g6	93	24	in	in	IN
cord-305054-4d84b2g6	93	25	the	the	DT
cord-305054-4d84b2g6	93	26	reference	reference	NN
cord-305054-4d84b2g6	93	27	genomes	genome	NNS
cord-305054-4d84b2g6	93	28	.	.	.
cord-305054-4d84b2g6	94	1	We	-PRON-	PRP
cord-305054-4d84b2g6	94	2	further	further	RB
cord-305054-4d84b2g6	94	3	investigated	investigate	VBD
cord-305054-4d84b2g6	94	4	phylogenetic	phylogenetic	JJ
cord-305054-4d84b2g6	94	5	relationship	relationship	NN
cord-305054-4d84b2g6	94	6	between	between	IN
cord-305054-4d84b2g6	94	7	the	the	DT
cord-305054-4d84b2g6	94	8	two	two	CD
cord-305054-4d84b2g6	94	9	assemblies	assembly	NNS
cord-305054-4d84b2g6	94	10	and	and	CC
cord-305054-4d84b2g6	94	11	eight	eight	CD
cord-305054-4d84b2g6	94	12	reference	reference	NN
cord-305054-4d84b2g6	94	13	viral	viral	JJ
cord-305054-4d84b2g6	94	14	genomes	genome	NNS
cord-305054-4d84b2g6	94	15	using	use	VBG
cord-305054-4d84b2g6	94	16	MEGA	MEGA	NNP
cord-305054-4d84b2g6	94	17	X	x	NN
cord-305054-4d84b2g6	94	18	with	with	IN
cord-305054-4d84b2g6	94	19	1000	1000	CD
cord-305054-4d84b2g6	94	20	Bootstrap	Bootstrap	NNP
cord-305054-4d84b2g6	94	21	tests	test	NNS
cord-305054-4d84b2g6	94	22	.	.	.
cord-305054-4d84b2g6	95	1	The	the	DT
cord-305054-4d84b2g6	95	2	two	two	CD
cord-305054-4d84b2g6	95	3	assemblies	assembly	NNS
cord-305054-4d84b2g6	95	4	positioned	position	VBD
cord-305054-4d84b2g6	95	5	between	between	IN
cord-305054-4d84b2g6	95	6	RaTG13	RaTG13	NNP
cord-305054-4d84b2g6	95	7	and	and	CC
cord-305054-4d84b2g6	95	8	ZC45	ZC45	NNP
cord-305054-4d84b2g6	95	9	with	with	IN
cord-305054-4d84b2g6	95	10	strong	strong	JJ
cord-305054-4d84b2g6	95	11	statistical	statistical	JJ
cord-305054-4d84b2g6	95	12	evidence	evidence	NN
cord-305054-4d84b2g6	95	13	(	(	-LRB-
cord-305054-4d84b2g6	95	14	Figure	figure	NN
cord-305054-4d84b2g6	95	15	3	3	CD
cord-305054-4d84b2g6	95	16	)	)	-RRB-
cord-305054-4d84b2g6	95	17	.	.	.
cord-305054-4d84b2g6	96	1	The	the	DT
cord-305054-4d84b2g6	96	2	SARS	SARS	NNP
cord-305054-4d84b2g6	96	3	-	-	HYPH
cord-305054-4d84b2g6	96	4	CoV-2	CoV-2	NNP
cord-305054-4d84b2g6	96	5	genome	genome	NN
cord-305054-4d84b2g6	96	6	,	,	,
cord-305054-4d84b2g6	96	7	Wuhan	Wuhan	NNP
cord-305054-4d84b2g6	96	8	-	-	HYPH
cord-305054-4d84b2g6	96	9	Hu-1	Hu-1	NNP
cord-305054-4d84b2g6	96	10	,	,	,
cord-305054-4d84b2g6	96	11	and	and	CC
cord-305054-4d84b2g6	96	12	Bat	Bat	NNP
cord-305054-4d84b2g6	96	13	-	-	HYPH
cord-305054-4d84b2g6	96	14	CoV	CoV	NNP
cord-305054-4d84b2g6	96	15	,	,	,
cord-305054-4d84b2g6	96	16	RaTG13	RaTG13	NNP
cord-305054-4d84b2g6	96	17	,	,	,
cord-305054-4d84b2g6	96	18	clustered	cluster	VBN
cord-305054-4d84b2g6	96	19	closely	closely	RB
cord-305054-4d84b2g6	96	20	together	together	RB
cord-305054-4d84b2g6	96	21	.	.	.
cord-305054-4d84b2g6	97	1	The	the	DT
cord-305054-4d84b2g6	97	2	two	two	CD
cord-305054-4d84b2g6	97	3	assemblies	assembly	NNS
cord-305054-4d84b2g6	97	4	from	from	IN
cord-305054-4d84b2g6	97	5	this	this	DT
cord-305054-4d84b2g6	97	6	study	study	NN
cord-305054-4d84b2g6	97	7	consistently	consistently	RB
cord-305054-4d84b2g6	97	8	positioned	position	VBD
cord-305054-4d84b2g6	97	9	between	between	IN
cord-305054-4d84b2g6	97	10	this	this	DT
cord-305054-4d84b2g6	97	11	cluster	cluster	NN
cord-305054-4d84b2g6	97	12	and	and	CC
cord-305054-4d84b2g6	97	13	other	other	JJ
cord-305054-4d84b2g6	97	14	CoVs	covs	NN
cord-305054-4d84b2g6	97	15	(	(	-LRB-
cord-305054-4d84b2g6	97	16	Figure	figure	NN
cord-305054-4d84b2g6	97	17	  	  	_SP
cord-305054-4d84b2g6	97	18	4	4	CD
cord-305054-4d84b2g6	97	19	)	)	-RRB-
cord-305054-4d84b2g6	97	20	.	.	.
cord-305054-4d84b2g6	98	1	Among	among	IN
cord-305054-4d84b2g6	98	2	other	other	JJ
cord-305054-4d84b2g6	98	3	CoVs	CoVs	NNP
cord-305054-4d84b2g6	98	4	,	,	,
cord-305054-4d84b2g6	98	5	ZC45	ZC45	NNP
cord-305054-4d84b2g6	98	6	is	be	VBZ
cord-305054-4d84b2g6	98	7	the	the	DT
cord-305054-4d84b2g6	98	8	closest	close	JJS
cord-305054-4d84b2g6	98	9	neighbor	neighbor	NN
cord-305054-4d84b2g6	98	10	to	to	IN
cord-305054-4d84b2g6	98	11	the	the	DT
cord-305054-4d84b2g6	98	12	assemblies	assembly	NNS
cord-305054-4d84b2g6	98	13	.	.	.
cord-305054-4d84b2g6	99	1	Currently	currently	RB
cord-305054-4d84b2g6	99	2	,	,	,
cord-305054-4d84b2g6	99	3	very	very	RB
cord-305054-4d84b2g6	99	4	few	few	JJ
cord-305054-4d84b2g6	99	5	samples	sample	NNS
cord-305054-4d84b2g6	99	6	of	of	IN
cord-305054-4d84b2g6	99	7	coronavirus	coronavirus	NN
cord-305054-4d84b2g6	99	8	-	-	HYPH
cord-305054-4d84b2g6	99	9	positive	positive	JJ
cord-305054-4d84b2g6	99	10	pangolins	pangolin	NNS
cord-305054-4d84b2g6	99	11	have	have	VBP
cord-305054-4d84b2g6	99	12	been	be	VBN
cord-305054-4d84b2g6	99	13	sequenced	sequence	VBN
cord-305054-4d84b2g6	99	14	.	.	.
cord-305054-4d84b2g6	100	1	Pangolins	pangolin	NNS
cord-305054-4d84b2g6	100	2	-	-	HYPH
cord-305054-4d84b2g6	100	3	CoV	cov	NN
cord-305054-4d84b2g6	100	4	obtained	obtain	VBN
cord-305054-4d84b2g6	100	5	from	from	IN
cord-305054-4d84b2g6	100	6	the	the	DT
cord-305054-4d84b2g6	100	7	Guangdong	Guangdong	NNP
cord-305054-4d84b2g6	100	8	collection	collection	NN
cord-305054-4d84b2g6	100	9	and	and	CC
cord-305054-4d84b2g6	100	10	the	the	DT
cord-305054-4d84b2g6	100	11	Guangxi	Guangxi	NNP
cord-305054-4d84b2g6	100	12	collection	collection	NN
cord-305054-4d84b2g6	100	13	represent	represent	VBP
cord-305054-4d84b2g6	100	14	two	two	CD
cord-305054-4d84b2g6	100	15	lineages	lineage	NNS
cord-305054-4d84b2g6	100	16	of	of	IN
cord-305054-4d84b2g6	100	17	coronavirus	coronavirus	NN
cord-305054-4d84b2g6	100	18	[	[	-LRB-
cord-305054-4d84b2g6	100	19	3	3	CD
cord-305054-4d84b2g6	100	20	]	]	-RRB-
cord-305054-4d84b2g6	100	21	.	.	.
cord-305054-4d84b2g6	101	1	After	after	IN
cord-305054-4d84b2g6	101	2	outbreak	outbreak	NN
cord-305054-4d84b2g6	101	3	of	of	IN
cord-305054-4d84b2g6	101	4	SARS	SARS	NNP
cord-305054-4d84b2g6	101	5	-	-	HYPH
cord-305054-4d84b2g6	101	6	CoV	CoV	NNP
cord-305054-4d84b2g6	101	7	,	,	,
cord-305054-4d84b2g6	101	8	thousands	thousand	NNS
cord-305054-4d84b2g6	101	9	of	of	IN
cord-305054-4d84b2g6	101	10	bat	bat	NN
cord-305054-4d84b2g6	101	11	samples	sample	NNS
cord-305054-4d84b2g6	101	12	were	be	VBD
cord-305054-4d84b2g6	101	13	collected	collect	VBN
cord-305054-4d84b2g6	101	14	and	and	CC
cord-305054-4d84b2g6	101	15	sequenced	sequence	VBN
cord-305054-4d84b2g6	101	16	to	to	TO
cord-305054-4d84b2g6	101	17	identify	identify	VB
cord-305054-4d84b2g6	101	18	coronaviruses	coronaviruse	NNS
cord-305054-4d84b2g6	101	19	that	that	DT
cord-305054-4d84b2g6	101	20	bat	bat	NN
cord-305054-4d84b2g6	101	21	may	may	MD
cord-305054-4d84b2g6	101	22	carry	carry	VB
cord-305054-4d84b2g6	101	23	.	.	.
cord-305054-4d84b2g6	102	1	We	-PRON-	PRP
cord-305054-4d84b2g6	102	2	can	can	MD
cord-305054-4d84b2g6	102	3	expect	expect	VB
cord-305054-4d84b2g6	102	4	that	that	IN
cord-305054-4d84b2g6	102	5	in	in	IN
cord-305054-4d84b2g6	102	6	near	near	JJ
cord-305054-4d84b2g6	102	7	future	future	JJ
cord-305054-4d84b2g6	102	8	more	more	JJR
cord-305054-4d84b2g6	102	9	pangolin	pangolin	NN
cord-305054-4d84b2g6	102	10	samples	sample	NNS
cord-305054-4d84b2g6	102	11	will	will	MD
cord-305054-4d84b2g6	102	12	be	be	VB
cord-305054-4d84b2g6	102	13	collected	collect	VBN
cord-305054-4d84b2g6	102	14	and	and	CC
cord-305054-4d84b2g6	102	15	studied	study	VBN
cord-305054-4d84b2g6	102	16	for	for	IN
cord-305054-4d84b2g6	102	17	better	well	JJR
cord-305054-4d84b2g6	102	18	understanding	understanding	NN
cord-305054-4d84b2g6	102	19	of	of	IN
cord-305054-4d84b2g6	102	20	coronavirus	coronavirus	NN
cord-305054-4d84b2g6	102	21	in	in	IN
cord-305054-4d84b2g6	102	22	pangolin	pangolin	NN
cord-305054-4d84b2g6	102	23	.	.	.
cord-305054-4d84b2g6	103	1	In	in	IN
cord-305054-4d84b2g6	103	2	a	a	DT
cord-305054-4d84b2g6	103	3	reference	reference	NN
cord-305054-4d84b2g6	103	4	-	-	HYPH
cord-305054-4d84b2g6	103	5	guided	guide	VBN
cord-305054-4d84b2g6	103	6	assembling	assembling	NN
cord-305054-4d84b2g6	103	7	,	,	,
cord-305054-4d84b2g6	103	8	the	the	DT
cord-305054-4d84b2g6	103	9	resulting	result	VBG
cord-305054-4d84b2g6	103	10	assembly	assembly	NN
cord-305054-4d84b2g6	103	11	may	may	MD
cord-305054-4d84b2g6	103	12	show	show	VB
cord-305054-4d84b2g6	103	13	bias	bias	NN
cord-305054-4d84b2g6	103	14	towards	towards	IN
cord-305054-4d84b2g6	103	15	the	the	DT
cord-305054-4d84b2g6	103	16	reference	reference	NN
cord-305054-4d84b2g6	103	17	genome	genome	NN
cord-305054-4d84b2g6	103	18	[	[	-LRB-
cord-305054-4d84b2g6	103	19	7	7	CD
cord-305054-4d84b2g6	103	20	]	]	-RRB-
cord-305054-4d84b2g6	103	21	.	.	.
cord-305054-4d84b2g6	104	1	Successful	successful	JJ
cord-305054-4d84b2g6	104	2	decoding	decode	VBG
cord-305054-4d84b2g6	104	3	a	a	DT
cord-305054-4d84b2g6	104	4	complete	complete	JJ
cord-305054-4d84b2g6	104	5	viral	viral	JJ
cord-305054-4d84b2g6	104	6	genome	genome	NN
cord-305054-4d84b2g6	104	7	usually	usually	RB
cord-305054-4d84b2g6	104	8	require	require	VBP
cord-305054-4d84b2g6	104	9	deep	deep	JJ
cord-305054-4d84b2g6	104	10	sequencing	sequencing	NN
cord-305054-4d84b2g6	104	11	and	and	CC
cord-305054-4d84b2g6	104	12	further	further	JJ
cord-305054-4d84b2g6	104	13	manual	manual	JJ
cord-305054-4d84b2g6	104	14	curations	curation	NNS
cord-305054-4d84b2g6	104	15	to	to	TO
cord-305054-4d84b2g6	104	16	fix	fix	VB
cord-305054-4d84b2g6	104	17	the	the	DT
cord-305054-4d84b2g6	104	18	gaps	gap	NNS
cord-305054-4d84b2g6	104	19	.	.	.
cord-305054-4d84b2g6	105	1	Inaccuracies	inaccuracy	NNS
cord-305054-4d84b2g6	105	2	in	in	IN
cord-305054-4d84b2g6	105	3	assembling	assemble	VBG
cord-305054-4d84b2g6	105	4	the	the	DT
cord-305054-4d84b2g6	105	5	sequencing	sequencing	NN
cord-305054-4d84b2g6	105	6	reads	read	NNS
cord-305054-4d84b2g6	105	7	could	could	MD
cord-305054-4d84b2g6	105	8	mislead	mislead	VB
cord-305054-4d84b2g6	105	9	the	the	DT
cord-305054-4d84b2g6	105	10	subsequent	subsequent	JJ
cord-305054-4d84b2g6	105	11	curation	curation	NN
cord-305054-4d84b2g6	105	12	step	step	NN
cord-305054-4d84b2g6	105	13	.	.	.
cord-305054-4d84b2g6	106	1	The	the	DT
cord-305054-4d84b2g6	106	2	whole	whole	JJ
cord-305054-4d84b2g6	106	3	genome	genome	NN
cord-305054-4d84b2g6	106	4	identity	identity	NN
cord-305054-4d84b2g6	106	5	between	between	IN
cord-305054-4d84b2g6	106	6	Bat	Bat	NNP
cord-305054-4d84b2g6	106	7	-	-	HYPH
cord-305054-4d84b2g6	106	8	CoV	cov	NN
cord-305054-4d84b2g6	106	9	RaTG13	RaTG13	NNP
cord-305054-4d84b2g6	106	10	and	and	CC
cord-305054-4d84b2g6	106	11	SARS	SARS	NNP
cord-305054-4d84b2g6	106	12	-	-	HYPH
cord-305054-4d84b2g6	106	13	CoV2	CoV2	NNP
cord-305054-4d84b2g6	106	14	Wuhan	Wuhan	NNP
cord-305054-4d84b2g6	106	15	-	-	HYPH
cord-305054-4d84b2g6	106	16	Hu-1	Hu-1	NNP
cord-305054-4d84b2g6	106	17	is	be	VBZ
cord-305054-4d84b2g6	106	18	about	about	RB
cord-305054-4d84b2g6	106	19	96	96	CD
cord-305054-4d84b2g6	106	20	%	%	NN
cord-305054-4d84b2g6	106	21	,	,	,
cord-305054-4d84b2g6	106	22	which	which	WDT
cord-305054-4d84b2g6	106	23	corresponds	correspond	VBZ
cord-305054-4d84b2g6	106	24	to	to	IN
cord-305054-4d84b2g6	106	25	a	a	DT
cord-305054-4d84b2g6	106	26	total	total	JJ
cord-305054-4d84b2g6	106	27	difference	difference	NN
cord-305054-4d84b2g6	106	28	of	of	IN
cord-305054-4d84b2g6	106	29	about	about	IN
cord-305054-4d84b2g6	106	30	1,500	1,500	CD
cord-305054-4d84b2g6	106	31	nucleotides	nucleotide	NNS
cord-305054-4d84b2g6	106	32	.	.	.
cord-305054-4d84b2g6	107	1	Our	-PRON-	PRP$
cord-305054-4d84b2g6	107	2	results	result	NNS
cord-305054-4d84b2g6	107	3	have	have	VBP
cord-305054-4d84b2g6	107	4	shown	show	VBN
cord-305054-4d84b2g6	107	5	that	that	IN
cord-305054-4d84b2g6	107	6	observable	observable	JJ
cord-305054-4d84b2g6	107	7	difference	difference	NN
cord-305054-4d84b2g6	107	8	could	could	MD
cord-305054-4d84b2g6	107	9	be	be	VB
cord-305054-4d84b2g6	107	10	found	find	VBN
cord-305054-4d84b2g6	107	11	in	in	IN
cord-305054-4d84b2g6	107	12	the	the	DT
cord-305054-4d84b2g6	107	13	resulting	result	VBG
cord-305054-4d84b2g6	107	14	assemblies	assembly	NNS
cord-305054-4d84b2g6	107	15	when	when	WRB
cord-305054-4d84b2g6	107	16	these	these	DT
cord-305054-4d84b2g6	107	17	genomes	genome	NNS
cord-305054-4d84b2g6	107	18	were	be	VBD
cord-305054-4d84b2g6	107	19	used	use	VBN
cord-305054-4d84b2g6	107	20	as	as	IN
cord-305054-4d84b2g6	107	21	reference	reference	NN
cord-305054-4d84b2g6	107	22	separately	separately	RB
cord-305054-4d84b2g6	107	23	.	.	.
cord-305054-4d84b2g6	108	1	Particular	particular	JJ
cord-305054-4d84b2g6	108	2	,	,	,
cord-305054-4d84b2g6	108	3	when	when	WRB
cord-305054-4d84b2g6	108	4	RaTG13	RaTG13	NNP
cord-305054-4d84b2g6	108	5	was	be	VBD
cord-305054-4d84b2g6	108	6	used	use	VBN
cord-305054-4d84b2g6	108	7	as	as	IN
cord-305054-4d84b2g6	108	8	reference	reference	NN
cord-305054-4d84b2g6	108	9	,	,	,
cord-305054-4d84b2g6	108	10	the	the	DT
cord-305054-4d84b2g6	108	11	resulting	result	VBG
cord-305054-4d84b2g6	108	12	assembly	assembly	NN
cord-305054-4d84b2g6	108	13	had	have	VBD
cord-305054-4d84b2g6	108	14	a	a	DT
cord-305054-4d84b2g6	108	15	longer	long	RBR
cord-305054-4d84b2g6	108	16	total	total	JJ
cord-305054-4d84b2g6	108	17	length	length	NN
cord-305054-4d84b2g6	108	18	and	and	CC
cord-305054-4d84b2g6	108	19	higher	high	JJR
cord-305054-4d84b2g6	108	20	N50	N50	NNP
cord-305054-4d84b2g6	108	21	value	value	NN
cord-305054-4d84b2g6	108	22	than	than	IN
cord-305054-4d84b2g6	108	23	when	when	WRB
cord-305054-4d84b2g6	108	24	Wuhan	Wuhan	NNP
cord-305054-4d84b2g6	108	25	-	-	HYPH
cord-305054-4d84b2g6	108	26	Hu-1	Hu-1	NNP
cord-305054-4d84b2g6	108	27	was	be	VBD
cord-305054-4d84b2g6	108	28	used	use	VBN
cord-305054-4d84b2g6	108	29	.	.	.
cord-305054-4d84b2g6	109	1	This	this	DT
cord-305054-4d84b2g6	109	2	points	point	VBZ
cord-305054-4d84b2g6	109	3	to	to	IN
cord-305054-4d84b2g6	109	4	the	the	DT
cord-305054-4d84b2g6	109	5	possibility	possibility	NN
cord-305054-4d84b2g6	109	6	that	that	IN
cord-305054-4d84b2g6	109	7	Pangolin	Pangolin	NNP
cord-305054-4d84b2g6	109	8	-	-	HYPH
cord-305054-4d84b2g6	109	9	CoV	CoV	NNP
cord-305054-4d84b2g6	109	10	is	be	VBZ
cord-305054-4d84b2g6	109	11	more	more	RBR
cord-305054-4d84b2g6	109	12	closely	closely	RB
cord-305054-4d84b2g6	109	13	related	related	JJ
cord-305054-4d84b2g6	109	14	to	to	IN
cord-305054-4d84b2g6	109	15	RaTG13	ratg13	NN
cord-305054-4d84b2g6	109	16	than	than	IN
cord-305054-4d84b2g6	109	17	to	to	IN
cord-305054-4d84b2g6	109	18	Wuhan	Wuhan	NNP
cord-305054-4d84b2g6	109	19	-	-	HYPH
cord-305054-4d84b2g6	109	20	Hu-1	Hu-1	NNP
cord-305054-4d84b2g6	109	21	.	.	.
cord-305054-4d84b2g6	110	1	Therefore	therefore	RB
cord-305054-4d84b2g6	110	2	,	,	,
cord-305054-4d84b2g6	110	3	in	in	IN
cord-305054-4d84b2g6	110	4	order	order	NN
cord-305054-4d84b2g6	110	5	to	to	TO
cord-305054-4d84b2g6	110	6	decode	decode	VB
cord-305054-4d84b2g6	110	7	the	the	DT
cord-305054-4d84b2g6	110	8	coronavirus	coronavirus	NN
cord-305054-4d84b2g6	110	9	sequence	sequence	NN
cord-305054-4d84b2g6	110	10	accurately	accurately	RB
cord-305054-4d84b2g6	110	11	,	,	,
cord-305054-4d84b2g6	110	12	RaTG13	RaTG13	NNP
cord-305054-4d84b2g6	110	13	,	,	,
cord-305054-4d84b2g6	110	14	and	and	CC
cord-305054-4d84b2g6	110	15	possibly	possibly	RB
cord-305054-4d84b2g6	110	16	other	other	JJ
cord-305054-4d84b2g6	110	17	SARS	SARS	NNP
cord-305054-4d84b2g6	110	18	-	-	HYPH
cord-305054-4d84b2g6	110	19	CoV-2	CoV-2	NNP
cord-305054-4d84b2g6	110	20	isolates	isolate	NNS
cord-305054-4d84b2g6	110	21	,	,	,
cord-305054-4d84b2g6	110	22	should	should	MD
cord-305054-4d84b2g6	110	23	also	also	RB
cord-305054-4d84b2g6	110	24	be	be	VB
cord-305054-4d84b2g6	110	25	considered	consider	VBN
cord-305054-4d84b2g6	110	26	as	as	IN
cord-305054-4d84b2g6	110	27	reference	reference	NN
cord-305054-4d84b2g6	110	28	in	in	IN
cord-305054-4d84b2g6	110	29	future	future	JJ
cord-305054-4d84b2g6	110	30	studies	study	NNS
cord-305054-4d84b2g6	110	31	of	of	IN
cord-305054-4d84b2g6	110	32	coronavirus	coronavirus	NN
cord-305054-4d84b2g6	110	33	in	in	IN
cord-305054-4d84b2g6	110	34	Pangolin	Pangolin	NNP
cord-305054-4d84b2g6	110	35	or	or	CC
cord-305054-4d84b2g6	110	36	other	other	JJ
cord-305054-4d84b2g6	110	37	potential	potential	JJ
cord-305054-4d84b2g6	110	38	intermediate	intermediate	JJ
cord-305054-4d84b2g6	110	39	hosts	host	NNS
cord-305054-4d84b2g6	110	40	.	.	.
cord-305054-4d84b2g6	111	1	In	in	IN
cord-305054-4d84b2g6	111	2	addition	addition	NN
cord-305054-4d84b2g6	111	3	to	to	IN
cord-305054-4d84b2g6	111	4	using	use	VBG
cord-305054-4d84b2g6	111	5	one	one	CD
cord-305054-4d84b2g6	111	6	reference	reference	NN
cord-305054-4d84b2g6	111	7	genome	genome	NN
cord-305054-4d84b2g6	111	8	to	to	TO
cord-305054-4d84b2g6	111	9	guide	guide	VB
cord-305054-4d84b2g6	111	10	the	the	DT
cord-305054-4d84b2g6	111	11	assembling	assembling	NN
cord-305054-4d84b2g6	111	12	,	,	,
cord-305054-4d84b2g6	111	13	we	-PRON-	PRP
cord-305054-4d84b2g6	111	14	also	also	RB
cord-305054-4d84b2g6	111	15	attempted	attempt	VBD
cord-305054-4d84b2g6	111	16	to	to	TO
cord-305054-4d84b2g6	111	17	assemble	assemble	VB
cord-305054-4d84b2g6	111	18	all	all	DT
cord-305054-4d84b2g6	111	19	reads	read	NNS
cord-305054-4d84b2g6	111	20	that	that	WDT
cord-305054-4d84b2g6	111	21	mapped	map	VBD
cord-305054-4d84b2g6	111	22	to	to	IN
cord-305054-4d84b2g6	111	23	either	either	CC
cord-305054-4d84b2g6	111	24	RaTG13	RaTG13	NNP
cord-305054-4d84b2g6	111	25	or	or	CC
cord-305054-4d84b2g6	111	26	Wuhan	Wuhan	NNP
cord-305054-4d84b2g6	111	27	-	-	HYPH
cord-305054-4d84b2g6	111	28	Hu-1	Hu-1	NNP
cord-305054-4d84b2g6	111	29	genomes	genome	NNS
cord-305054-4d84b2g6	111	30	.	.	.
cord-305054-4d84b2g6	112	1	The	the	DT
cord-305054-4d84b2g6	112	2	resulting	result	VBG
cord-305054-4d84b2g6	112	3	twogenomes	twogenome	NNS
cord-305054-4d84b2g6	112	4	-	-	HYPH
cord-305054-4d84b2g6	112	5	guided	guide	VBN
cord-305054-4d84b2g6	112	6	assembly	assembly	NN
cord-305054-4d84b2g6	112	7	has	have	VBZ
cord-305054-4d84b2g6	112	8	a	a	DT
cord-305054-4d84b2g6	112	9	total	total	JJ
cord-305054-4d84b2g6	112	10	length	length	NN
cord-305054-4d84b2g6	112	11	of	of	IN
cord-305054-4d84b2g6	112	12	22,707	22,707	CD
cord-305054-4d84b2g6	112	13	bp	bp	NNP
cord-305054-4d84b2g6	112	14	,	,	,
cord-305054-4d84b2g6	112	15	which	which	WDT
cord-305054-4d84b2g6	112	16	is	be	VBZ
cord-305054-4d84b2g6	112	17	slightly	slightly	RB
cord-305054-4d84b2g6	112	18	longer	long	JJR
cord-305054-4d84b2g6	112	19	than	than	IN
cord-305054-4d84b2g6	112	20	that	that	DT
cord-305054-4d84b2g6	112	21	of	of	IN
cord-305054-4d84b2g6	112	22	the	the	DT
cord-305054-4d84b2g6	112	23	RaTG13-guided	RaTG13-guided	NNP
cord-305054-4d84b2g6	112	24	assembly	assembly	NN
cord-305054-4d84b2g6	112	25	.	.	.
cord-305054-4d84b2g6	113	1	However	however	RB
cord-305054-4d84b2g6	113	2	,	,	,
cord-305054-4d84b2g6	113	3	the	the	DT
cord-305054-4d84b2g6	113	4	N50	N50	NNP
cord-305054-4d84b2g6	113	5	,	,	,
cord-305054-4d84b2g6	113	6	1,388bp	1,388bp	CD
cord-305054-4d84b2g6	113	7	,	,	,
cord-305054-4d84b2g6	113	8	is	be	VBZ
cord-305054-4d84b2g6	113	9	slightly	slightly	RB
cord-305054-4d84b2g6	113	10	shorter	short	JJR
cord-305054-4d84b2g6	113	11	.	.	.
cord-305054-4d84b2g6	114	1	The	the	DT
cord-305054-4d84b2g6	114	2	authors	author	NNS
cord-305054-4d84b2g6	114	3	have	have	VBP
cord-305054-4d84b2g6	114	4	no	no	DT
cord-305054-4d84b2g6	114	5	conflict	conflict	NN
cord-305054-4d84b2g6	114	6	of	of	IN
cord-305054-4d84b2g6	114	7	interest	interest	NN
cord-305054-4d84b2g6	114	8	.	.	.
cord-305054-4d84b2g6	115	1	Table	table	NN
cord-305054-4d84b2g6	115	2	S1	S1	NNP
cord-305054-4d84b2g6	115	3	.	.	.
cord-305054-4d84b2g6	116	1	The	the	DT
cord-305054-4d84b2g6	116	2	whole	whole	JJ
cord-305054-4d84b2g6	116	3	genome	genome	NN
cord-305054-4d84b2g6	116	4	nucleotide	nucleotide	NN
cord-305054-4d84b2g6	116	5	similarity	similarity	NN
cord-305054-4d84b2g6	116	6	from	from	IN
cord-305054-4d84b2g6	116	7	RaTG13	RaTG13	NNP
cord-305054-4d84b2g6	116	8	,	,	,
cord-305054-4d84b2g6	116	9	Wuhan	Wuhan	NNP
cord-305054-4d84b2g6	116	10	-	-	HYPH
cord-305054-4d84b2g6	116	11	Hu-1	Hu-1	NNP
cord-305054-4d84b2g6	116	12	,	,	,
cord-305054-4d84b2g6	116	13	and	and	CC
cord-305054-4d84b2g6	116	14	resulting	result	VBG
cord-305054-4d84b2g6	116	15	assemblies	assembly	NNS
cord-305054-4d84b2g6	116	16	.	.	.
cord-305054-4d84b2g6	117	1	Trimmomatic	Trimmomatic	NNP
cord-305054-4d84b2g6	117	2	:	:	:
cord-305054-4d84b2g6	117	3	a	a	DT
cord-305054-4d84b2g6	117	4	flexible	flexible	JJ
cord-305054-4d84b2g6	117	5	trimmer	trimmer	NN
cord-305054-4d84b2g6	117	6	for	for	IN
cord-305054-4d84b2g6	118	1	Illumina	Illumina	NNP
cord-305054-4d84b2g6	118	2	sequence	sequence	NN
cord-305054-4d84b2g6	118	3	data	datum	NNS
cord-305054-4d84b2g6	119	1	MEGA	MEGA	NNP
cord-305054-4d84b2g6	119	2	X	X	NNP
cord-305054-4d84b2g6	119	3	:	:	:
cord-305054-4d84b2g6	119	4	Molecular	Molecular	NNP
cord-305054-4d84b2g6	119	5	Evolutionary	Evolutionary	NNP
cord-305054-4d84b2g6	119	6	Genetics	Genetics	NNP
cord-305054-4d84b2g6	119	7	Analysis	Analysis	NNP
cord-305054-4d84b2g6	119	8	across	across	IN
cord-305054-4d84b2g6	119	9	Computing	Computing	NNP
cord-305054-4d84b2g6	119	10	Platforms	Platforms	NNPS
cord-305054-4d84b2g6	120	1	Identifying	identify	VBG
cord-305054-4d84b2g6	120	2	SARS	SARS	NNP
cord-305054-4d84b2g6	120	3	-	-	HYPH
cord-305054-4d84b2g6	120	4	CoV-2-related	cov-2-relate	VBN
cord-305054-4d84b2g6	120	5	coronaviruses	coronaviruse	NNS
cord-305054-4d84b2g6	120	6	in	in	IN
cord-305054-4d84b2g6	120	7	Malayan	malayan	JJ
cord-305054-4d84b2g6	120	8	pangolins	pangolin	NNS
cord-305054-4d84b2g6	121	1	MEGAHIT	megahit	NN
cord-305054-4d84b2g6	121	2	:	:	:
cord-305054-4d84b2g6	122	1	an	an	DT
cord-305054-4d84b2g6	122	2	ultra	ultra	JJ
cord-305054-4d84b2g6	122	3	-	-	JJ
cord-305054-4d84b2g6	122	4	fast	fast	JJ
cord-305054-4d84b2g6	122	5	single	single	JJ
cord-305054-4d84b2g6	122	6	-	-	HYPH
cord-305054-4d84b2g6	122	7	node	node	NN
cord-305054-4d84b2g6	122	8	solution	solution	NN
cord-305054-4d84b2g6	122	9	for	for	IN
cord-305054-4d84b2g6	122	10	large	large	JJ
cord-305054-4d84b2g6	122	11	and	and	CC
cord-305054-4d84b2g6	122	12	complex	complex	JJ
cord-305054-4d84b2g6	122	13	metagenomics	metagenomic	NNS
cord-305054-4d84b2g6	122	14	assembly	assembly	NN
cord-305054-4d84b2g6	122	15	via	via	IN
cord-305054-4d84b2g6	122	16	succinct	succinct	JJ
cord-305054-4d84b2g6	122	17	de	de	NNP
cord-305054-4d84b2g6	122	18	Bruijn	Bruijn	NNP
cord-305054-4d84b2g6	122	19	graph	graph	NN
cord-305054-4d84b2g6	122	20	Aligning	align	VBG
cord-305054-4d84b2g6	122	21	sequence	sequence	NN
cord-305054-4d84b2g6	122	22	reads	read	NNS
cord-305054-4d84b2g6	122	23	,	,	,
cord-305054-4d84b2g6	122	24	clone	clone	NN
cord-305054-4d84b2g6	122	25	sequences	sequence	NNS
cord-305054-4d84b2g6	122	26	and	and	CC
cord-305054-4d84b2g6	122	27	assembly	assembly	NN
cord-305054-4d84b2g6	122	28	contigs	contigs	NNP
cord-305054-4d84b2g6	122	29	with	with	IN
cord-305054-4d84b2g6	122	30	BWA	BWA	NNP
cord-305054-4d84b2g6	122	31	-	-	HYPH
cord-305054-4d84b2g6	122	32	MEM	MEM	NNP
cord-305054-4d84b2g6	122	33	Fast	Fast	NNP
cord-305054-4d84b2g6	122	34	and	and	CC
cord-305054-4d84b2g6	122	35	accurate	accurate	JJ
cord-305054-4d84b2g6	123	1	short	short	RB
cord-305054-4d84b2g6	123	2	read	read	VB
cord-305054-4d84b2g6	123	3	alignment	alignment	NN
cord-305054-4d84b2g6	123	4	with	with	IN
cord-305054-4d84b2g6	123	5	Burrows	Burrows	NNP
cord-305054-4d84b2g6	123	6	-	-	HYPH
cord-305054-4d84b2g6	123	7	Wheeler	Wheeler	NNP
cord-305054-4d84b2g6	123	8	transform	transform	VB
cord-305054-4d84b2g6	123	9	Reference	reference	NN
cord-305054-4d84b2g6	123	10	-	-	HYPH
cord-305054-4d84b2g6	123	11	guided	guide	VBN
cord-305054-4d84b2g6	123	12	de	de	FW
cord-305054-4d84b2g6	123	13	novo	novo	NNP
cord-305054-4d84b2g6	123	14	assembly	assembly	NNP
cord-305054-4d84b2g6	123	15	approach	approach	NN
cord-305054-4d84b2g6	123	16	improves	improve	VBZ
cord-305054-4d84b2g6	123	17	genome	genome	NN
cord-305054-4d84b2g6	123	18	reconstruction	reconstruction	NN
cord-305054-4d84b2g6	123	19	for	for	IN
cord-305054-4d84b2g6	123	20	related	relate	VBN
cord-305054-4d84b2g6	123	21	species	specie	NNS
cord-305054-4d84b2g6	123	22	Viral	Viral	NNP
cord-305054-4d84b2g6	123	23	Metagenomics	Metagenomics	NNPS
cord-305054-4d84b2g6	123	24	Revealed	reveal	VBD
cord-305054-4d84b2g6	123	25	Sendai	Sendai	NNP
cord-305054-4d84b2g6	123	26	Virus	Virus	NNP
cord-305054-4d84b2g6	123	27	and	and	CC
cord-305054-4d84b2g6	123	28	Coronavirus	Coronavirus	NNP
cord-305054-4d84b2g6	123	29	Infection	Infection	NNP
cord-305054-4d84b2g6	123	30	of	of	IN
cord-305054-4d84b2g6	123	31	Malayan	malayan	JJ
cord-305054-4d84b2g6	123	32	Pangolins	Pangolins	NNPS
cord-305054-4d84b2g6	123	33	(	(	-LRB-
cord-305054-4d84b2g6	123	34	Manis	Manis	NNP
cord-305054-4d84b2g6	123	35	javanica	javanica	NNS
cord-305054-4d84b2g6	123	36	)	)	-RRB-
cord-305054-4d84b2g6	123	37	Are	be	VBP
cord-305054-4d84b2g6	123	38	pangolins	pangolin	NNS
cord-305054-4d84b2g6	124	1	the	the	DT
cord-305054-4d84b2g6	124	2	intermediate	intermediate	JJ
cord-305054-4d84b2g6	124	3	host	host	NN
cord-305054-4d84b2g6	124	4	of	of	IN
cord-305054-4d84b2g6	124	5	the	the	DT
cord-305054-4d84b2g6	124	6	2019	2019	CD
cord-305054-4d84b2g6	124	7	novel	novel	NN
cord-305054-4d84b2g6	124	8	coronavirus	coronavirus	NN
cord-305054-4d84b2g6	124	9	(	(	-LRB-
cord-305054-4d84b2g6	124	10	SARS	SARS	NNP
cord-305054-4d84b2g6	124	11	-	-	HYPH
cord-305054-4d84b2g6	124	12	CoV-2	CoV-2	NNP
cord-305054-4d84b2g6	124	13	)	)	-RRB-
cord-305054-4d84b2g6	124	14	?	?	.
cord-305054-4d84b2g6	125	1	Full	full	JJ
cord-305054-4d84b2g6	125	2	-	-	HYPH
cord-305054-4d84b2g6	125	3	Length	length	NN
cord-305054-4d84b2g6	125	4	Human	Human	NNP
cord-305054-4d84b2g6	125	5	Immunodeficiency	Immunodeficiency	NNP
cord-305054-4d84b2g6	125	6	Virus	Virus	NNP
cord-305054-4d84b2g6	125	7	Type	Type	NNP
cord-305054-4d84b2g6	125	8	1	1	CD
cord-305054-4d84b2g6	125	9	Genomes	Genomes	NNPS
cord-305054-4d84b2g6	125	10	from	from	IN
cord-305054-4d84b2g6	125	11	Subtype	Subtype	NNP
cord-305054-4d84b2g6	125	12	C	C	NNP
cord-305054-4d84b2g6	125	13	-	-	HYPH
cord-305054-4d84b2g6	125	14	Infected	infect	VBN
cord-305054-4d84b2g6	125	15	Seroconverters	Seroconverters	NNP
cord-305054-4d84b2g6	125	16	in	in	IN
cord-305054-4d84b2g6	125	17	India	India	NNP
cord-305054-4d84b2g6	125	18	,	,	,
cord-305054-4d84b2g6	125	19	with	with	IN
cord-305054-4d84b2g6	125	20	Evidence	evidence	NN
cord-305054-4d84b2g6	125	21	of	of	IN
cord-305054-4d84b2g6	125	22	Intersubtype	Intersubtype	NNP
cord-305054-4d84b2g6	125	23	Recombination	Recombination	NNP
cord-305054-4d84b2g6	125	24	A	a	DT
cord-305054-4d84b2g6	125	25	new	new	JJ
cord-305054-4d84b2g6	125	26	coronavirus	coronavirus	NN
cord-305054-4d84b2g6	125	27	associated	associate	VBN
cord-305054-4d84b2g6	125	28	with	with	IN
cord-305054-4d84b2g6	125	29	human	human	JJ
cord-305054-4d84b2g6	125	30	respiratory	respiratory	JJ
cord-305054-4d84b2g6	125	31	disease	disease	NN
cord-305054-4d84b2g6	125	32	in	in	IN
cord-305054-4d84b2g6	125	33	China	China	NNP
cord-305054-4d84b2g6	125	34	Isolation	Isolation	NNP
cord-305054-4d84b2g6	125	35	of	of	IN
cord-305054-4d84b2g6	125	36	SARS	SARS	NNP
cord-305054-4d84b2g6	125	37	-	-	HYPH
cord-305054-4d84b2g6	125	38	CoV-2-related	cov-2-relate	VBN
cord-305054-4d84b2g6	125	39	coronavirus	coronavirus	NN
cord-305054-4d84b2g6	125	40	from	from	IN
cord-305054-4d84b2g6	125	41	Malayan	malayan	JJ
cord-305054-4d84b2g6	125	42	pangolins	pangolin	NNS
cord-305054-4d84b2g6	126	1	Probable	probable	JJ
cord-305054-4d84b2g6	126	2	Pangolin	Pangolin	NNP
cord-305054-4d84b2g6	126	3	Origin	Origin	NNP
cord-305054-4d84b2g6	126	4	of	of	IN
cord-305054-4d84b2g6	126	5	SARS	SARS	NNP
cord-305054-4d84b2g6	126	6	-	-	HYPH
cord-305054-4d84b2g6	126	7	CoV-2	CoV-2	NNP
cord-305054-4d84b2g6	127	1	Associated	associate	VBN
cord-305054-4d84b2g6	127	2	with	with	IN
cord-305054-4d84b2g6	127	3	the	the	DT
cord-305054-4d84b2g6	127	4	COVID-19	COVID-19	NNP
cord-305054-4d84b2g6	127	5	Outbreak	Outbreak	NNP
cord-305054-4d84b2g6	127	6	A	a	DT
cord-305054-4d84b2g6	127	7	pneumonia	pneumonia	NN
cord-305054-4d84b2g6	127	8	outbreak	outbreak	NN
cord-305054-4d84b2g6	127	9	associated	associate	VBN
cord-305054-4d84b2g6	127	10	with	with	IN
cord-305054-4d84b2g6	127	11	a	a	DT
cord-305054-4d84b2g6	127	12	new	new	JJ
cord-305054-4d84b2g6	127	13	coronavirus	coronavirus	NN
cord-305054-4d84b2g6	127	14	of	of	IN
cord-305054-4d84b2g6	127	15	probable	probable	JJ
cord-305054-4d84b2g6	127	16	bat	bat	NN
cord-305054-4d84b2g6	127	17	origin	origin	NN