Beijing has released four full sequences from 2017 Guangxi Pangolins. Closest matches at Genbank are COVID-2019 sequences from human cases in Wuhan, China and United States

BetaCoV/pangolin/Guangxi/P5E/2017	Original	EPI_ISL_410541	2017	2020-02-17		29806	Manis javanica	Asia / China / Guangxi	Beijing Institute of Microbiology and Epidemiology	Beijing Institute of Microbiology and Epidemiology
BetaCoV/pangolin/Guangxi/P5L/2017	Original	EPI_ISL_410540	2017	2020-02-17		29806	Manis javanica	Asia / China / Guangxi	Beijing Institute of Microbiology and Epidemiology	Beijing Institute of

 

 

BetaCoV/pangolin/Guangxi/P1E/2017

Original

EPI_ISL_410539

2017

2020-02-17

 

29801

Manis javanica

Asia / China / Guangxi

Beijing Institute of Microbiology and Epidemiology

Beijing Institute of Microbiology and Epidemiology

BetaCoV/pangolin/Guangxi/P4L/2017

Original

EPI_ISL_410538

2017

2020-02-17

 

29806

Manis javanica

Asia / China / Guangxi

Beijing Institute of Microbiology and Epidemiology

Beijing Institute of Microbiology and Epidemiology

BetaCoV/pangolin/Guangxi/P4L/2017|EPI_ISL_410538 Select for downloading or viewing reports	Description	Max Score	Total Score	Query Cover	E value	Per. Ident	Accession
Select seq MN997409.1	Severe acute respiratory syndrome coronavirus 2 isolate 2019-nCoV/USA-AZ1/2020, complete genome	34188	34188	99%	0.0	85.47%	MN997409.1
Select seq MN975262.1	Severe acute respiratory syndrome coronavirus 2 isolate 2019-nCoV_HKU-SZ-005b_2020, complete genome	34188	34188	99%	0.0	85.47%	MN975262.1
Select seq MN985325.1	Severe acute respiratory syndrome coronavirus 2 isolate 2019-nCoV/USA-WA1/2020, complete genome	34184	34184	99%	0.0	85.47%	MN985325.1
Select seq MN988669.1	Severe acute respiratory syndrome coronavirus 2 isolate 2019-nCoV WHU02, complete genome	34170	34170	99%	0.0	85.46%	MN988669.1
Select seq MN988668.1	Severe acute respiratory syndrome coronavirus 2 isolate 2019-nCoV WHU01, complete genome	34170	34170	99%	0.0	85.46%	MN988668.1
Select seq NC_045512.2	Wuhan seafood market pneumonia virus isolate Wuhan-Hu-1, complete genome	34170	34170	99%	0.0	85.46%	NC_045512.2
Select seq MN938384.1	Severe acute respiratory syndrome coronavirus 2 isolate 2019-nCoV_HKU-SZ-002a_2020, complete genome	34167	34167	99%	0.0	85.46%	MN938384.1
Select seq MN994468.1	Severe acute respiratory syndrome coronavirus 2 isolate 2019-nCoV/USA-CA2/2020, complete genome	34161	34161	99%	0.0	85.45%	MN994468.1
Select seq MN994467.1	Severe acute respiratory syndrome coronavirus 2 isolate 2019-nCoV/USA-CA1/2020, complete genome	34161	34161	99%	0.0	85.45%	MN994467.1
Select seq MN988713.1	Severe acute respiratory syndrome coronavirus 2 isolate 2019-nCoV/USA-IL1/2020, complete genome	34160	34160	99%	0.0	85.44%	MN988713.1

Virus detail updated 2020-02-17
Virus name:	BetaCoV/pangolin/Guangxi/P4L/2017
Accession ID:	EPI_ISL_410538
Type:	betacoronavirus
Passage details/history:	Original
Sample information
Collection date:	2017
Location:	Asia / China / Guangxi
Host:	Manis javanica
Additional location information:
Gender:	Unknown
Patient age:	Unknown
Patient status:
Specimen source:	Lung tissue
Additional host information:
Outbreak:
Last vaccinated:
Treatment:
Sequencing technology:
Assembly method:
Coverage:
Comment:
Institute information
Originating lab:	Beijing Institute of Microbiology and Epidemiology
Address:	20 Dongda Street, Fengtai District, 100071 Beijing, China
Sample ID given by the sample provider:
Submitting lab:	Beijing Institute of Microbiology and Epidemiology
Address:	20 Dongda Street, Fengtai District, 100071 Beijing, China
Sample ID given by the submitting laboratory:
Authors:	Wu-Chun Cao; Tommy Tsan-Yuk Lam; Na Jia; Ya-Wei Zhang; Jia-Fu Jiang; Bao-Gui Jiang
Submitter information
Submitter:	Tsan Yuk Lam
Submission Date:	2020-02-17
Address:	20 Dongda Street, Fengtai District, 100071 Beijing, China

FASTA

 

>BetaCoV/pangolin/Guangxi/P4L/2017|EPI_ISL_410538

Virus detail
Virus name:	BetaCoV/pangolin/Guangxi/P1E/2017
Accession ID:	EPI_ISL_410539
Type:	betacoronavirus
Passage details/history:	Original
Sample information
Collection date:	2017
Location:	Asia / China / Guangxi
Host:	Manis javanica
Additional location information:
Gender:	Unknown
Patient age:	Unknown
Patient status:
Specimen source:	Intestine tissue
Additional host information:
Outbreak:
Last vaccinated:
Treatment:
Sequencing technology:
Assembly method:
Coverage:
Comment:
Institute information
Originating lab:	Beijing Institute of Microbiology and Epidemiology
Address:	20 Dongda Street, Fengtai District, 100071 Beijing, China
Sample ID given by the sample provider:
Submitting lab:	Beijing Institute of Microbiology and Epidemiology
Address:	20 Dongda Street, Fengtai District, 100071 Beijing, China
Sample ID given by the submitting laboratory:
Authors:	Wu-Chun Cao; Tommy Tsan-Yuk Lam; Na Jia; Ya-Wei Zhang; Jia-Fu Jiang; Bao-Gui Jiang
Submitter information
Submitter:	Tsan Yuk Lam
Submission Date:	2020-02-17
Address:	20 Dongda Street, Fengtai District, 100071 Beijing, China

FASTA

 

>BetaCoV/pangolin/Guangxi/P1E/2017|EPI_ISL_410539

BetaCoV/pangolin/Guangxi/P1E/2017|EPI_ISL_410539 top 10 matches at Genbank

AlignmentsDownloadGenBankGraphicsDistance tree of resultsShow/hide columns of the table presenting sequences producing significant alignments

Sequences producing significant alignments:

Select for downloading or viewing reports	Description	Max Score	Total Score	Query Cover	E value	Per. Ident	Accession
Select seq MN997409.1	Wuhan seafood market pneumonia virus isolate 2019-nCoV/USA-AZ1/2020, complete genome	34165	34241	99%	0.0	85.45%	MN997409.1
Select seq MN975262.1	Wuhan seafood market pneumonia virus isolate 2019-nCoV_HKU-SZ-005b_2020, complete genome	34165	34241	99%	0.0	85.45%	MN975262.1
Select seq MN985325.1	Wuhan seafood market pneumonia virus isolate 2019-nCoV/USA-WA1/2020, complete genome	34160	34237	99%	0.0	85.45%	MN985325.1
Select seq MN988669.1	Wuhan seafood market pneumonia virus isolate 2019-nCoV WHU02, complete genome	34147	34223	99%	0.0	85.44%	MN988669.1
Select seq MN988668.1	Wuhan seafood market pneumonia virus isolate 2019-nCoV WHU01, complete genome	34147	34223	99%	0.0	85.44%	MN988668.1
Select seq NC_045512.2	Wuhan seafood market pneumonia virus isolate Wuhan-Hu-1, complete genome	34147	34223	99%	0.0	85.44%	NC_045512.2
Select seq MN938384.1	Wuhan seafood market pneumonia virus isolate 2019-nCoV_HKU-SZ-002a_2020, complete genome	34144	34220	99%	0.0	85.44%	MN938384.1
Select seq MN994468.1	Wuhan seafood market pneumonia virus isolate 2019-nCoV/USA-CA2/2020, complete genome	34138	34214	99%	0.0	85.43%	MN994468.1
Select seq MN994467.1	Wuhan seafood market pneumonia virus isolate 2019-nCoV/USA-CA1/2020, complete genome	34138	34214	99%	0.0	85.43%	MN994467.1
Select seq MN988713.1	Wuhan seafood market pneumonia virus isolate 2019-nCoV/USA-IL1/2020, complete genome	34137	34213	99%	0.0	85.42%	MN988713.1

 

Virus detail
Virus name:	BetaCoV/pangolin/Guangxi/P5E/2017
Accession ID:	EPI_ISL_410541
Type:	betacoronavirus
Passage details/history:	Original
Sample information
Collection date:	2017
Location:	Asia / China / Guangxi
Host:	Manis javanica
Additional location information:
Gender:	Unknown
Patient age:	Unknown
Patient status:
Specimen source:	Intestine tissue
Additional host information:
Outbreak:
Last vaccinated:
Treatment:
Sequencing technology:
Assembly method:
Coverage:
Comment:
Institute information
Originating lab:	Beijing Institute of Microbiology and Epidemiology
Address:	20 Dongda Street, Fengtai District, 100071 Beijing, China
Sample ID given by the sample provider:
Submitting lab:	Beijing Institute of Microbiology and Epidemiology
Address:	20 Dongda Street, Fengtai District, 100071 Beijing, China
Sample ID given by the submitting laboratory:
Authors:	Wu-Chun Cao; Tommy Tsan-Yuk Lam; Na Jia; Ya-Wei Zhang; Jia-Fu Jiang; Bao-Gui Jiang
Submitter information
Submitter:	Tsan Yuk Lam
Submission Date:	2020-02-17
Address:	20 Dongda Street, Fengtai District, 100071 Beijing, China

FASTA

 

>BetaCoV/pangolin/Guangxi/P5E/2017|EPI_ISL_410541

BetaCoV/pangolin/Guangxi/P5E/2017|EPI_ISL_410541 top 10 matches at Genbank

AlignmentsDownloadGenBankGraphicsDistance tree of resultsShow/hide columns of the table presenting sequences producing significant alignments

Sequences producing significant alignments:

Select for downloading or viewing reports	Description	Max Score	Total Score	Query Cover	E value	Per. Ident	Accession
Select seq MN997409.1	Wuhan seafood market pneumonia virus isolate 2019-nCoV/USA-AZ1/2020, complete genome	34150	34227	99%	0.0	85.44%	MN997409.1
Select seq MN975262.1	Wuhan seafood market pneumonia virus isolate 2019-nCoV_HKU-SZ-005b_2020, complete genome	34150	34227	99%	0.0	85.44%	MN975262.1
Select seq MN985325.1	Wuhan seafood market pneumonia virus isolate 2019-nCoV/USA-WA1/2020, complete genome	34146	34222	99%	0.0	85.44%	MN985325.1
Select seq MN988669.1	Wuhan seafood market pneumonia virus isolate 2019-nCoV WHU02, complete genome	34132	34209	99%	0.0	85.42%	MN988669.1
Select seq MN988668.1	Wuhan seafood market pneumonia virus isolate 2019-nCoV WHU01, complete genome	34132	34209	99%	0.0	85.42%	MN988668.1
Select seq NC_045512.2	Wuhan seafood market pneumonia virus isolate Wuhan-Hu-1, complete genome	34132	34209	99%	0.0	85.42%	NC_045512.2
Select seq MN938384.1	Wuhan seafood market pneumonia virus isolate 2019-nCoV_HKU-SZ-002a_2020, complete genome	34130	34206	99%	0.0	85.43%	MN938384.1
Select seq MN994468.1	Wuhan seafood market pneumonia virus isolate 2019-nCoV/USA-CA2/2020, complete genome	34123	34200	99%	0.0	85.42%	MN994468.1
Select seq MN994467.1	Wuhan seafood market pneumonia virus isolate 2019-nCoV/USA-CA1/2020, complete genome	34123	34200	99%	0.0	85.42%	MN994467.1
Select seq MN988713.1	Wuhan seafood market pneumonia virus isolate 2019-nCoV/USA-IL1/2020, complete genome	34122	34199	99%	0.0	85.41%	MN988713.1

 

 

Virus detail
Virus name:	BetaCoV/pangolin/Guangxi/P5L/2017
Accession ID:	EPI_ISL_410540
Type:	betacoronavirus
Passage details/history:	Original
Sample information
Collection date:	2017
Location:	Asia / China / Guangxi
Host:	Manis javanica
Additional location information:
Gender:	Unknown
Patient age:	Unknown
Patient status:
Specimen source:	Lung tissue
Additional host information:
Outbreak:
Last vaccinated:
Treatment:
Sequencing technology:
Assembly method:
Coverage:
Comment:
Institute information
Originating lab:	Beijing Institute of Microbiology and Epidemiology
Address:	20 Dongda Street, Fengtai District, 100071 Beijing, China
Sample ID given by the sample provider:
Submitting lab:	Beijing Institute of Microbiology and Epidemiology
Address:	20 Dongda Street, Fengtai District, 100071 Beijing, China
Sample ID given by the submitting laboratory:
Authors:	Wu-Chun Cao; Tommy Tsan-Yuk Lam; Na Jia; Ya-Wei Zhang; Jia-Fu Jiang; Bao-Gui Jiang
Submitter information
Submitter:	Tsan Yuk Lam
Submission Date:	2020-02-17
Address:	20 Dongda Street, Fengtai District, 100071 Beijing, China

FASTA

 

>BetaCoV/pangolin/Guangxi/P5L/2017|EPI_ISL_410540

BetaCoV/pangolin/Guangxi/P5L/2017|EPI_ISL_410540

Top 5 matches at Genbank

AlignmentsDownloadGenBankGraphicsDistance tree of resultsShow/hide columns of the table presenting sequences producing significant alignments

Sequences producing significant alignments:

Select for downloading or viewing reports	Description	Max Score	Total Score	Query Cover	E value	Per. Ident	Accession
Select seq MN997409.1	Severe acute respiratory syndrome coronavirus 2 isolate 2019-nCoV/USA-AZ1/2020, complete genome	34196	34273	99%	0.0	85.48%	MN997409.1
Select seq MN975262.1	Severe acute respiratory syndrome coronavirus 2 isolate 2019-nCoV_HKU-SZ-005b_2020, complete genome	34196	34273	99%	0.0	85.48%	MN975262.1
Select seq MN985325.1	Severe acute respiratory syndrome coronavirus 2 isolate 2019-nCoV/USA-WA1/2020, complete genome	34192	34268	99%	0.0	85.47%	MN985325.1
Select seq MN938384.1	Severe acute respiratory syndrome coronavirus 2 isolate 2019-nCoV_HKU-SZ-002a_2020, complete genome	34176	34252	99%	0.0	85.47%	MN938384.1
Select seq MN994467.1	Severe acute respiratory syndrome coronavirus 2 isolate 2019-nCoV/USA-CA1/2020, complete genome	34169	34246	99%	0.0	85.46%	MN994467.1