2019 Novel Coronavirus Resource (2019nCoVR)

Strains List

Statistics
Strain count
Strains total22067
Filtered set22067

Strain NameIDCollection Date VariationsMost Similar Strains
WH01CNA00073322019-12-26 SNP:
6968: C>A (9 strain(s) in DB)
11764: T>A (6 strain(s) in DB)

Deletions:
1: AATTAAAGGTTTATACCTTC...>- (4882 strain(s) in DB)
29859: TAGGAGAATGACAAAAAAAA...>T (71 strain(s) in DB)

WH02CNA00073332019-12-31
WH03MT2536982020-01-01 Deletions:
1: AATTAAAGGTTTATACCTTC...>- (4882 strain(s) in DB)
29871: AAAAAAAAAAAAAAAAAAAA...>A (158 strain(s) in DB)

SARS-CoV-2/human/THA/SI200478-NST/2020 (MT447159) (0.5)
BetaCoV/Japan/TK/20-31-3/2020 (EPI_ISL_413459) (0.5)
hCoV-19/China/WF0002/2020 (CNA0013889) (0.5)
hCoV-19/Guangzhou/GZMU0047/2020 (CNA0013715) (0.5)
hCoV-19/Korea/KCDC2007/2020 (EPI_ISL_426169) (0.5)
hCoV-19/Korea/KCDC2004/2020 (EPI_ISL_426164) (0.5)
hCoV-19/Indonesia/JKT-EIJK0141/2020 (EPI_ISL_435281) (0.4)
hCov-19/Israel/ISR_JP0320/2020 (EPI_ISL_419211) (0.4)
Guangzhou/GZ8H0007/2020 (CNA0013702) (0.4)
hCoV-19/Hangzhou/HZCDC0048/2020 (EPI_ISL_421233) (0.33)
SARS-CoV-2/HZ-185/human/2020/CHN (MT253698) (0.33)
WH04CNA00138902020-01-05 SNP:
16: C>T (17 strain(s) in DB)
8782: C>T (1672 strain(s) in DB)
28144: T>C (1654 strain(s) in DB)
29854: C>T (35 strain(s) in DB)
29856: T>A (26 strain(s) in DB)

Deletions:
1: AATTAAAGGTTTATAC>- (4882 strain(s) in DB)
29858: TTAGGAGAATGACAAAAAAA...>T (26 strain(s) in DB)

BetaCoV/Guangdong/20SF025/2020 (NMDC60013008-01) (0.5)
BetaCoV/Guangdong/20SF013/2020 (NMDC60013006-01) (0.5)
hCoV-19/Spain/Valencia130/2020 (EPI_ISL_436225) (0.5)
BetaCoV/Guangdong/20SF012/2020 (NMDC60013005-01) (0.5)
Guangzhou/GZ8H0002/2020 (CNA0013698) (0.4)
hCoV-19/Shangrao/JX1948/2020 (EPI_ISL_421240) (0.38)
hCoV-19/China/WF0018/2020 (CNA0013882) (0.38)
hCov-19/China/WF0016/2020 (CNA0013883) (0.38)
hCoV-19/China/WF0015/2020 (CNA0013884) (0.38)
hCoV-19/Jiujiang/JX22/2020 (EPI_ISL_421237) (0.38)
hCoV-19/China/WF0001/2020 (CNA0013890) (0.38)
Guangzhou/GZ8H0001/2020 (CNA0013697)CNA00136972020-01-26 SNP:
8782: C>T (1672 strain(s) in DB)
12534: C>T (8 strain(s) in DB)
13072: C>T (11 strain(s) in DB)
28144: T>C (1654 strain(s) in DB)
29866: A>G (422 strain(s) in DB)
29867: T>C (123 strain(s) in DB)
29868: G>T (177 strain(s) in DB)
29869: A>G (89 strain(s) in DB)
29871: A>C (158 strain(s) in DB)
29872: A>T (168 strain(s) in DB)
29874: A>T (87 strain(s) in DB)
29876: A>T (51 strain(s) in DB)
29877: A>G (104 strain(s) in DB)
29878: A>G (46 strain(s) in DB)
29881: A>G (31 strain(s) in DB)
29883: A>G (22 strain(s) in DB)
29884: A>C (34 strain(s) in DB)
29885: A>C (30 strain(s) in DB)
29886: A>C (31 strain(s) in DB)
29887: A>T (40 strain(s) in DB)
29890: A>T (27 strain(s) in DB)
29891: A>G (154 strain(s) in DB)
29892: A>T (27 strain(s) in DB)
29893: A>G (26 strain(s) in DB)
29894: A>T (34 strain(s) in DB)
29899: A>T (69 strain(s) in DB)
29900: A>T (38 strain(s) in DB)

Deletions:
1: AATTAAAGGTTT>- (4882 strain(s) in DB)

Indels:
29903: A>TTTTAGTAGTGCT (207 strain(s) in DB)

Guangzhou/GZ8H0002/2020 (CNA0013698)EPI_ISL_4163232020-01-26 SNP:
16: C>A (17 strain(s) in DB)
8782: C>T (1672 strain(s) in DB)
12534: C>T (8 strain(s) in DB)
13072: C>T (11 strain(s) in DB)
28144: T>C (1654 strain(s) in DB)

Deletions:
1: AATTAAAGGTTTATA>- (4882 strain(s) in DB)
29866: ATGACAAAAAAAAAAAAAAA...>A (422 strain(s) in DB)

hCoV-19/Shanghai/SH0043/2020 (0.57)
hCoV-19/Shanghai/SH0024/2020 (0.57)
hCoV-19/Shanghai/SH0013/2020 (0.57)
hCoV-19/Shanghai/SH0115/2020 (0.5)
hCoV-19/Shanghai/SH0005/2020 (0.5)
hCoV-19/Shanghai/SH0074/2020 (0.5)
hCoV-19/Shanghai/SH0009/2020 (0.5)
Guangzhou/GZ8H0007/2020 (CNA0013702) (0.5)
hCoV-19/Shanghai/SH0069/2020 (0.44)
hCoV-19/Shanghai/SH0004/2020 (0.44)
hCoV-19/Shanghai/SH0010/2020 (0.44)
Guangzhou/GZ8H0003/2020 (CNA0013699)MT2527772020-01-29 SNP:
5: A>C (24 strain(s) in DB)
9: T>G (22 strain(s) in DB)
10: T>C (31 strain(s) in DB)
11: T>C (34 strain(s) in DB)
12: A>G (48 strain(s) in DB)
8782: C>T (1672 strain(s) in DB)
12534: C>T (8 strain(s) in DB)
13072: C>T (11 strain(s) in DB)
28144: T>C (1654 strain(s) in DB)

Deletions:
29872: AAAAAAAAAAAAAAAAAAAA...>A (168 strain(s) in DB)

Indels:
1: A>A... (4882 strain(s) in DB)
7: G>AACATT (27 strain(s) in DB)

Guangzhou/GZ8H0004/2020 (CNA0013700) (0.56)
Guangzhou/GZ8H0002/2020 (CNA0013698) (0.36)
hCoV-19/Hangzhou/ZJU-02/2020 (EPI_ISL_416042) (0.36)
hCoV-19/Lishui/LS557/2020 (EPI_ISL_429854) (0.33)
hCoV-19/USA/WA-UW67/2020 (MT252793) (0.33)
hCoV-19/Guangzhou/GZMU0044/2020 (CNA0013714) (0.33)
Guangzhou/GZ8H0007/2020 (CNA0013702) (0.31)
hCoV-19/Saudi Arabia/KAUST-MAKKAH165/2020 (EPI_ISL_437478) (0.31)
Guangzhou/GZ8H0005/2020 (CNA0013701) (0.3)
hCoV-19/Hangzhou/ZJU-08/2020 (0.3)
hCoV-19/USA/WA-UW113/2020 (MT252777) (0.29)
Guangzhou/GZ8H0004/2020 (CNA0013700)CNA00137002020-01-31 SNP:
1: A>G (4882 strain(s) in DB)
2: T>C (55 strain(s) in DB)
4: A>G (66 strain(s) in DB)
5: A>C (24 strain(s) in DB)
8: G>A (40 strain(s) in DB)
12: A>G (48 strain(s) in DB)
8782: C>T (1672 strain(s) in DB)
12534: C>T (8 strain(s) in DB)
13072: C>T (11 strain(s) in DB)
27235: G>A (1 strain(s) in DB)
28144: T>C (1654 strain(s) in DB)

Insertions:
10: T>TTGGA (31 strain(s) in DB)

Deletions:
29872: AAAAAAAAAAAAAAAAAAAA...>A (168 strain(s) in DB)

Guangzhou/GZ8H0005/2020 (CNA0013701)EPI_ISL_4145212020-01-31 SNP:
1: A>G (4882 strain(s) in DB)
4: A>G (66 strain(s) in DB)
8782: C>T (1672 strain(s) in DB)
12534: C>T (8 strain(s) in DB)
13072: C>T (11 strain(s) in DB)
28144: T>C (1654 strain(s) in DB)
29878: A>G (46 strain(s) in DB)
29882: A>G (514 strain(s) in DB)
29887: A>G (40 strain(s) in DB)
29890: A>G (27 strain(s) in DB)
29893: A>G (26 strain(s) in DB)
29896: A>G (30 strain(s) in DB)

Insertions:
10: T>T... (31 strain(s) in DB)

Deletions:
29898: AAAAAA>A (33 strain(s) in DB)

Guangzhou/GZ8H0004/2020 (CNA0013700) (0.35)
SARS-CoV-2/IQTC04/human/2020/CHN (MT123292) (0.33)
Guangzhou/GZ8H0002/2020 (CNA0013698) (0.31)
hCoV-19/Guangzhou/GZMU0041/2020 (CNA0013943) (0.31)
Guangzhou/GZ8H0003/2020 (CNA0013699) (0.3)
hCoV-19/China/WF0015/2020 (CNA0013884) (0.29)
Guangzhou/GZ8H0007/2020 (CNA0013702) (0.27)
Guangzhou/GZ8H0001/2020 (CNA0013697) (0.26)
hCoV-19/USA/WA-UW-4032/2020 (MT461610) (0.26)
BetaCoV/Korea/KCDC06/2020 (EPI_ISL_412870) (0.25)
hCoV-19/Germany/BavPat3/2020 (EPI_ISL_414521) (0.25)
Guangzhou/GZ8H0007/2020 (CNA0013702)MT4510422020-01-26 SNP:
8782: C>T (1672 strain(s) in DB)
12534: C>T (8 strain(s) in DB)
28144: T>C (1654 strain(s) in DB)

Deletions:
1: AATTAAAGGTTTAT>- (4882 strain(s) in DB)

Indels:
29871: AAAAAAAAAAAAAAAAAAAA...>G (158 strain(s) in DB)

hCoV-19/Guangzhou/GZMU0047/2020 (CNA0013715) (0.8)
hCoV-19/China/WF0014/2020 (CNA0013885) (0.57)
hCoV-19/Shanghai/SH0043/2020 (0.5)
hCoV-19/Xinyu/JX122/2020 (EPI_ISL_421249) (0.5)
hCoV-19/China/WF0020/2020 (CNA0013880) (0.5)
hCoV-19/Nanchang/JX149/2020 (EPI_ISL_421247) (0.5)
hCoV-19/China/WF0018/2020 (CNA0013882) (0.5)
hCov-19/China/WF0016/2020 (CNA0013883) (0.5)
hCoV-19/Nanchang/JXN3T4/2020 (EPI_ISL_421246) (0.5)
hCoV-19/China/WF0015/2020 (CNA0013884) (0.5)
hCoV-19/Australia/VIC138/2020 (MT451042) (0.5)
Guangzhou/GZ8H0008/2020 (CNA0013703)MT1232912020-01-28 SNP:
6819: G>T (6 strain(s) in DB)
13072: C>T (11 strain(s) in DB)
29527: G>A (8 strain(s) in DB)

Deletions:
1: AATTAAAGGTTTATA>- (4882 strain(s) in DB)
29867: TGACAAAAAAAAAAAAAAAA...>T (123 strain(s) in DB)

Guangzhou/GZ8H0011/2020 (CNA0013705) (0.43)
Guangzhou/GZ8H0010/2020 (CNA0013704) (0.38)
SARS-CoV-2/human/Guangzhou/IQTC05/2020 (0.33)
hCoV-19/Shandong/LY005-2/2020 (0.22)
hCoV-19/Korea/KCDC2007/2020 (EPI_ISL_426169) (0.2)
hCoV-19/Denmark/SSI-02/2020 (EPI_ISL_416143) (0.2)
hCoV-19/Korea/KCDC2004/2020 (EPI_ISL_426164) (0.2)
hCoV-19/Japan/DP0065/2020 (LC570968) (0.2)
hCoV-19/Denmark/SSI-03/2020 (EPI_ISL_416144) (0.2)
Guangzhou/GZ8H0002/2020 (CNA0013698) (0.2)
SARS-CoV-2/IQTC02/human/2020/CHN (MT123291) (0.19)
Guangzhou/GZ8H0010/2020 (CNA0013704)CNA00137042020-01-29 SNP:
6819: G>T (6 strain(s) in DB)
6996: T>C (4 strain(s) in DB)
17373: C>T (23 strain(s) in DB)
29527: G>A (8 strain(s) in DB)

Deletions:
1: AATTAAAGGTTT>- (4882 strain(s) in DB)

Indels:
29872: AAAAAAAAAAAAAAAAAAAA...>C (168 strain(s) in DB)

Guangzhou/GZ8H0011/2020 (CNA0013705)CNA00137052020-01-29 SNP:
6819: G>T (6 strain(s) in DB)
17373: C>T (23 strain(s) in DB)
29527: G>A (8 strain(s) in DB)

Deletions:
1: AATTAAAGGTTT>- (4882 strain(s) in DB)
29872: AAAAAAAAAAAAAAAAAAAA...>A (168 strain(s) in DB)

Guangzhou/GZ8H0013/2020CNA00137062020-01-28
Guangzhou/GZ8H0014/2020CNA00137072020-01-28
Guangzhou/GZ8H0016/2020 (CNA0013708)MT4387292020-01-26 SNP:
15324: C>T (278 strain(s) in DB)
17550: C>T (16 strain(s) in DB)
29303: C>T (15 strain(s) in DB)

Deletions:
1: AATTAAAGGTTTAT>- (4882 strain(s) in DB)

Indels:
29875: AAAAAAAAAAAAAAAAAAAA...>C (78 strain(s) in DB)

BetaCoV/Guangzhou/20SF206/2020 (NMDC60013012-01) (0.5)
hCoV-19/Shanghai/SH0055/2020 (0.5)
hCoV-19/Shanghai/SH0088/2020 (0.43)
hCoV-19/Shanghai/SH0053/2020 (0.43)
hCoV-19/Guangdong/GD2020246-P0028/2020 (0.4)
BetaCoV/Japan/KY-V-029/2020 (LC522972) (0.38)
hCoV-19/Japan/DP0134/2020 (LC570975) (0.33)
TKYE6182_2020 (0.33)
hCoV-19/Japan/DP0107/2020 (LC570972) (0.33)
hCoV-19/Australia/QLDID922/2020 (EPI_ISL_418799) (0.33)
hCoV-19/USA/CA-CZB-1011/2020 (MT438729) (0.33)
hCoV-19/Guangzhou/GZMU0016/2020 (CNA0013710)CNA00137102020-02-25 SNP:
8782: C>T (1672 strain(s) in DB)
28144: T>C (1654 strain(s) in DB)
29866: A>G (422 strain(s) in DB)
29867: T>C (123 strain(s) in DB)
29868: G>T (177 strain(s) in DB)
29869: A>G (89 strain(s) in DB)
29871: A>C (158 strain(s) in DB)
29872: A>T (168 strain(s) in DB)
29874: A>T (87 strain(s) in DB)
29876: A>T (51 strain(s) in DB)
29877: A>G (104 strain(s) in DB)
29878: A>G (46 strain(s) in DB)
29881: A>G (31 strain(s) in DB)
29883: A>G (22 strain(s) in DB)
29884: A>C (34 strain(s) in DB)
29885: A>C (30 strain(s) in DB)
29886: A>C (31 strain(s) in DB)
29887: A>T (40 strain(s) in DB)
29890: A>T (27 strain(s) in DB)
29891: A>G (154 strain(s) in DB)
29892: A>T (27 strain(s) in DB)
29893: A>G (26 strain(s) in DB)
29894: A>T (34 strain(s) in DB)
29899: A>T (69 strain(s) in DB)
29900: A>T (38 strain(s) in DB)

Deletions:
1: AATTAAAGGTTT>- (4882 strain(s) in DB)

Indels:
29903: A>TTTTAGTAGTGCC (207 strain(s) in DB)

hCoV-19/Guangzhou/GZMU0030/2020 (CNA0013711)CNA00137112020-02-27 SNP:
186: C>T (10 strain(s) in DB)
1734: C>T (4 strain(s) in DB)
26458: G>T (4 strain(s) in DB)

Deletions:
1: AATTAAAGGTTTA>- (4882 strain(s) in DB)
29870: CAAAAAAAAAAAAAAAAAAA...>C (353 strain(s) in DB)

hCoV-19/Guangzhou/GZMU0031/2020 (CNA0013712)MN9886682020-02-25 Deletions:
1: AATTAAAGGTTTA>- (4882 strain(s) in DB)

Indels:
29872: AAAAAAAAAAAAAAAAAAAA...>G (168 strain(s) in DB)

hCoV-19/Norway/2087/2020 (EPI_ISL_420151) (0.67)
hCoV-19/Korea/KCDC2007/2020 (EPI_ISL_426169) (0.5)
hCoV-19/Guangzhou/GZMU0044/2020 (CNA0013714) (0.5)
hCoV-19/Belgium/SJ-030583/2020 (EPI_ISL_420339) (0.5)
hCoV-19/Lishui/LS557/2020 (EPI_ISL_429854) (0.5)
hCoV-19/Korea/KCDC2004/2020 (EPI_ISL_426164) (0.5)
hCoV-19/Georgia/Tb-54/2020 (EPI_ISL_415641) (0.4)
Guangzhou/GZ8H0011/2020 (CNA0013705) (0.4)
SARS-CoV-2/HZ-178/human/2020/CHN (MT253697) (0.33)
SARS-CoV-2/HZ-162/human/2020/CHN (MT253696) (0.33)
2019-nCoV WHU01 (MN988668) (0.33)
hCoV-19/Guangzhou/GZMU0042/2020 (CNA0013713)CNA00138932020-02-25 SNP:
8782: C>T (1672 strain(s) in DB)
26447: C>G (12 strain(s) in DB)
28144: T>C (1654 strain(s) in DB)
28250: T>G (3 strain(s) in DB)
29095: C>T (58 strain(s) in DB)

Deletions:
1: AATTAAAGGTTTAT>- (4882 strain(s) in DB)
28253: CA>C (23 strain(s) in DB)
29868: GACAAAAAAAAAAAAAAAAA...>G (177 strain(s) in DB)

hCoV-19/Guangzhou/GZMU0049/2020 (CNA0013946) (0.63)
hCoV-19/Guangzhou/GZMU0050/2020 (CNA0013947) (0.46)
BetaCoV/Guangdong/20SF013/2020 (NMDC60013006-01) (0.44)
BetaCoV/Guangdong/20SF025/2020 (NMDC60013008-01) (0.44)
BetaCoV/Guangdong/20SF012/2020 (NMDC60013005-01) (0.44)
hCoV-19/Shanghai/SH0005/2020 (0.44)
2019-nCoV_HKU-SZ-002a_2020 (0.44)
hCoV-19/Shanghai/SH0074/2020 (0.44)
hCoV-19/Beijing/BJ492/2020 (EPI_ISL_430728) (0.4)
SARS-CoV-2/human/THA/SI202205-NT/2020 (MT447162) (0.4)
hCoV-19/China/WF0029/2020 (CNA0013893) (0.4)
hCoV-19/Guangzhou/GZMU0044/2020 (CNA0013714)CNA00137142020-02-25 SNP:
8782: C>T (1672 strain(s) in DB)
28144: T>C (1654 strain(s) in DB)

Deletions:
1: AATTAAAGGTTT>- (4882 strain(s) in DB)

Indels:
29872: AAAAAAAAAAAAAAAAAAAA...>G (168 strain(s) in DB)

hCoV-19/Guangzhou/GZMU0047/2020 (CNA0013715)CNA00137152020-02-25 SNP:
8782: C>T (1672 strain(s) in DB)
28144: T>C (1654 strain(s) in DB)

Deletions:
1: AATTAAAGGTTTAT>- (4882 strain(s) in DB)
29871: AAAAAAAAAAAAAAAAAAAA...>A (158 strain(s) in DB)

hCoV-19/Guangzhou/GZMU0048/2020 (CNA0013716)CNA00137162020-02-25 SNP:
2: T>C (55 strain(s) in DB)
8782: C>T (1672 strain(s) in DB)
28144: T>C (1654 strain(s) in DB)

Deletions:
29870: CAAAAAAAAAAAAAAAAAAA...>C (353 strain(s) in DB)

Indels:
1: A>A... (4882 strain(s) in DB)

hCoV-19/Guangzhou/GZMU0014/2020 (CNA0013717)GWHACBA010000012020-02-25 SNP:
1430: A>G (4 strain(s) in DB)
16535: G>T (2 strain(s) in DB)
18568: C>T (8 strain(s) in DB)

Deletions:
1: AATTAAAGGTTTA>- (4882 strain(s) in DB)
29873: AAAAAAAAAAAAAAAAAAAA...>A (124 strain(s) in DB)

hCoV-19/Guangdong/2020XN4448-P0002/2020 (0.43)
hCoV-19/Malaysia/MKAK-CL-2020-5047/2020 (EPI_ISL_416866) (0.33)
hCoV-19/Malaysia/IMR_WC627/2020 (EPI_ISL_430444) (0.29)
hCoV-19/Norway/1694/2020 (EPI_ISL_420136) (0.25)
hCoV-19/Wales/PHWC-24288/2020 (EPI_ISL_418159) (0.25)
hCoV-19/Wales/PHWC-24121/2020 (EPI_ISL_418147) (0.22)
hCoV-19/Belgium/RS-030677/2020 (EPI_ISL_420333) (0.22)
hCoV-19/Belgium/HL-030771/2020 (EPI_ISL_420327) (0.22)
hCoV-19/China/WF0019/2020 (CNA0013881) (0.22)
hCoV-19/Czech Republic/ChVir1630/2020 (EPI_ISL_416742) (0.22)
SARS-CoV-2/Wuhan_IME-BJ04/human/2020/CHN (GWHACBA01000001) (0.2)
hCoV-19/China/WF0028/2020 (CNA0013876)MT2526982020-02-05 SNP:
207: C>T (5 strain(s) in DB)
946: T>C (5 strain(s) in DB)
8782: C>T (1672 strain(s) in DB)
11430: A>G (4 strain(s) in DB)
16474: A>G (4 strain(s) in DB)
25000: C>A (9 strain(s) in DB)
28144: T>C (1654 strain(s) in DB)

Deletions:
1: AATTAAAGGTTT>- (4882 strain(s) in DB)
29870: CAAAAAAAAAAAAAAAAAAA...>C (353 strain(s) in DB)

hCoV-19/China/WF0012/2020 (CNA0013886) (0.6)
hCoV-19/China/WF0026/2020 (CNA0013877) (0.6)
hCoV-19/Shanghai/SH0026/2020 (0.55)
2019-nCoV_HKU-SZ-002a_2020 (0.4)
hCoV-19/Guangzhou/GZMU0048/2020 (CNA0013716) (0.4)
hCoV-19/South Korea/KUMC06/2020 (EPI_ISL_413516) (0.36)
BetaCoV/Australia/QLD04/2020 (EPI_ISL_410718) (0.36)
hCoV-19/South Korea/KUMC04/2020 (EPI_ISL_413514) (0.36)
hCoV-19/South Korea/KUMC05/2020 (EPI_ISL_413515) (0.36)
hCoV-19/South Korea/KUMC03/2020 (EPI_ISL_413513) (0.36)
hCoV-19/USA/WA-UW183/2020 (MT252698) (0.33)
hCoV-19/China/WF0026/2020 (CNA0013877)NMDC60013094-012020-02-04 SNP:
207: C>T (5 strain(s) in DB)
946: T>C (5 strain(s) in DB)
8782: C>T (1672 strain(s) in DB)
11430: A>G (4 strain(s) in DB)
28144: T>C (1654 strain(s) in DB)

Deletions:
1: AATTAAAGGTTTAT>- (4882 strain(s) in DB)
29865: AATGACAAAAAAAAAAAAAA...>A (74 strain(s) in DB)

hCoV-19/China/WF0012/2020 (CNA0013886) (1)
hCoV-19/Shanghai/SH0026/2020 (0.67)
hCoV-19/China/WF0028/2020 (CNA0013876) (0.6)
hCoV-19/China/WF0018/2020 (CNA0013882) (0.57)
hCov-19/China/WF0016/2020 (CNA0013883) (0.57)
hCoV-19/China/WF0001/2020 (CNA0013890) (0.57)
hCoV-19/China/WF0021/2020 (CNA0013879) (0.5)
hCoV-19/Scotland/CVR458/2020 (EPI_ISL_433298) (0.44)
hCoV-19/China/WF0015/2020 (CNA0013884) (0.38)
hCoV-19/Lishui/LS557/2020 (EPI_ISL_429854) (0.38)
BetaCoV/Wuhan/HBCDC-HB-03/2020 (NMDC60013094-01) (0.38)
hCoV-19/China/WF0024/2020 (CNA0013878)MT2537022020-02-10 SNP:
5608: A>G (3 strain(s) in DB)
7164: C>T (7 strain(s) in DB)

Deletions:
1: AATTAAAGGTTTA>- (4882 strain(s) in DB)
22280: ACTTTACTTG>A (2 strain(s) in DB)
29894: AAAAAAAAAA>A (34 strain(s) in DB)

hCoV-19/Wales/PHWC-25111/2020 (EPI_ISL_420969) (0.25)
hCoV-19/Wales/PHWC-260D7/2020 (EPI_ISL_422110) (0.22)
hCoV-19/USA/WA-UW-2232/2020 (MT345851) (0.2)
hCoV-19/Korea/KCDC2004/2020 (EPI_ISL_426164) (0.2)
hCoV-19/Korea/KCDC2007/2020 (EPI_ISL_426169) (0.2)
hCoV-19/USA/WA-UW292/2020 (MT259282) (0.18)
hCoV-19/Lishui/LS556/2020 (EPI_ISL_429853) (0.18)
SARS-CoV-2/Wuhan_IME-WH02/human/2019/CHN (GWHACAT01000001) (0.17)
SARS-CoV-2/HZ-477/human/2020/CHN (MT253699) (0.17)
SARS-CoV-2/HZ-551/human/2020/CHN (MT253703) (0.17)
SARS-CoV-2/HZ-49/human/2020/CHN (MT253702) (0.17)
hCoV-19/China/WF0021/2020 (CNA0013879)CNA00138792020-02-07 SNP:
8782: C>T (1672 strain(s) in DB)
28144: T>C (1654 strain(s) in DB)

Deletions:
1: AATTAAAGGTTTA>- (4882 strain(s) in DB)
27791: CTTT>C (3 strain(s) in DB)
29865: AATGACAAAAAAAAAAAAAA...>A (74 strain(s) in DB)

hCoV-19/China/WF0020/2020 (CNA0013880)CNA00138802020-02-07 SNP:
8782: C>T (1672 strain(s) in DB)
28144: T>C (1654 strain(s) in DB)

Deletions:
1: AA>- (4882 strain(s) in DB)
29883: AAAAAAAAAAAAAAAAAAAA...>A (22 strain(s) in DB)

hCoV-19/China/WF0019/2020 (CNA0013881)CNA00138832020-02-07 SNP:
8782: C>T (1672 strain(s) in DB)
14768: C>T (2 strain(s) in DB)
17805: A>T (6 strain(s) in DB)
28144: T>C (1654 strain(s) in DB)

Deletions:
1: AATTAAAGGTTT>- (4882 strain(s) in DB)
29873: AAAAAAAAAAAAAAAAAAAA...>A (124 strain(s) in DB)

SARS-CoV-2/Wuhan_IME-BJ04/human/2020/CHN (GWHACBA01000001) (0.44)
hCoV-19/Nanchang/JX149/2020 (EPI_ISL_421247) (0.43)
hCoV-19/Shanghai/SH0043/2020 (0.43)
hCoV-19/China/WF0020/2020 (CNA0013880) (0.43)
hCoV-19/Xinyu/JX122/2020 (EPI_ISL_421249) (0.43)
BetaCoV/Australia/NSW01/2020 (EPI_ISL_407893) (0.43)
hCoV-19/Guangzhou/GZMU0047/2020 (CNA0013715) (0.43)
hCoV-19/Guangzhou/GZMU0044/2020 (CNA0013714) (0.43)
hCoV-19/China/WF0018/2020 (CNA0013882) (0.43)
hCoV-19/Ganzhou/JX81/2020 (EPI_ISL_421242) (0.43)
hCov-19/China/WF0016/2020 (CNA0013883) (0.43)
hCoV-19/China/WF0018/2020 (CNA0013882)CNA00138822020-02-07 SNP:
8782: C>T (1672 strain(s) in DB)
28144: T>C (1654 strain(s) in DB)

Deletions:
1: AATTAAAGGTTTATA>- (4882 strain(s) in DB)
29865: AATGACAAAAAAAAAAAAAA...>A (74 strain(s) in DB)

hCov-19/China/WF0016/2020 (CNA0013883)CNA00137142020-02-05 SNP:
8782: C>T (1672 strain(s) in DB)
28144: T>C (1654 strain(s) in DB)

Deletions:
1: AATTAAAGGTTTAT>- (4882 strain(s) in DB)
29865: AATGACAAAAAAAAAAAAAA...>A (74 strain(s) in DB)

hCoV-19/China/WF0018/2020 (CNA0013882) (1)
hCoV-19/China/WF0001/2020 (CNA0013890) (1)
hCoV-19/China/WF0021/2020 (CNA0013879) (0.8)
hCoV-19/Scotland/CVR458/2020 (EPI_ISL_433298) (0.67)
hCoV-19/China/WF0015/2020 (CNA0013884) (0.6)
hCoV-19/Shangrao/JX1948/2020 (EPI_ISL_421240) (0.6)
hCoV-19/Jiujiang/JX22/2020 (EPI_ISL_421237) (0.6)
hCoV-19/Ganzhou/JX81/2020 (EPI_ISL_421242) (0.6)
hCoV-19/Australia/VIC138/2020 (MT451042) (0.6)
hCoV-19/Guangzhou/GZMU0047/2020 (CNA0013715) (0.6)
hCoV-19/Guangzhou/GZMU0044/2020 (CNA0013714) (0.6)
hCoV-19/China/WF0015/2020 (CNA0013884)CNA00138842020-02-05 SNP:
8782: C>T (1672 strain(s) in DB)
28144: T>C (1654 strain(s) in DB)

Deletions:
1: AATTAAAGGTTT>- (4882 strain(s) in DB)
29890: AAAAAAAAAAAAAA>A (27 strain(s) in DB)

hCoV-19/China/WF0014/2020 (CNA0013885)EPI_ISL_4212492020-02-04 SNP:
6501: C>T (5 strain(s) in DB)
8782: C>T (1672 strain(s) in DB)
16887: C>T (42 strain(s) in DB)
28144: T>C (1654 strain(s) in DB)

Deletions:
1: AATTAAAGGTT>- (4882 strain(s) in DB)
29871: AAAAAAAAAAAAAAAAAAAA...>A (158 strain(s) in DB)

hCoV-19/Guangzhou/GZMU0047/2020 (CNA0013715) (0.67)
SARS-CoV-2/human/HKG/HKU-907a/2020 (0.57)
Guangzhou/GZ8H0007/2020 (CNA0013702) (0.57)
SARS-CoV-2/166/human/2020/IND (MT050493) (0.56)
hCoV-19/Guangdong/2020XN4475-P0042/2020 (0.5)
hCoV-19/USA/CA-CZBRR057IX00090/2020 (MT385473) (0.44)
hCoV-19/Ganzhou/JX81/2020 (EPI_ISL_421242) (0.43)
hCoV-19/Nanchang/JX149/2020 (EPI_ISL_421247) (0.43)
hCoV-19/China/WF0020/2020 (CNA0013880) (0.43)
hCoV-19/Australia/VIC138/2020 (MT451042) (0.43)
hCoV-19/Xinyu/JX122/2020 (EPI_ISL_421249) (0.43)
hCoV-19/China/WF0012/2020 (CNA0013886)CNA00138802020-02-02 SNP:
207: C>T (5 strain(s) in DB)
946: T>C (5 strain(s) in DB)
8782: C>T (1672 strain(s) in DB)
11430: A>G (4 strain(s) in DB)
28144: T>C (1654 strain(s) in DB)

Deletions:
1: AATTAAAGGTTTAT>- (4882 strain(s) in DB)
29865: AATGACAAAAAAAAAAAAAA...>A (74 strain(s) in DB)

hCoV-19/China/WF0026/2020 (CNA0013877) (1)
hCoV-19/Shanghai/SH0026/2020 (0.67)
hCoV-19/China/WF0028/2020 (CNA0013876) (0.6)
hCoV-19/China/WF0018/2020 (CNA0013882) (0.57)
hCov-19/China/WF0016/2020 (CNA0013883) (0.57)
hCoV-19/China/WF0001/2020 (CNA0013890) (0.57)
hCoV-19/China/WF0021/2020 (CNA0013879) (0.5)
hCoV-19/Scotland/CVR458/2020 (EPI_ISL_433298) (0.44)
hCoV-19/Shangrao/JX1948/2020 (EPI_ISL_421240) (0.38)
hCoV-19/Lishui/LS557/2020 (EPI_ISL_429854) (0.38)
hCoV-19/China/WF0020/2020 (CNA0013880) (0.38)
hCoV-19/China/WF0004/2020 (CNA0013887)CNA00138872020-01-27 SNP:
22020: T>C (6 strain(s) in DB)
24680: G>T (3 strain(s) in DB)

Deletions:
1: AATTAAAGGTTT>- (4882 strain(s) in DB)
29878: AAAAAAAAAAAAAAAAAAAA...>A (46 strain(s) in DB)

hCoV-19/China/WF0003/2020 (CNA0013888)MT4509202020-01-27 SNP:
2334: C>T (2 strain(s) in DB)
26198: C>T (2 strain(s) in DB)

Deletions:
1: AATTAAAGGTTTAT>- (4882 strain(s) in DB)
29863: AGAATGACAAAAAAAAAAAA...>A (15 strain(s) in DB)

hCoV-19/Japan/DP0752/2020 (LC571025) (0.33)
hCoV-19/Korea/KCDC2007/2020 (EPI_ISL_426169) (0.25)
hCoV-19/Japan/DP0457/2020 (LC570999) (0.25)
hCoV-19/Korea/KCDC2004/2020 (EPI_ISL_426164) (0.25)
hCoV-19/USA/AK-PHL03/2020 (EPI_ISL_420304) (0.22)
hCoV-19/USA/AK-PHL02/2020 (EPI_ISL_420303) (0.22)
SARS-CoV-2/HZ-481/human/2020/CHN (MT253700) (0.2)
SARS-CoV-2/HZ-178/human/2020/CHN (MT253697) (0.2)
hCoV-19/Thailand/74/2020 (0.2)
WIV06 (0.2)
hCoV-19/Australia/VIC03/2020 (MT450920) (0.2)
hCoV-19/China/WF0002/2020 (CNA0013889)EPI_ISL_4261642020-01-26 SNP:
22020: T>C (6 strain(s) in DB)
24680: G>T (3 strain(s) in DB)

Deletions:
1: AATTAAAGGTTT>- (4882 strain(s) in DB)
29871: AAAAAAAAAAAAAAAAAAAA...>A (158 strain(s) in DB)

hCoV-19/China/WF0004/2020 (CNA0013887) (0.6)
WH03 (0.5)
BetaCoV/Japan/TK/20-31-3/2020 (EPI_ISL_413459) (0.33)
SARS-CoV-2/human/THA/SI200478-NST/2020 (MT447159) (0.33)
hCoV-19/Guangzhou/GZMU0047/2020 (CNA0013715) (0.33)
hCov-19/Israel/ISR_JP0320/2020 (EPI_ISL_419211) (0.29)
Guangzhou/GZ8H0007/2020 (CNA0013702) (0.29)
hCoV-19/Jian/JX129/2020 (EPI_ISL_421253) (0.29)
hCoV-19/Indonesia/JKT-EIJK0141/2020 (EPI_ISL_435281) (0.29)
hCoV-19/Norway/1379/2020 (EPI_ISL_417483) (0.25)
hCoV-19/Korea/KCDC2004/2020 (EPI_ISL_426164) (0.25)
hCoV-19/China/WF0001/2020 (CNA0013890)CNA00137142020-01-25 SNP:
8782: C>T (1672 strain(s) in DB)
28144: T>C (1654 strain(s) in DB)

Deletions:
1: AATTAAAGGT>- (4882 strain(s) in DB)
29865: AATGACAAAAAAAAAAAAAA...>A (74 strain(s) in DB)

hCoV-19/China/WF0018/2020 (CNA0013882) (1)
hCov-19/China/WF0016/2020 (CNA0013883) (1)
hCoV-19/China/WF0021/2020 (CNA0013879) (0.8)
hCoV-19/Scotland/CVR458/2020 (EPI_ISL_433298) (0.67)
hCoV-19/Lishui/LS557/2020 (EPI_ISL_429854) (0.6)
hCoV-19/Shangrao/JX1948/2020 (EPI_ISL_421240) (0.6)
hCoV-19/Jiujiang/JX22/2020 (EPI_ISL_421237) (0.6)
hCoV-19/Ganzhou/JX81/2020 (EPI_ISL_421242) (0.6)
hCoV-19/Australia/VIC138/2020 (MT451042) (0.6)
hCoV-19/Guangzhou/GZMU0047/2020 (CNA0013715) (0.6)
hCoV-19/Guangzhou/GZMU0044/2020 (CNA0013714) (0.6)
Weifang/WFCDC0017/2020CNA00138912020-02-07
Weifang/WFCDC0006/2020CNA00138922020-01-28
hCoV-19/China/WF0029/2020 (CNA0013893)CNA00138932020-02-08 SNP:
8782: C>T (1672 strain(s) in DB)
18686: G>T (2 strain(s) in DB)
28144: T>C (1654 strain(s) in DB)
29095: C>T (58 strain(s) in DB)

Deletions:
1: AATTAAAGGTTTAT>- (4882 strain(s) in DB)
29869: ACAAAAAAAAAAAAAAAAAA...>A (89 strain(s) in DB)

Weifang/WFCDC0023/2020CNA00138942020-02-08
Weifang/WFCDC0009/2020CNA00138952020-01-29
hCoV-19/Guangzhou/GZMU0003/2020 (CNA0013927)CNA00139272020-02-07 SNP:
21707: C>T (27 strain(s) in DB)

hCoV-19/Guangzhou/GZMU0008/2020 (CNA0013928)CNA00139282020-02-07 SNP:
8782: C>T (1672 strain(s) in DB)
28144: T>C (1654 strain(s) in DB)

Deletions:
29891: AAAAAAAAAAAAA>A (154 strain(s) in DB)

Guangzhou/GZMU0009/2020CNA00139292020-02-07
hCoV-19/Guangzhou/GZMU0010/2020 (CNA0013930)CNA00139302020-02-07 SNP:
1: A>C (4882 strain(s) in DB)
2: T>A (55 strain(s) in DB)
4: A>G (66 strain(s) in DB)
21707: C>T (27 strain(s) in DB)

hCoV-19/Guangzhou/GZMU0013/2020 (CNA0013931)MT0661562020-02-07 SNP:
21707: C>T (27 strain(s) in DB)
29867: T>C (123 strain(s) in DB)

hCoV-19/Guangzhou/GZMU0052/2020 (CNA0013949) (0.5)
hCoV-19/Guangzhou/GZMU0033/2020 (CNA0013938) (0.5)
hCoV-19/Guangzhou/GZMU0003/2020 (CNA0013927) (0.5)
hCoV-19/Guangzhou/GZMU0059/2020 (CNA0013954) (0.33)
hCoV-19/Guangzhou/GZMU0051/2020 (CNA0013948) (0.33)
BetaCoV/Guangdong/20SF028/2020 (NMDC60013010-01) (0.25)
BetaCoV/Guangdong/20SF040/2020 (EPI_ISL_403937) (0.25)
2019-nCoV/USA-CA5/2020 (MT027064) (0.25)
BetaCoV/Italy/INMI1-isl/2020 (EPI_ISL_410545) (0.25)
BetaCoV/Guangdong/20SF174/2020 (NMDC60013011-01) (0.25)
SARS-CoV-2/human/ITA/INMI1/2020 (0.25)
Guangzhou/GZMU0017/2020CNA00139322020-02-05
hCoV-19/Guangzhou/GZMU0019/2020 (CNA0013933)EPI_ISL_4349602020-02-05 SNP:
241: C>T (7669 strain(s) in DB)
3037: C>T (7693 strain(s) in DB)
23403: A>G (7732 strain(s) in DB)

Deletions:
29891: AAAAAAAAAAAAA>A (154 strain(s) in DB)

hCoV-19/Greece/127_HPI/2020 (EPI_ISL_430469) (0.67)
hCoV-19/Australia/VIC652/2020 (MT451452) (0.6)
hCoV-19/Russia/StPetersburg-RII4936S/2020 (EPI_ISL_430071) (0.6)
hCoV-19/Germany/BAV-MVP0015/2020 (EPI_ISL_437216) (0.6)
hCoV-19/England/LOND-D3DF0/2020 (EPI_ISL_441036) (0.6)
hCoV-19/Italy/HSacco-1/2020 (EPI_ISL_429874) (0.6)
hCoV-19/USA/TX-HMH382/2020 (EPI_ISL_434970) (0.6)
hCoV-19/England/SHEF-CA0B7/2020 (EPI_ISL_432481) (0.6)
hCoV-19/England/CAMB-73D2F/2020 (EPI_ISL_433688) (0.6)
hCoV-19/USA/NY-NYUMC69/2020 (EPI_ISL_420585) (0.6)
hCoV-19/USA/TX-HMH369/2020 (EPI_ISL_434960) (0.6)
Guangzhou/GZMU0020/2020CNA00139342020-02-05
hCoV-19/Guangzhou/GZMU0023/2020 (CNA0013935)CNA00139352020-02-05 SNP:
8782: C>T (1672 strain(s) in DB)
28144: T>C (1654 strain(s) in DB)
29866: A>G (422 strain(s) in DB)
29868: G>A (177 strain(s) in DB)
29870: C>A (353 strain(s) in DB)
29872: A>T (168 strain(s) in DB)
29873: A>T (124 strain(s) in DB)
29876: A>T (51 strain(s) in DB)
29877: A>T (104 strain(s) in DB)
29878: A>T (46 strain(s) in DB)
29879: A>T (37 strain(s) in DB)
29881: A>G (31 strain(s) in DB)
29882: A>T (514 strain(s) in DB)
29884: A>G (34 strain(s) in DB)
29885: A>T (30 strain(s) in DB)
29886: A>G (31 strain(s) in DB)
29887: A>C (40 strain(s) in DB)

hCoV-19/Guangzhou/GZMU0024/2020 (CNA0013936)CNA00139362020-02-05 SNP:
8782: C>T (1672 strain(s) in DB)
28144: T>C (1654 strain(s) in DB)
29866: A>G (422 strain(s) in DB)
29868: G>A (177 strain(s) in DB)
29870: C>A (353 strain(s) in DB)
29872: A>T (168 strain(s) in DB)
29873: A>T (124 strain(s) in DB)
29876: A>T (51 strain(s) in DB)
29877: A>T (104 strain(s) in DB)
29878: A>T (46 strain(s) in DB)
29879: A>T (37 strain(s) in DB)
29881: A>G (31 strain(s) in DB)
29882: A>T (514 strain(s) in DB)
29884: A>G (34 strain(s) in DB)
29885: A>T (30 strain(s) in DB)
29886: A>G (31 strain(s) in DB)
29887: A>C (40 strain(s) in DB)

hCoV-19/Guangzhou/GZMU0025/2020 (CNA0013937)CNA00139372020-02-05 SNP:
8782: C>T (1672 strain(s) in DB)
28144: T>C (1654 strain(s) in DB)

Deletions:
29891: AAAAAAAAAAAAA>A (154 strain(s) in DB)

hCoV-19/Guangzhou/GZMU0033/2020 (CNA0013938)CNA00139392020-02-01 SNP:
21707: C>T (27 strain(s) in DB)

hCoV-19/Guangzhou/GZMU0003/2020 (CNA0013927) (1)
hCoV-19/Guangzhou/GZMU0052/2020 (CNA0013949) (1)
hCoV-19/Guangzhou/GZMU0059/2020 (CNA0013954) (0.5)
hCoV-19/Guangzhou/GZMU0051/2020 (CNA0013948) (0.5)
hCoV-19/Guangzhou/GZMU0013/2020 (CNA0013931) (0.5)
2019-nCoV/USA-CA5/2020 (MT027064) (0.33)
BetaCoV/Guangdong/20SF040/2020 (EPI_ISL_403937) (0.33)
hCoV-19/Shangrao/JX1215/2020 (EPI_ISL_421257) (0.33)
BetaCoV/Guangdong/20SF174/2020 (NMDC60013011-01) (0.33)
BetaCoV/Guangdong/20SF028/2020 (NMDC60013010-01) (0.33)
hCoV-19/Guangzhou/GZMU0034/2020 (CNA0013939) (0.25)
hCoV-19/Guangzhou/GZMU0034/2020 (CNA0013939)CNA00139392020-02-01 SNP:
2: T>A (55 strain(s) in DB)
4: A>C (66 strain(s) in DB)
5: A>T (24 strain(s) in DB)
21707: C>T (27 strain(s) in DB)

hCoV-19/Guangzhou/GZMU0035/2020 (CNA0013940)CNA00139402020-02-01 SNP:
1: A>T (4882 strain(s) in DB)
8: G>A (40 strain(s) in DB)
9: T>G (22 strain(s) in DB)
11: T>C (34 strain(s) in DB)
21707: C>T (27 strain(s) in DB)
29871: A>C (158 strain(s) in DB)
29872: A>G (168 strain(s) in DB)
29874: A>G (87 strain(s) in DB)
29875: A>G (78 strain(s) in DB)

hCoV-19/Guangzhou/GZMU0037/2020 (CNA0013941)MT4616422020-02-08 SNP:
241: C>T (7669 strain(s) in DB)
3037: C>T (7693 strain(s) in DB)
23403: A>G (7732 strain(s) in DB)
29866: A>G (422 strain(s) in DB)
29867: T>C (123 strain(s) in DB)
29868: G>T (177 strain(s) in DB)
29869: A>G (89 strain(s) in DB)
29870: C>T (353 strain(s) in DB)
29875: A>T (78 strain(s) in DB)

hCoV-19/France/IDF1980/2020 (EPI_ISL_414633) (0.47)
hCoV-19/USA/OR-UW-4388/2020 (MT345878) (0.43)
hCoV-19/USA/ID-UW-4461/2020 (MT345888) (0.43)
hCoV-19/USA/WA-UW-4413/2020 (MT412308) (0.4)
hCoV-19/Belgium/KKN-0319184/2020 (EPI_ISL_420366) (0.4)
hCoV-19/USA/WA-UW-1723/2020 (MT326125) (0.4)
hCoV-19/USA/ID-UW-6473/2020 (MT461638) (0.4)
hCoV-19/Brazil/SPBR-09/2020 (EPI_ISL_416031) (0.4)
hCoV-19/Georgia/Tb-477/2020 (EPI_ISL_415642) (0.39)
hCoV-19/India/GMC-KP1125/2020 (MT457402) (0.38)
hCoV-19/USA/WA-UW-6483/2020 (MT461642) (0.38)
hCoV-19/Guangzhou/GZMU0039/2020 (CNA0013942)CNA00139422020-02-08 SNP:
8782: C>T (1672 strain(s) in DB)
28144: T>C (1654 strain(s) in DB)

Deletions:
29891: AAAAAAAAAAAAA>A (154 strain(s) in DB)

hCoV-19/Guangzhou/GZMU0041/2020 (CNA0013943)CNA00137102020-02-08 SNP:
1: A>G (4882 strain(s) in DB)
2: T>G (55 strain(s) in DB)
3: T>C (52 strain(s) in DB)
4: A>G (66 strain(s) in DB)
5: A>C (24 strain(s) in DB)
6: A>C (19 strain(s) in DB)
8: G>A (40 strain(s) in DB)
10: T>C (31 strain(s) in DB)
8782: C>T (1672 strain(s) in DB)
28144: T>C (1654 strain(s) in DB)
29881: A>C (31 strain(s) in DB)
29882: A>T (514 strain(s) in DB)
29883: A>C (22 strain(s) in DB)
29890: A>G (27 strain(s) in DB)
29892: A>T (27 strain(s) in DB)
29893: A>T (26 strain(s) in DB)
29897: A>G (23 strain(s) in DB)
29899: A>C (69 strain(s) in DB)
29900: A>T (38 strain(s) in DB)
29901: A>T (60 strain(s) in DB)

Guangzhou/GZ8H0004/2020 (CNA0013700) (0.32)
Guangzhou/GZ8H0005/2020 (CNA0013701) (0.31)
hCoV-19/Hangzhou/ZJU-04/2020 (EPI_ISL_416046) (0.3)
SARS-CoV-2/IQTC03/human/2020/CHN (MT123293) (0.3)
hCoV-19/Malaysia/IMR_WC1098/2020 (EPI_ISL_430442) (0.29)
BetaCoV/USA/WA6-UW3/2020 (MT163718) (0.29)
hCoV-19/Hangzhou/ZJU-06/2020 (EPI_ISL_416047) (0.29)
hCoV-19/Guangzhou/GZMU0050/2020 (CNA0013947) (0.29)
hCoV-19/Hangzhou/ZJU-09/2020 (0.29)
hCoV-19/Hangzhou/ZJU-03/2020 (EPI_ISL_416044) (0.27)
hCoV-19/Guangzhou/GZMU0016/2020 (CNA0013710) (0.27)
hCoV-19/Guangzhou/GZMU0045/2020 (CNA0013944)CNA00139442020-02-08 SNP:
8782: C>T (1672 strain(s) in DB)
28144: T>C (1654 strain(s) in DB)

Deletions:
29891: AAAAAAAAAAAAA>A (154 strain(s) in DB)

hCoV-19/Guangzhou/GZMU0046/2020 (CNA0013945)EPI_ISL_4212492020-02-08 SNP:
8782: C>T (1672 strain(s) in DB)
28144: T>C (1654 strain(s) in DB)

Deletions:
29891: AAAAAAAAAAAAA>A (154 strain(s) in DB)

hCoV-19/Guangzhou/GZMU0045/2020 (CNA0013944) (1)
hCoV-19/Guangzhou/GZMU0039/2020 (CNA0013942) (1)
hCoV-19/Guangzhou/GZMU0025/2020 (CNA0013937) (1)
hCoV-19/Guangzhou/GZMU0008/2020 (CNA0013928) (1)
SARS-CoV-2/human/HKG/HKU-907b/2020 (0.75)
hCoV-19/Shangrao/JX1948/2020 (EPI_ISL_421240) (0.75)
BetaCoV/Shenzhen/SZTH-002/2020 (EPI_ISL_406593) (0.75)
hCoV-19/Shangrao/JX29/2020 (EPI_ISL_421244) (0.75)
hCoV-19/Nanchang/JXN3T4/2020 (EPI_ISL_421246) (0.75)
hCoV-19/Nanchang/JX149/2020 (EPI_ISL_421247) (0.75)
hCoV-19/Xinyu/JX122/2020 (EPI_ISL_421249) (0.75)
hCoV-19/Guangzhou/GZMU0049/2020 (CNA0013946)NMDC60013006-012020-02-08 SNP:
8782: C>T (1672 strain(s) in DB)
26447: C>G (12 strain(s) in DB)
28144: T>C (1654 strain(s) in DB)
28250: T>G (3 strain(s) in DB)
29095: C>T (58 strain(s) in DB)

hCoV-19/Guangzhou/GZMU0042/2020 (CNA0013713) (0.63)
hCoV-19/United Arab Emirates/L5630/2020 (EPI_ISL_435137) (0.5)
BetaCoV/Shenzhen/SZTH-002/2020 (EPI_ISL_406593) (0.5)
hCoV-19/Guangzhou/GZMU0050/2020 (CNA0013947) (0.45)
BetaCoV/Guangdong/20SF012/2020 (NMDC60013005-01) (0.43)
hCoV-19/Shanghai/SH0005/2020 (0.43)
2019-nCoV_HKU-SZ-002a_2020 (0.43)
BetaCoV/Guangdong/20SF025/2020 (NMDC60013008-01) (0.43)
hCoV-19/Shanghai/SH0074/2020 (0.43)
2019-nCoV/USA-AZ1/2020 (MN997409) (0.43)
BetaCoV/Guangdong/20SF013/2020 (NMDC60013006-01) (0.43)
hCoV-19/Guangzhou/GZMU0050/2020 (CNA0013947)NMDC60013006-012020-02-08 SNP:
1: A>G (4882 strain(s) in DB)
2: T>A (55 strain(s) in DB)
3: T>C (52 strain(s) in DB)
8: G>A (40 strain(s) in DB)
10: T>C (31 strain(s) in DB)
11: T>C (34 strain(s) in DB)
8782: C>T (1672 strain(s) in DB)
26447: C>G (12 strain(s) in DB)
28144: T>C (1654 strain(s) in DB)
28250: T>G (3 strain(s) in DB)
29095: C>T (58 strain(s) in DB)

hCoV-19/Guangzhou/GZMU0042/2020 (CNA0013713) (0.46)
hCoV-19/Guangzhou/GZMU0049/2020 (CNA0013946) (0.45)
hCoV-19/Hangzhou/ZJU-02/2020 (EPI_ISL_416042) (0.38)
hCoV-19/Guangzhou/GZMU0048/2020 (CNA0013716) (0.33)
hCoV-19/Shanghai/SH0074/2020 (0.33)
2019-nCoV_HKU-SZ-002a_2020 (0.33)
Guangzhou/GZ8H0004/2020 (CNA0013700) (0.33)
hCoV-19/Shanghai/SH0005/2020 (0.33)
BetaCoV/Guangdong/20SF025/2020 (NMDC60013008-01) (0.33)
BetaCoV/Guangdong/20SF012/2020 (NMDC60013005-01) (0.33)
BetaCoV/Guangdong/20SF013/2020 (NMDC60013006-01) (0.33)
hCoV-19/Guangzhou/GZMU0051/2020 (CNA0013948)EPI_ISL_4212572020-01-29 SNP:
8: G>C (40 strain(s) in DB)
21707: C>T (27 strain(s) in DB)

hCoV-19/Guangzhou/GZMU0052/2020 (CNA0013949) (0.5)
hCoV-19/Guangzhou/GZMU0003/2020 (CNA0013927) (0.5)
hCoV-19/Guangzhou/GZMU0033/2020 (CNA0013938) (0.5)
hCoV-19/Guangzhou/GZMU0059/2020 (CNA0013954) (0.33)
hCoV-19/Guangzhou/GZMU0013/2020 (CNA0013931) (0.33)
hCoV-19/Guangzhou/GZMU0054/2020 (CNA0013950) (0.29)
2019-nCoV/USA-CA5/2020 (MT027064) (0.25)
BetaCoV/Guangdong/20SF028/2020 (NMDC60013010-01) (0.25)
BetaCoV/Guangdong/20SF040/2020 (EPI_ISL_403937) (0.25)
BetaCoV/Guangdong/20SF174/2020 (NMDC60013011-01) (0.25)
hCoV-19/Shangrao/JX1215/2020 (EPI_ISL_421257) (0.25)
hCoV-19/Guangzhou/GZMU0052/2020 (CNA0013949)CNA00139392020-01-29 SNP:
21707: C>T (27 strain(s) in DB)

hCoV-19/Guangzhou/GZMU0003/2020 (CNA0013927) (1)
hCoV-19/Guangzhou/GZMU0033/2020 (CNA0013938) (1)
hCoV-19/Guangzhou/GZMU0051/2020 (CNA0013948) (0.5)
hCoV-19/Guangzhou/GZMU0059/2020 (CNA0013954) (0.5)
hCoV-19/Guangzhou/GZMU0013/2020 (CNA0013931) (0.5)
2019-nCoV/USA-CA5/2020 (MT027064) (0.33)
BetaCoV/Guangdong/20SF040/2020 (EPI_ISL_403937) (0.33)
hCoV-19/Shangrao/JX1215/2020 (EPI_ISL_421257) (0.33)
BetaCoV/Guangdong/20SF174/2020 (NMDC60013011-01) (0.33)
BetaCoV/Guangdong/20SF028/2020 (NMDC60013010-01) (0.33)
hCoV-19/Guangzhou/GZMU0034/2020 (CNA0013939) (0.25)
hCoV-19/Guangzhou/GZMU0054/2020 (CNA0013950)CNA00139502020-01-29 SNP:
4: A>G (66 strain(s) in DB)
6: A>C (19 strain(s) in DB)
8: G>C (40 strain(s) in DB)
9: T>A (22 strain(s) in DB)
11: T>A (34 strain(s) in DB)
21707: C>T (27 strain(s) in DB)
29871: A>C (158 strain(s) in DB)

Guangzhou/GZMU0056/2020CNA00139512020-01-29
Guangzhou/GZMU0057/2020CNA00139522020-01-27
Guangzhou/GZMU0058/2020CNA00139532020-01-27
hCoV-19/Guangzhou/GZMU0059/2020 (CNA0013954)CNA00139542020-01-27 SNP:
21707: C>T (27 strain(s) in DB)

Deletions:
29891: AAAAAAAAAAAAA>A (154 strain(s) in DB)

Guangzhou/GZMU0060/2020CNA00139552020-02-09
hCoV-19/Guangzhou/GZMU0036/2020 (CNA0013956)EPI_ISL_4352822020-02-01 SNP:
1: A>C (4882 strain(s) in DB)
2: T>C (55 strain(s) in DB)
4: A>G (66 strain(s) in DB)
21707: C>T (27 strain(s) in DB)
29866: A>G (422 strain(s) in DB)
29868: G>A (177 strain(s) in DB)
29870: C>A (353 strain(s) in DB)
29872: A>T (168 strain(s) in DB)
29873: A>T (124 strain(s) in DB)
29876: A>T (51 strain(s) in DB)
29877: A>T (104 strain(s) in DB)
29878: A>T (46 strain(s) in DB)
29879: A>T (37 strain(s) in DB)
29881: A>G (31 strain(s) in DB)
29882: A>T (514 strain(s) in DB)
29884: A>G (34 strain(s) in DB)
29885: A>T (30 strain(s) in DB)
29886: A>G (31 strain(s) in DB)
29887: A>C (40 strain(s) in DB)

hCoV-19/Guangzhou/GZMU0055/2020 (CNA0013957) (0.84)
hCoV-19/Guangzhou/GZMU0023/2020 (CNA0013935) (0.71)
hCoV-19/Guangzhou/GZMU0024/2020 (CNA0013936) (0.71)
hCoV-19/Malaysia/IMR_WC085/2020 (EPI_ISL_430443) (0.36)
hCoV-19/Guangzhou/GZMU0016/2020 (CNA0013710) (0.35)
Guangzhou/GZ8H0001/2020 (CNA0013697) (0.33)
hCoV-19/Malaysia/IMR_WC1098/2020 (EPI_ISL_430442) (0.3)
hCoV-19/Slovenia/MB0329/2020 (EPI_ISL_426379) (0.3)
hCoV-19/Georgia/Tb-477/2020 (EPI_ISL_415642) (0.3)
hCoV-19/Malaysia/IMR_WC1177/2020 (EPI_ISL_430439) (0.27)
hCoV-19/Indonesia/JKT-EIJK0317/2020 (EPI_ISL_435282) (0.25)
hCoV-19/Guangzhou/GZMU0055/2020 (CNA0013957)CNA00139572020-01-29 SNP:
21707: C>T (27 strain(s) in DB)
29866: A>G (422 strain(s) in DB)
29868: G>A (177 strain(s) in DB)
29870: C>A (353 strain(s) in DB)
29872: A>T (168 strain(s) in DB)
29873: A>T (124 strain(s) in DB)
29876: A>T (51 strain(s) in DB)
29877: A>T (104 strain(s) in DB)
29878: A>T (46 strain(s) in DB)
29879: A>T (37 strain(s) in DB)
29881: A>G (31 strain(s) in DB)
29882: A>T (514 strain(s) in DB)
29884: A>G (34 strain(s) in DB)
29885: A>C (30 strain(s) in DB)
29886: A>G (31 strain(s) in DB)
29887: A>C (40 strain(s) in DB)

BetaCoV/Kanagawa/1/2020EPI_ISL_4021262020-01-14
BetaCoV/Guangdong/20SF040/2020 (EPI_ISL_403937)NMDC60013008-012020-01-18 SNP:
21707: C>T (27 strain(s) in DB)

Deletions:
1: AATTAAAGGTTT>- (4882 strain(s) in DB)
29856: TCTTAGGAGAATGACAAAAA...>T (26 strain(s) in DB)

BetaCoV/Guangdong/20SF028/2020 (NMDC60013010-01) (1)
hCoV-19/Thailand/NIH-15/2020 (EPI_ISL_434692) (0.5)
BetaCoV/Guangdong/20SF014/2020 (NMDC60013007-01) (0.5)
BetaCoV/Guangdong/20SF174/2020 (NMDC60013011-01) (0.5)
hCoV-19/Shangrao/JX1215/2020 (EPI_ISL_421257) (0.5)
hCoV-19/Guangzhou/GZMU0010/2020 (CNA0013930) (0.4)
hCoV-19/Korea/KCDC2004/2020 (EPI_ISL_426164) (0.33)
hCoV-19/Guangzhou/GZMU0052/2020 (CNA0013949) (0.33)
BetaCoV/Guangdong/20SF012/2020 (NMDC60013005-01) (0.33)
BetaCoV/Guangdong/20SF013/2020 (NMDC60013006-01) (0.33)
BetaCoV/Guangdong/20SF025/2020 (NMDC60013008-01) (0.33)
hCoV-19/Thailand/61/2020MT0398742020-01-08 Deletions:
1: AATTAAAGGTTT>- (4882 strain(s) in DB)
29859: TAGGAGAATGACAAAAAAAA...>T (71 strain(s) in DB)

BetaCoV/Wuhan/HBCDC-HB-03/2019 (NMDC60013091-01) (1)
BetaCoV/Wuhan/HBCDC-HB-01/2019 (NMDC60013088-01) (0.67)
BetaCoV/Wuhan/HBCDC-HB-02/2019 (NMDC60013090-01) (0.67)
WH01 (0.5)
hCoV-19/Korea/KCDC2004/2020 (EPI_ISL_426164) (0.5)
BetaCoV/Wuhan/HBCDC-HB-03/2020 (NMDC60013094-01) (0.5)
hCoV-19/Korea/KCDC2007/2020 (EPI_ISL_426169) (0.5)
SARS-CoV-2/Wuhan_IME-BJ05/human/2020/CHN (GWHACBB01000001) (0.5)
hCoV-19/Spain/Madrid_H2_16/2020 (EPI_ISL_417952) (0.4)
2019-nCoV WHU02 (MN988669) (0.33)
SARS-CoV-2/human/CHN/IME-HZ01/2020 (MT039874) (0.33)
hCoV-19/Thailand/74/2020EPI_ISL_4039632020-01-13 Deletions:
1: AATTAAAGGTTT>- (4882 strain(s) in DB)
29870: CAAAAAAAAAAAAAAAAAAA...>C (353 strain(s) in DB)

hCoV-19/Taiwan/2/2020EPI_ISL_4107142020-01-23 SNP:
16188: G>T (2 strain(s) in DB)
25964: A>G (1 strain(s) in DB)
26144: G>T (818 strain(s) in DB)
29877: A>T (104 strain(s) in DB)

Deletions:
1: AATT>- (4882 strain(s) in DB)
29881: AAAAAAAAAAAAAAAAAAAA...>A (31 strain(s) in DB)

BetaCoV/Japan/NA-20-05-1/2020 (EPI_ISL_410531) (0.33)
hCoV-19/Australia/VIC03/2020 (MT450920) (0.33)
BetaCoV/Japan/OS-20-07-1/2020 (EPI_ISL_410532) (0.33)
hCoV-19/Guangdong/20SF753/2020 (NMDC60013135-01) (0.29)
BetaCoV/Sydney/3/2020 (EPI_ISL_408977) (0.29)
hCoV-19/Korea/KCDC2001/2020 (EPI_ISL_425117) (0.29)
hCoV-19/Malaysia/IMR_WC1170/2020 (EPI_ISL_430440) (0.25)
BetaCoV/France/IDF0372/2020 (EPI_ISL_406596) (0.25)
hCoV-19/Hangzhou/HZCDC0025/2020 (EPI_ISL_421234) (0.25)
BetaCoV/Italy/INMI1-cs/2020 (EPI_ISL_410546) (0.25)
BetaCoV/Singapore/8/2020 (EPI_ISL_410714) (0.25)
BetaCoV/Shenzhen/SZTH-001/2020 (EPI_ISL_406592)EPI_ISL_4212492020-01-13 SNP:
1648: C>T (9 strain(s) in DB)
2169: T>C (1 strain(s) in DB)
3801: A>C (1 strain(s) in DB)
4644: A>G (1 strain(s) in DB)
4656: G>C (1 strain(s) in DB)
4728: G>T (2 strain(s) in DB)
4729: T>A (1 strain(s) in DB)
4739: T>C (1 strain(s) in DB)
5464: T>C (1 strain(s) in DB)
6308: A>G (1 strain(s) in DB)
6786: C>G (1 strain(s) in DB)
6834: T>G (1 strain(s) in DB)
6838: A>G (1 strain(s) in DB)
8091: T>A (1 strain(s) in DB)
8455: T>C (1 strain(s) in DB)
12597: T>A (1 strain(s) in DB)
15636: T>A (1 strain(s) in DB)
19269: C>T (2 strain(s) in DB)
20315: T>A (1 strain(s) in DB)
24947: G>C (1 strain(s) in DB)
25347: A>G (1 strain(s) in DB)
26108: A>T (1 strain(s) in DB)
26141: A>T (1 strain(s) in DB)
26755: G>C (1 strain(s) in DB)
26759: A>T (1 strain(s) in DB)
28144: T>C (1654 strain(s) in DB)
29095: C>T (58 strain(s) in DB)

Deletions:
29891: AAAAAAAAAAAAA>A (154 strain(s) in DB)

BetaCoV/Shenzhen/SZTH-002/2020 (EPI_ISL_406593) (0.1)
2019-nCoV_HKU-SZ-005b_2020 (0.1)
hCoV-19/Nanchang/JX174/2020 (EPI_ISL_421238) (0.1)
hCoV-19/Guangzhou/GZMU0008/2020 (CNA0013928) (0.07)
hCoV-19/Guangzhou/GZMU0039/2020 (CNA0013942) (0.07)
hCoV-19/Guangzhou/GZMU0045/2020 (CNA0013944) (0.07)
hCoV-19/Guangzhou/GZMU0046/2020 (CNA0013945) (0.07)
hCoV-19/Guangzhou/GZMU0025/2020 (CNA0013937) (0.07)
hCoV-19/Nanchang/JXN3T4/2020 (EPI_ISL_421246) (0.07)
hCoV-19/Shangrao/JX29/2020 (EPI_ISL_421244) (0.07)
hCoV-19/Xinyu/JX122/2020 (EPI_ISL_421249) (0.07)
BetaCoV/Shenzhen/SZTH-002/2020 (EPI_ISL_406593)EPI_ISL_4212372020-01-13 SNP:
8782: C>T (1672 strain(s) in DB)
28144: T>C (1654 strain(s) in DB)
29095: C>T (58 strain(s) in DB)

Deletions:
29891: AAAAAAAAAAAAA>A (154 strain(s) in DB)

hCoV-19/Guangzhou/GZMU0046/2020 (CNA0013945) (0.75)
hCoV-19/Guangzhou/GZMU0008/2020 (CNA0013928) (0.75)
hCoV-19/Guangzhou/GZMU0025/2020 (CNA0013937) (0.75)
hCoV-19/Guangzhou/GZMU0039/2020 (CNA0013942) (0.75)
hCoV-19/Guangzhou/GZMU0045/2020 (CNA0013944) (0.75)
hCoV-19/Nanchang/JX174/2020 (EPI_ISL_421238) (0.67)
2019-nCoV_HKU-SZ-005b_2020 (0.67)
hCoV-19/Taiwan/3/2020 (0.6)
hCoV-19/Nanchang/JX149/2020 (EPI_ISL_421247) (0.6)
Yunnan/IVDC-YN-003/2020 (NMDC60013075-01) (0.6)
hCoV-19/Jiujiang/JX22/2020 (EPI_ISL_421237) (0.6)
BetaCoV/Shenzhen/SZTH-003/2020 (EPI_ISL_406594)EPI_ISL_4065942020-01-16 SNP:
27577: C>T (4 strain(s) in DB)
28854: C>T (241 strain(s) in DB)

Deletions:
29891: AAAAAAAAAAAAA>A (154 strain(s) in DB)

Indels:
1: A>CCAGAAGAA (4882 strain(s) in DB)

BetaCoV/Shenzhen/SZTH-004/2020 (EPI_ISL_406595)EPI_ISL_4212372020-01-16 SNP:
709: G>A (1 strain(s) in DB)
6846: T>C (1 strain(s) in DB)
11707: A>G (8 strain(s) in DB)
19959: A>C (1 strain(s) in DB)
22622: A>G (3 strain(s) in DB)
22652: G>T (1 strain(s) in DB)
23569: T>C (12 strain(s) in DB)
25645: T>C (12 strain(s) in DB)
28716: C>T (1 strain(s) in DB)

Deletions:
29891: AAAAAAAAAAAAA>A (154 strain(s) in DB)

Indels:
1: A>CCAGAAGAA (4882 strain(s) in DB)

BetaCoV/Taiwan/4/2020 (EPI_ISL_411927) (0.18)
hCoV-19/Pingxiang/JX151/2020 (EPI_ISL_421259) (0.17)
SARS-CoV-2/human/HKG/HKU-902a/2020 (0.17)
hCoV-19/Shangrao/JX1215/2020 (EPI_ISL_421257) (0.17)
hCoV-19/Shangrao/JX1178/2020 (EPI_ISL_421254) (0.17)
hCoV-19/Pingxiang/JX5/2020 (EPI_ISL_421252) (0.17)
BetaCoV/Guangdong/20SF014/2020 (NMDC60013007-01) (0.17)
hCoV-19/Taiwan/8/2020 (EPI_ISL_428488) (0.15)
hCoV-19/Ganzhou/JX81/2020 (EPI_ISL_421242) (0.15)
BetaCoV/Shenzhen/SZTH-003/2020 (EPI_ISL_406594) (0.15)
hCoV-19/Jiujiang/JX22/2020 (EPI_ISL_421237) (0.15)
BetaCoV/France/IDF0372/2020 (EPI_ISL_406596)EPI_ISL_4065962020-01-23 SNP:
22661: G>T (13 strain(s) in DB)
26144: G>T (818 strain(s) in DB)

Deletions:
1: AATTAAAGGTTT>- (4882 strain(s) in DB)
29864: GAATGACAAAAAAAAAAAAA...>G (204 strain(s) in DB)

BetaCoV/France/IDF0373/2020 (EPI_ISL_406597)EPI_ISL_4163252020-01-23 SNP:
22661: G>T (13 strain(s) in DB)
26144: G>T (818 strain(s) in DB)

Deletions:
1: AATTAAAGGTTTATACCTTC>- (4882 strain(s) in DB)
29828: GTGCTATCCCCATGTGATTT...>G (1 strain(s) in DB)

BetaCoV/France/IDF0372/2020 (EPI_ISL_406596) (0.6)
hCoV-19/Australia/VIC03/2020 (MT450920) (0.5)
BetaCoV/France/IDF0372-isl/2020 (EPI_ISL_410720) (0.4)
BetaCoV/France/IDF0386/2020/P1 (EPI_ISL_411219) (0.4)
BetaCoV/France/IDF0386/2020/P3 (EPI_ISL_411220) (0.4)
BetaCoV/Sydney/3/2020 (EPI_ISL_408977) (0.4)
hCoV-19/Korea/KCDC2001/2020 (EPI_ISL_425117) (0.4)
BetaCoV/Italy/INMI1-cs/2020 (EPI_ISL_410546) (0.33)
hCoV-19/Beijing/BJ710/2020 (EPI_ISL_430740) (0.33)
SARS-CoV-2/human/ITA/INMI1/2020 (MT077125) (0.33)
hCoV-19/Shanghai/SH0012/2020 (0.33)
BetaCoV/Germany/BavPat1/2020 (EPI_ISL_406862)MT4291872020-01-28 SNP:
241: C>T (7669 strain(s) in DB)
3037: C>T (7693 strain(s) in DB)
23403: A>G (7732 strain(s) in DB)

Deletions:
1: AATTAAAGGTTTATACCTTC...>- (4882 strain(s) in DB)
29836: CCCATGTGATTTTAATAGCT...>C (754 strain(s) in DB)

hCoV-19/Wales/PHW1/2020 (EPI_ISL_413555) (0.83)
hCoV-19/Scotland/CVR247/2020 (EPI_ISL_438913) (0.83)
hCoV-19/USA/MN43-MDH43/2020 (EPI_ISL_417479) (0.83)
hCoV-19/USA/MN58-MDH58/2020 (EPI_ISL_417502) (0.83)
hCoV-19/USA/MN47-MDH47/2020 (EPI_ISL_417494) (0.83)
hCoV-19/USA/WI-134/2020 (EPI_ISL_427441) (0.83)
hCoV-19/USA/MN34-MDH34/2020 (EPI_ISL_417471) (0.83)
hCoV-19/Scotland/CVR62/2020 (EPI_ISL_425790) (0.83)
hCoV-19/USA/WI-151/2020 (EPI_ISL_427458) (0.83)
hCoV-19/Scotland/CVR54/2020 (EPI_ISL_425783) (0.83)
hCoV-19/USA/WI-UW-265/2020 (MT429187) (0.83)
BetaCoV/Singapore/1/2020 (EPI_ISL_406973)EPI_ISL_4201112020-01-23 SNP:
25060: A>G (7 strain(s) in DB)

Deletions:
29845: TTTTAATAGCTTCTTAGGAG...>T (27 strain(s) in DB)

hCoV-19/Singapore/28/2020 (EPI_ISL_420105) (0.33)
hCoV-19/Singapore/31/2020 (EPI_ISL_420108) (0.33)
hCoV-19/Singapore/32/2020 (EPI_ISL_420109) (0.33)
hCoV-19/Singapore/33/2020/P1 (EPI_ISL_420110) (0.25)
hCoV-19/Singapore/22/2020 (EPI_ISL_420099) (0.25)
BetaCoV/Singapore/3/2020 (EPI_ISL_407988) (0.25)
BetaCoV/Singapore/2/2020 (EPI_ISL_407987) (0.25)
hCoV-19/Singapore/14/2020 (EPI_ISL_414380) (0.25)
BetaCoV/Singapore/6/2020 (EPI_ISL_410537) (0.25)
hCoV-19/Singapore/24/2020 (EPI_ISL_420101) (0.25)
hCoV-19/Singapore/33/2020 (EPI_ISL_420111) (0.25)
BetaCoV/England/01/2020 (EPI_ISL_407071)CNA00139282020-01-29 SNP:
8782: C>T (1672 strain(s) in DB)
18488: T>C (5 strain(s) in DB)
22586: T>Y (1 strain(s) in DB)
23605: T>G (3 strain(s) in DB)
28144: T>C (1654 strain(s) in DB)

Deletions:
29843: GATTTTAATAGCTTCTTAGG...>G (59 strain(s) in DB)

BetaCoV/England/02/2020 (EPI_ISL_407073) (0.71)
hCoV-19/Guangdong/2020XN4459-P0041/2020 (0.33)
hCoV-19/Guangdong/2020XN4475-P0042/2020 (0.29)
SARS-CoV-2/NTU01/2020/TWN (MT066175) (0.29)
hCoV-19/Guangzhou/GZMU0025/2020 (CNA0013937) (0.29)
hCoV-19/Guangzhou/GZMU0039/2020 (CNA0013942) (0.29)
hCoV-19/Guangzhou/GZMU0045/2020 (CNA0013944) (0.29)
hCoV-19/Guangzhou/GZMU0046/2020 (CNA0013945) (0.29)
hCoV-19/Guangdong/20SF684/2020 (NMDC60013133-01) (0.29)
hCoV-19/Guangdong/20SF685/2020 (NMDC60013134-01) (0.29)
hCoV-19/Guangzhou/GZMU0008/2020 (CNA0013928) (0.29)
BetaCoV/England/02/2020 (EPI_ISL_407073)EPI_ISL_4070732020-01-29 SNP:
8782: C>T (1672 strain(s) in DB)
18488: T>C (5 strain(s) in DB)
23605: T>G (3 strain(s) in DB)
28144: T>C (1654 strain(s) in DB)
29596: A>G (2 strain(s) in DB)

Deletions:
29843: GATTTTAATAGCTTCTTAGG...>G (59 strain(s) in DB)

hCoV-19/Finland/1/2020EPI_ISL_4070792020-01-29
hCoV-19/South Korea/KCDC03/2020MT1350422020-01-25 SNP:
4402: T>C (22 strain(s) in DB)
5062: G>T (22 strain(s) in DB)
8782: C>T (1672 strain(s) in DB)
28144: T>C (1654 strain(s) in DB)

Deletions:
1: AATTAAAGGTTTATACCTTC...>- (4882 strain(s) in DB)
29846: TTTAATAGCTTCTTAGGAGA...>T (9 strain(s) in DB)

hCoV-19/Korea/KCDC2018/2020 (EPI_ISL_427812) (0.83)
hCoV-19/South Korea/KUMC03/2020 (EPI_ISL_413513) (0.71)
hCoV-19/South Korea/KUMC04/2020 (EPI_ISL_413514) (0.71)
hCoV-19/South Korea/KUMC05/2020 (EPI_ISL_413515) (0.71)
hCoV-19/South Korea/KUMC06/2020 (EPI_ISL_413516) (0.71)
SARS-CoV-2/Wuhan_IME-BJ03/human/2020/CHN (GWHACAZ01000001) (0.71)
SARS-CoV-2/Wuhan_IME-BJ02/human/2020/CHN (GWHACAY01000001) (0.71)
BetaCoV/Korea/KCDC06/2020 (EPI_ISL_412870) (0.71)
SARS-CoV-2/105/human/2020/CHN (MT135041) (0.67)
SARS-CoV-2/235/human/2020/CHN (MT135044) (0.67)
SARS-CoV-2/231/human/2020/CHN (MT135042) (0.67)
BetaCoV/Hangzhou/HZCDC0001/2020 (EPI_ISL_407313)EPI_ISL_4073132020-01-19 Deletions:
1: AATTAAAGGTTTATACCTTC...>- (4882 strain(s) in DB)
29866: ATGACAAAAAAAAAAAAAAA...>A (422 strain(s) in DB)

BetaCoV/Australia/NSW01/2020 (EPI_ISL_407893)EPI_ISL_4078932020-01-24 SNP:
8782: C>T (1672 strain(s) in DB)
28144: T>C (1654 strain(s) in DB)

Deletions:
1: AATTAAAGGTTTATACCTTC...>- (4882 strain(s) in DB)
29836: CCCATGTGATTTTAATAGCT...>C (754 strain(s) in DB)

BetaCoV/Australia/QLD01/2020 (EPI_ISL_407894)MT2527312020-01-28 SNP:
6604: A>R (2 strain(s) in DB)
8782: C>T (1672 strain(s) in DB)
13681: C>M (1 strain(s) in DB)
13682: A>M (1 strain(s) in DB)
13684: C>M (2 strain(s) in DB)
13686: T>K (1 strain(s) in DB)
13687: G>K (2 strain(s) in DB)
13693: A>W (6 strain(s) in DB)
28144: T>C (1654 strain(s) in DB)
28878: G>A (75 strain(s) in DB)
29742: G>A (236 strain(s) in DB)

Deletions:
1: AATTAAAGGTTTATACCTTC...>- (4882 strain(s) in DB)
29870: CAAAAAAAAAAAAAAAAAAA...>C (353 strain(s) in DB)

BetaCoV/Australia/QLD04/2020 (EPI_ISL_410718) (0.46)
BetaCoV/Australia/QLD03/2020 (EPI_ISL_410717) (0.43)
BetaCoV/Australia/QLD02/2020 (EPI_ISL_407896) (0.38)
hCoV-19/Australia/VIC07/2020 (MT450924) (0.36)
hCoV-19/Shanghai/SH0002/2020 (0.36)
hCoV-19/Netherlands/Utrecht/17/2020 (EPI_ISL_415526) (0.33)
hCov-19/Netherlands/Gelderland/1/2020 (EPI_ISL_415461) (0.33)
hCoV-19/Shanghai/SH0003/2020 (0.33)
hCoV-19/Netherlands/Utrecht_16/2020 (EPI_ISL_414555) (0.31)
hCoV-19/Saudi Arabia/KAUST-MAKKAH04/2020 (EPI_ISL_437460) (0.31)
hCoV-19/USA/WA-UW158/2020 (MT252731) (0.31)
BetaCoV/Australia/QLD02/2020 (EPI_ISL_407896)EPI_ISL_4374592020-01-30 SNP:
8782: C>T (1672 strain(s) in DB)
21949: A>M (1 strain(s) in DB)
24990: C>T (2 strain(s) in DB)
25587: C>T (10 strain(s) in DB)
28144: T>C (1654 strain(s) in DB)
28878: G>A (75 strain(s) in DB)
29742: G>A (236 strain(s) in DB)

Deletions:
1: AATTAAA>- (4882 strain(s) in DB)
29870: CAAAAAAAAAAAAAAAAAAA...>C (353 strain(s) in DB)

BetaCoV/Australia/QLD04/2020 (EPI_ISL_410718) (0.67)
BetaCoV/Australia/QLD03/2020 (EPI_ISL_410717) (0.6)
hCoV-19/Australia/VIC07/2020 (MT450924) (0.5)
hCoV-19/Shanghai/SH0002/2020 (0.5)
hCov-19/Netherlands/Gelderland/1/2020 (EPI_ISL_415461) (0.45)
hCoV-19/Shanghai/SH0003/2020 (0.45)
hCoV-19/Netherlands/Utrecht/17/2020 (EPI_ISL_415526) (0.45)
hCoV-19/Guangdong/2020XN4243-P0035/2020 (0.44)
hCoV-19/USA/VA-DCLS-0021/2020 (MT322411) (0.42)
hCoV-19/Netherlands/Utrecht_16/2020 (EPI_ISL_414555) (0.42)
hCoV-19/Saudi Arabia/KAUST-MAKKAH03/2020 (EPI_ISL_437459) (0.42)
BetaCoV/Belgium/GHB-03021/2020 (EPI_ISL_407976)EPI_ISL_4248712020-02-03 SNP:
8782: C>T (1672 strain(s) in DB)
28144: T>C (1654 strain(s) in DB)
29863: A>T (15 strain(s) in DB)

Deletions:
29882: AAAAAAAAAAAAAAAAAAAA...>A (514 strain(s) in DB)

2019-nCoV/USA-WA1-F6/2020 (0.6)
2019-nCoV/USA-WA1-A12/2020 (0.6)
SARS-CoV-2/human/USA/USA-WA1/2020 (0.6)
hCoV-19/Guangdong/2020XN4459-P0041/2020 (0.5)
BetaCoV/USA/CA7/2020 (MT106052) (0.5)
2019-nCoV/USA-AZ1/2020 (MN997409) (0.5)
SARS-CoV-2/human/USA/USA-WA_0711/2020 (0.43)
SARS-CoV-2/human/USA/WA-NH20/2020 (0.43)
SARS-CoV-2/human/USA/WA-NH21/2020 (0.43)
SARS-CoV-2/human/USA/WA-NH22/2020 (0.43)
hCoV-19/USA/NC_6999/2020 (EPI_ISL_424871) (0.43)
BetaCoV/Singapore/2/2020 (EPI_ISL_407987)EPI_ISL_4201002020-01-25 SNP:
27147: G>C (9 strain(s) in DB)

Deletions:
1: AA>- (4882 strain(s) in DB)
29845: TTTTAATAGCTTCTTAGGAG...>T (27 strain(s) in DB)

BetaCoV/Singapore/6/2020 (EPI_ISL_410537) (1)
hCoV-19/Singapore/28/2020 (EPI_ISL_420105) (0.67)
hCoV-19/Singapore/32/2020 (EPI_ISL_420109) (0.67)
hCoV-19/Singapore/31/2020 (EPI_ISL_420108) (0.67)
BetaCoV/Singapore/3/2020 (EPI_ISL_407988) (0.5)
hCoV-19/Singapore/33/2020 (EPI_ISL_420111) (0.5)
hCoV-19/Singapore/33/2020/P1 (EPI_ISL_420110) (0.5)
hCoV-19/Malaysia/MKAK-CL-2020-5047/2020 (EPI_ISL_416866) (0.5)
hCoV-19/Singapore/24/2020 (EPI_ISL_420101) (0.5)
BetaCoV/Singapore/5/2020 (EPI_ISL_410536) (0.4)
hCoV-19/Singapore/23/2020 (EPI_ISL_420100) (0.4)
BetaCoV/Singapore/3/2020 (EPI_ISL_407988)EPI_ISL_4079882020-02-01 SNP:
11083: G>T (1220 strain(s) in DB)

Deletions:
1: AAT>- (4882 strain(s) in DB)
29845: TTTTAATAGCTTCTTAGGAG...>T (27 strain(s) in DB)

hCoV-19/Italy/INMI1-2/2020EPI_ISL_4080682020-01-29
France/IDF0515/2020 (EPI_ISL_408430)LC5709702020-01-29 SNP:
1190: C>T (3 strain(s) in DB)
9438: C>T (15 strain(s) in DB)
11083: G>T (1220 strain(s) in DB)

Deletions:
1: AA>- (4882 strain(s) in DB)
29864: GAATGACAAAAAAAAAAAAA...>G (204 strain(s) in DB)

hCoV-19/Japan/DP0482/2020 (LC571005) (0.6)
hCoV-19/Japan/DP0328/2020 (LC570993) (0.6)
hCoV-19/Japan/DP0184/2020 (LC570978) (0.6)
hCoV-19/Japan/DP0133/2020 (LC570974) (0.6)
hCoV-19/Japan/DP0802/2020 (LC571036) (0.6)
hCoV-19/Japan/DP0890/2020 (LC571041) (0.6)
hCoV-19/Japan/DP0121/2020 (LC570973) (0.6)
hCoV-19/Japan/DP0104/2020 (LC570971) (0.6)
hCoV-19/Japan/DP0274/2020 (LC570984) (0.6)
BetaCoV/France/IDF0515-isl/2020 (EPI_ISL_410984) (0.6)
hCoV-19/Japan/DP0078/2020 (LC570970) (0.6)
France/IDF0626/2020 (EPI_ISL_408431)EPI_ISL_4261642020-01-29 SNP:
25153: C>T (1 strain(s) in DB)

Deletions:
1: AATTAAAGGTTT>- (4882 strain(s) in DB)
29862: GAGAATGACAAAAAAAAAAA...>G (145 strain(s) in DB)

BetaCoV/Guangdong/20SF201/2020 (NMDC60013016-01) (0.67)
SARS-CoV-2/Wuhan_IME-WH04/human/2019/CHN (GWHACAV01000001) (0.67)
hCoV-19/Japan/DP0059/2020 (LC570967) (0.5)
BetaCoV/Foshan/20SF210/2020 (NMDC60013014-01) (0.5)
hCoV-19/Canada/ON-VIDO-01/2020 (EPI_ISL_425177) (0.4)
BetaCoV/Guangzhou/20SF206/2020 (NMDC60013012-01) (0.4)
BetaCoV/Foshan/20SF207/2020 (NMDC60013013-01) (0.4)
hCoV-19/Japan/DP0191/2020 (LC570980) (0.33)
hCoV-19/USA/WA-UW-6528/2020 (MT461655) (0.33)
hCoV-19/Korea/KCDC2007/2020 (EPI_ISL_426169) (0.33)
hCoV-19/Korea/KCDC2004/2020 (EPI_ISL_426164) (0.33)
Chongqing/YC01/2020 (EPI_ISL_408478)MT1144172020-01-21 SNP:
1342: C>T (2 strain(s) in DB)
8782: C>T (1672 strain(s) in DB)
18060: C>T (1069 strain(s) in DB)
28144: T>C (1654 strain(s) in DB)
29200: C>T (23 strain(s) in DB)

Deletions:
29891: AAAAAAAAAAAAA>A (154 strain(s) in DB)

hCoV-19/Guangzhou/GZMU0045/2020 (CNA0013944) (0.5)
hCoV-19/Guangzhou/GZMU0046/2020 (CNA0013945) (0.5)
hCoV-19/Guangzhou/GZMU0039/2020 (CNA0013942) (0.5)
hCoV-19/Guangzhou/GZMU0025/2020 (CNA0013937) (0.5)
hCoV-19/Guangzhou/GZMU0008/2020 (CNA0013928) (0.5)
hCoV-19/USA/WA-S641/2020 (EPI_ISL_438194) (0.44)
hCoV-19/Canada/BC_8894200/2020 (EPI_ISL_418853) (0.43)
hCoV-19/Canada/BC_4118226/2020 (EPI_ISL_418825) (0.43)
hCoV-19/Canada/BC_7277381/2020 (EPI_ISL_418843) (0.43)
hCoV-19/Canada/BC_8159203/2020 (EPI_ISL_418848) (0.43)
SARS-CoV-2/human/HKG/HKU-907b/2020 (0.43)
Chongqing/ZX01/2020 (EPI_ISL_408479)MT1144132020-01-23 Deletions:
29891: AAAAAAAAAAAAA>A (154 strain(s) in DB)

BetaCoV/Wuhan/WH19001/2019 (1)
BetaCoV/Jiangsu/JS03/2020 (EPI_ISL_411953) (1)
BetaCoV/Wuhan/IVDC-HB-01/2019 (1)
WIV04 (1)
SARS-CoV-2/nCoV-19-01S/human/2020/VNM (MT192772) (0.5)
Jiangxi/IVDC-JX-002/2020 (NMDC60013081-01) (0.5)
BetaCoV/Taiwan/4/2020 (EPI_ISL_411927) (0.5)
hCoV-19/Guangzhou/GZMU0059/2020 (CNA0013954) (0.5)
Chongqing/IVDC-CQ-001/2020 (NMDC60013076-01) (0.5)
BetaCoV/Wuhan/YS8011/2020 (0.5)
SARS-CoV-2/human/HKG/HKU-902b/2020 (0.5)
BetaCoV/Vietnam/VR03-38142/2020 (EPI_ISL_408668)MN9887132020-01-24 SNP:
28: C>T (25 strain(s) in DB)
8782: C>T (1672 strain(s) in DB)
24034: C>T (180 strain(s) in DB)
26729: T>C (163 strain(s) in DB)
28077: G>C (188 strain(s) in DB)
28144: T>C (1654 strain(s) in DB)
29859: T>C (71 strain(s) in DB)
29875: A>G (78 strain(s) in DB)
29877: A>C (104 strain(s) in DB)

Deletions:
25: TA>T (18 strain(s) in DB)
29861: GGAGAATGA>G (62 strain(s) in DB)
29898: AAAAAA>A (33 strain(s) in DB)

hCoV-19/Shanghai/SH0029/2020 (0.36)
hCoV-19/Shanghai/SH0079/2020 (0.36)
hCoV-19/Shanghai/SH0032/2020 (0.36)
hCoV-19/Guangdong/20SF115/2020 (NMDC60013106-01) (0.36)
Sichuan/IVDC-SC-001/2020 (NMDC60013079-01) (0.36)
hCoV-19/Shanghai/SH0128/2020 (0.33)
SARS-CoV-2/human/HKG/HKU-001a/2020 (MT230904) (0.33)
2019-nCoV/USA-CA1/2020 (MN994467) (0.33)
hCoV-19/Vietnam/CM99/2020 (EPI_ISL_416429) (0.33)
BetaCoV/USA/IL2/2020 (MT044257) (0.33)
2019-nCoV/USA-IL1/2020 (MN988713) (0.31)
BetaCoV/Sydney/2/2020 (EPI_ISL_408976)EPI_ISL_4283402020-01-22 SNP:
8327: C>T (1 strain(s) in DB)
29449: G>T (12 strain(s) in DB)

Deletions:
1: AATTAAAGGTTTATACCTTC...>- (4882 strain(s) in DB)
29734: GAGGCCACGCGGAGTACGAT...>G (108 strain(s) in DB)
29836: CCCATGTGATTTTAATAGCT...>C (754 strain(s) in DB)

BetaCoV/Hangzhou/HZ-1/2020 (GWHABKS00000001) (0.4)
hCoV-19/Ireland/COR-20134/2020 (EPI_ISL_414487) (0.4)
hCoV-19/USA/WI-181/2020 (EPI_ISL_428277) (0.33)
hCoV-19/USA/WI-240/2020 (EPI_ISL_428336) (0.33)
hCoV-19/USA/WI-256/2020 (EPI_ISL_428730) (0.33)
hCoV-19/USA/MN135-MDH135/2020 (EPI_ISL_421691) (0.33)
hCoV-19/USA/WI-253/2020 (EPI_ISL_428727) (0.33)
hCoV-19/USA/WI-180/2020 (EPI_ISL_428276) (0.33)
hCoV-19/USA/WI-223/2020 (EPI_ISL_428319) (0.33)
BetaCoV/Sydney/3/2020 (EPI_ISL_408977) (0.33)
hCoV-19/USA/WI-244/2020 (EPI_ISL_428340) (0.33)
BetaCoV/Sydney/3/2020 (EPI_ISL_408977)EPI_ISL_4089772020-01-25 SNP:
26144: G>T (818 strain(s) in DB)

Deletions:
1: AATTAAAGGTTTATACCTTC...>- (4882 strain(s) in DB)
29836: CCCATGTGATTTTAATAGCT...>C (754 strain(s) in DB)

hCoV-19/Wuhan/WH05/2020EPI_ISL_4089782020-02-07
BetaCoV/Hong Kong/VB20017970/2020EPI_ISL_4089942020-01-21
BetaCoV/Hong Kong/VM20001218/2020EPI_ISL_4089952020-01-24
BetaCoV/Hong Kong/VB20019871/2020EPI_ISL_4089962020-01-24
BetaCoV/Hong Kong/VB20019923/2020EPI_ISL_4089972020-01-24
BetaCoV/Hong Kong/VM20001387/2020EPI_ISL_4089982020-01-25
BetaCoV/Hong Kong/VM20001464/2020EPI_ISL_4089992020-01-25
BetaCoV/Hong Kong/VM20001403/2020EPI_ISL_4090002020-01-26
BetaCoV/Hong Kong/VM20001794/2020EPI_ISL_4090012020-01-29
BetaCoV/Hong Kong/VM20001776/2020EPI_ISL_4090022020-01-29
hCoV-19/Hong Kong/VM20001988/2020EPI_ISL_4090202020-01-30
BetaCoV/Hong Kong/VB20024950/2020EPI_ISL_4090222020-01-29
BetaCoV/Hong Kong/VM20002162/2020EPI_ISL_4090232020-01-31
BetaCoV/Hong Kong/VM20002302/2020EPI_ISL_4090252020-02-01
BetaCoV/Hong Kong/VM20002343/2020EPI_ISL_4090262020-02-03
BetaCoV/Hong Kong/VM20002345/2020EPI_ISL_4090272020-02-03
BetaCoV/France/RA739/2020 (EPI_ISL_410486)EPI_ISL_4104862020-02-08
BetaCoV/Japan/NA-20-05-1/2020 (EPI_ISL_410531)MT2536992020-01-25 Deletions:
1: AATT>- (4882 strain(s) in DB)
29881: AAAAAAAAAAAAAAAAAAAA...>A (31 strain(s) in DB)

BetaCoV/Japan/OS-20-07-1/2020 (EPI_ISL_410532) (1)
hCoV-19/Korea/KCDC2007/2020 (EPI_ISL_426169) (0.5)
hCoV-19/Korea/KCDC2004/2020 (EPI_ISL_426164) (0.5)
SARS-CoV-2/human/THA/SI200433-NT/2020 (MT447157) (0.33)
SARS-CoV-2/HZ-60/human/2020/CHN (MT253705) (0.33)
SARS-CoV-2/HZ-576/human/2020/CHN (MT253704) (0.33)
BetaCoV/Hangzhou/HZCDC0001/2020 (EPI_ISL_407313) (0.33)
SARS-CoV-2/HZ-551/human/2020/CHN (MT253703) (0.33)
SARS-CoV-2/HZ-49/human/2020/CHN (MT253702) (0.33)
SARS-CoV-2/HZ-48/human/2020/CHN (MT253701) (0.33)
SARS-CoV-2/HZ-477/human/2020/CHN (MT253699) (0.33)
BetaCoV/Japan/OS-20-07-1/2020 (EPI_ISL_410532)MT2536992020-01-23 Deletions:
1: AATT>- (4882 strain(s) in DB)
29881: AAAAAAAAAAAAAAAAAAAA...>A (31 strain(s) in DB)

BetaCoV/Japan/NA-20-05-1/2020 (EPI_ISL_410531) (1)
hCoV-19/Korea/KCDC2007/2020 (EPI_ISL_426169) (0.5)
hCoV-19/Korea/KCDC2004/2020 (EPI_ISL_426164) (0.5)
SARS-CoV-2/human/THA/SI200433-NT/2020 (MT447157) (0.33)
SARS-CoV-2/HZ-60/human/2020/CHN (MT253705) (0.33)
SARS-CoV-2/HZ-576/human/2020/CHN (MT253704) (0.33)
BetaCoV/Hangzhou/HZCDC0001/2020 (EPI_ISL_407313) (0.33)
SARS-CoV-2/HZ-551/human/2020/CHN (MT253703) (0.33)
SARS-CoV-2/HZ-49/human/2020/CHN (MT253702) (0.33)
SARS-CoV-2/HZ-48/human/2020/CHN (MT253701) (0.33)
SARS-CoV-2/HZ-477/human/2020/CHN (MT253699) (0.33)
BetaCoV/Singapore/4/2020 (EPI_ISL_410535)EPI_ISL_4163522020-02-03 SNP:
8782: C>T (1672 strain(s) in DB)
28144: T>C (1654 strain(s) in DB)
28878: G>A (75 strain(s) in DB)

Deletions:
1: AATTAAAGGTTTATACCTTC...>- (4882 strain(s) in DB)
29674: GCAATCTTTAATCAGTGTGT...>G (54 strain(s) in DB)

hCoV-19/Australia/VIC07/2020 (MT450924) (0.57)
BetaCoV/Australia/QLD04/2020 (EPI_ISL_410718) (0.57)
hCoV-19/Shanghai/SH0002/2020 (0.57)
hCoV-19/Nanchang/JXN3T4/2020 (EPI_ISL_421246) (0.5)
BetaCoV/Australia/NSW01/2020 (EPI_ISL_407893) (0.5)
hCoV-19/China/WF0020/2020 (CNA0013880) (0.5)
hCoV-19/China/WF0018/2020 (CNA0013882) (0.5)
hCov-19/China/WF0016/2020 (CNA0013883) (0.5)
hCoV-19/China/WF0015/2020 (CNA0013884) (0.5)
hCoV-19/Netherlands/Utrecht/17/2020 (EPI_ISL_415526) (0.5)
hCoV-19/Shanghai/SH0043/2020 (0.5)
BetaCoV/Singapore/5/2020 (EPI_ISL_410536)EPI_ISL_4105362020-02-06 SNP:
10138: C>T (17 strain(s) in DB)
26144: G>T (818 strain(s) in DB)

Deletions:
1: AAT>- (4882 strain(s) in DB)
29845: TTTTAATAGCTTCTTAGGAG...>T (27 strain(s) in DB)

BetaCoV/Singapore/6/2020 (EPI_ISL_410537)EPI_ISL_4201002020-02-09 SNP:
27147: G>C (9 strain(s) in DB)

Deletions:
1: AATTAAAGGTTTATACC>- (4882 strain(s) in DB)
29845: TTTTAATAGCTTCTTAGGAG...>T (27 strain(s) in DB)

BetaCoV/Singapore/2/2020 (EPI_ISL_407987) (1)
hCoV-19/Singapore/28/2020 (EPI_ISL_420105) (0.67)
hCoV-19/Singapore/32/2020 (EPI_ISL_420109) (0.67)
hCoV-19/Singapore/31/2020 (EPI_ISL_420108) (0.67)
BetaCoV/Singapore/3/2020 (EPI_ISL_407988) (0.5)
hCoV-19/Singapore/33/2020 (EPI_ISL_420111) (0.5)
hCoV-19/Singapore/33/2020/P1 (EPI_ISL_420110) (0.5)
hCoV-19/Malaysia/MKAK-CL-2020-5047/2020 (EPI_ISL_416866) (0.5)
hCoV-19/Singapore/24/2020 (EPI_ISL_420101) (0.5)
hCoV-19/Singapore/36/2020 (EPI_ISL_422429) (0.4)
hCoV-19/Singapore/23/2020 (EPI_ISL_420100) (0.4)
BetaCoV/Italy/INMI1-isl/2020 (EPI_ISL_410545)EPI_ISL_4105452020-01-29 SNP:
2269: A>T (7 strain(s) in DB)
26144: G>T (818 strain(s) in DB)

Deletions:
29867: TGACAAAAAAAAAAAAAAAA...>T (123 strain(s) in DB)

BetaCoV/Italy/INMI1-cs/2020 (EPI_ISL_410546)EPI_ISL_4105462020-01-31 SNP:
11083: G>T (1220 strain(s) in DB)
26144: G>T (818 strain(s) in DB)

Deletions:
1: AATTAAAGGTTTATACCTTC...>- (4882 strain(s) in DB)
29841: GTGATTTTAATAGCTTCTTA...>G (13 strain(s) in DB)

BetaCoV/Singapore/7/2020 (EPI_ISL_410713)NMDC60013105-012020-01-27 SNP:
26144: G>T (818 strain(s) in DB)
28849: C>T (16 strain(s) in DB)

Deletions:
29891: AAAAAAAAAAAAA>A (154 strain(s) in DB)

BetaCoV/Singapore/9/2020 (EPI_ISL_410715) (0.5)
BetaCoV/Singapore/10/2020 (EPI_ISL_410716) (0.4)
WIV04 (0.33)
hCoV-19/Singapore/17/2020 (EPI_ISL_418992) (0.33)
BetaCoV/Wuhan/IVDC-HB-01/2019 (0.33)
BetaCoV/Jiangsu/JS03/2020 (EPI_ISL_411953) (0.33)
hCoV-19/Jian/JX169/2020 (EPI_ISL_421256) (0.33)
Chongqing/ZX01/2020 (EPI_ISL_408479) (0.33)
hCoV-19/HongKong/Case28_30012020/2020 (EPI_ISL_417185) (0.33)
BetaCoV/Wuhan/WH19001/2019 (0.33)
hCoV-19/Guangdong/20SF1136/2020 (NMDC60013105-01) (0.25)
BetaCoV/Singapore/8/2020 (EPI_ISL_410714)EPI_ISL_4105462020-02-03 SNP:
21859: C>T (10 strain(s) in DB)
26144: G>T (818 strain(s) in DB)

Deletions:
1: AATTAAAGGTTTATACCTTC...>- (4882 strain(s) in DB)
29796: AAGAGCCCTAATGTGTAAAA...>A (1 strain(s) in DB)

hCoV-19/Australia/VIC03/2020 (MT450920) (0.5)
BetaCoV/Sydney/3/2020 (EPI_ISL_408977) (0.4)
hCoV-19/Korea/KCDC2001/2020 (EPI_ISL_425117) (0.4)
hCoV-19/Spain/Valencia115/2020 (EPI_ISL_436210) (0.33)
hCoV-19/Spain/Valencia124/2020 (EPI_ISL_436219) (0.33)
BetaCoV/HongKong/VM20001988/2020 (EPI_ISL_412029) (0.33)
SARS-CoV-2/human/ITA/INMI1/2020 (MT077125) (0.33)
hCoV-19/Hong Kong/case48_VM20002507/2020 (EPI_ISL_414528) (0.33)
BetaCoV/Singapore/10/2020 (EPI_ISL_410716) (0.33)
hCoV-19/Shanghai/SH0012/2020 (0.33)
BetaCoV/Italy/INMI1-cs/2020 (EPI_ISL_410546) (0.33)
BetaCoV/Singapore/9/2020 (EPI_ISL_410715)EPI_ISL_4189922020-02-04 SNP:
10138: C>T (17 strain(s) in DB)
26144: G>T (818 strain(s) in DB)

Deletions:
29891: AAAAAAAAAAAAA>A (154 strain(s) in DB)

BetaCoV/Singapore/10/2020 (EPI_ISL_410716) (0.75)
BetaCoV/Singapore/7/2020 (EPI_ISL_410713) (0.5)
BetaCoV/Singapore/5/2020 (EPI_ISL_410536) (0.4)
hCoV-19/Jian/JX169/2020 (EPI_ISL_421256) (0.33)
BetaCoV/Wuhan/IVDC-HB-01/2019 (0.33)
BetaCoV/Wuhan/WH19001/2019 (0.33)
BetaCoV/Jiangsu/JS03/2020 (EPI_ISL_411953) (0.33)
Chongqing/ZX01/2020 (EPI_ISL_408479) (0.33)
hCoV-19/HongKong/Case28_30012020/2020 (EPI_ISL_417185) (0.33)
WIV04 (0.33)
hCoV-19/Singapore/17/2020 (EPI_ISL_418992) (0.33)
BetaCoV/Singapore/10/2020 (EPI_ISL_410716)EPI_ISL_4212522020-02-04 SNP:
10138: C>T (17 strain(s) in DB)
26144: G>T (818 strain(s) in DB)

Deletions:
1: AAT>- (4882 strain(s) in DB)
29891: AAAAAAAAAAAAA>A (154 strain(s) in DB)

BetaCoV/Singapore/9/2020 (EPI_ISL_410715) (0.75)
BetaCoV/Singapore/5/2020 (EPI_ISL_410536) (0.6)
hCoV-19/Australia/VIC03/2020 (MT450920) (0.5)
BetaCoV/Taiwan/4/2020 (EPI_ISL_411927) (0.5)
hCoV-19/Jian/JX169/2020 (EPI_ISL_421256) (0.5)
hCoV-19/Shangrao/JX1178/2020 (EPI_ISL_421254) (0.4)
BetaCoV/Singapore/7/2020 (EPI_ISL_410713) (0.4)
BetaCoV/Sydney/3/2020 (EPI_ISL_408977) (0.4)
hCoV-19/Pingxiang/JX151/2020 (EPI_ISL_421259) (0.4)
SARS-CoV-2/human/HKG/HKU-902a/2020 (0.4)
hCoV-19/Pingxiang/JX5/2020 (EPI_ISL_421252) (0.4)
BetaCoV/Australia/QLD03/2020 (EPI_ISL_410717)EPI_ISL_4107172020-02-05 SNP:
8782: C>T (1672 strain(s) in DB)
18603: T>C (7 strain(s) in DB)
28144: T>C (1654 strain(s) in DB)
28878: G>A (75 strain(s) in DB)
29742: G>A (236 strain(s) in DB)

Deletions:
1: AATTAA>- (4882 strain(s) in DB)
29870: CAAAAAAAAAAAAAAAAAAA...>C (353 strain(s) in DB)

BetaCoV/Australia/QLD04/2020 (EPI_ISL_410718)EPI_ISL_4107182020-02-05 SNP:
8782: C>T (1672 strain(s) in DB)
28144: T>C (1654 strain(s) in DB)
28878: G>A (75 strain(s) in DB)
29742: G>A (236 strain(s) in DB)

Deletions:
1: AATTAA>- (4882 strain(s) in DB)
29870: CAAAAAAAAAAAAAAAAAAA...>C (353 strain(s) in DB)

BetaCoV/Singapore/11/2020 (EPI_ISL_410719)MT4392532020-02-02 SNP:
13679: A>G (1 strain(s) in DB)
17373: C>T (23 strain(s) in DB)

Deletions:
1: AATTAAAGG>- (4882 strain(s) in DB)
29853: GCTTCTTAGGAGAATGACAA...>G (40 strain(s) in DB)

BetaCoV/Foshan/20SF211/2020 (NMDC60013015-01) (0.4)
BetaCoV/Foshan/20SF210/2020 (NMDC60013014-01) (0.4)
SARS-CoV-2/Wuhan_YB012506/human/2020/CHN (GWHACDI01000001) (0.33)
hCoV-19/Spain/Valencia124/2020 (EPI_ISL_436219) (0.33)
hCoV-19/Thailand/NIH-162/2020 (EPI_ISL_434694) (0.33)
hCoV-19/Shanghai/SH0011/2020 (0.33)
hCoV-19/Thailand/NIH-59/2020 (EPI_ISL_434693) (0.33)
Guangzhou/GZ8H0011/2020 (CNA0013705) (0.29)
hCoV-19/Spain/Valencia153/2020 (EPI_ISL_436248) (0.29)
hCoV-19/Shanghai/SH0109/2020 (0.29)
SARS-CoV-2/human/USA/MI-MDHHS-SC20173/2020 (MT439253) (0.25)
BetaCoV/France/IDF0372-isl/2020 (EPI_ISL_410720)NMDC60013127-012020-01-23 SNP:
22661: G>T (13 strain(s) in DB)
26144: G>T (818 strain(s) in DB)

Deletions:
29874: AAAAAAAAAAAAAAAAAAAA...>A (87 strain(s) in DB)

BetaCoV/France/IDF0386/2020/P3 (EPI_ISL_411220) (0.5)
BetaCoV/France/IDF0386/2020/P1 (EPI_ISL_411219) (0.5)
BetaCoV/France/IDF0373/2020 (EPI_ISL_406597) (0.4)
BetaCoV/France/IDF0372/2020 (EPI_ISL_406596) (0.4)
hCoV-19/HongKong/Case28_30012020/2020 (EPI_ISL_417185) (0.33)
hCoV-19/Luxembourg/LNS0641910/2020 (EPI_ISL_419566) (0.33)
hCoV-19/Guangdong/GD2020087-P0008/2020 (0.25)
hCoV-19/Australia/VIC03/2020 (MT450920) (0.25)
hCoV-19/England/20134027504/2020 (EPI_ISL_423136) (0.25)
hCoV-19/Italy/SPL1/2020 (0.25)
hCoV-19/Guangdong/20SF602/2020 (NMDC60013127-01) (0.25)
BetaCoV/France/IDF0515-isl/2020 (EPI_ISL_410984)LC5709702020-01-29 SNP:
1190: C>T (3 strain(s) in DB)
9438: C>T (15 strain(s) in DB)
11083: G>T (1220 strain(s) in DB)

BetaCoV/France/IDF0571/2020 (EPI_ISL_411218) (0.75)
France/IDF0515/2020 (EPI_ISL_408430) (0.6)
hCoV-19/Italy/SPL1/2020 (0.25)
Chongqing/IVDC-CQ-001/2020 (NMDC60013076-01) (0.25)
2019-nCoV/USA-CruiseA-25/2020 (MT184912) (0.25)
hCoV-19/Belgium/ULG-10080/2020 (EPI_ISL_424641) (0.25)
hCoV-19/Japan/DP0568/2020 (LC571008) (0.2)
hCoV-19/Japan/DP0121/2020 (LC570973) (0.2)
hCoV-19/Japan/DP0107/2020 (LC570972) (0.2)
hCoV-19/Japan/DP0104/2020 (LC570971) (0.2)
hCoV-19/Japan/DP0078/2020 (LC570970) (0.2)
BetaCoV/Fujian/8/2020 (EPI_ISL_411060)CNA00137152020-01-21 SNP:
8782: C>T (1672 strain(s) in DB)
18060: C>T (1069 strain(s) in DB)
28144: T>C (1654 strain(s) in DB)

Deletions:
29871: AAAAAAAAAAAAAAAAAAAA...>A (158 strain(s) in DB)

hCoV-19/USA/NY-WCMP4A02N/2020 (EPI_ISL_427531) (0.8)
hCoV-19/Canada/BC_4540462/2020 (EPI_ISL_418829) (0.6)
hCoV-19/Canada/BC_8159203/2020 (EPI_ISL_418848) (0.6)
hCoV-19/Guangdong/20SF123/2020 (NMDC60013112-01) (0.6)
hCoV-19/Canada/BC_3968175/2020 (EPI_ISL_418821) (0.6)
hCoV-19/Canada/BC_3972884/2020 (EPI_ISL_418822) (0.6)
SARS-CoV-2/human/USA/USA-WA1/2020 (0.6)
2019-nCoV/USA-WA1-A12/2020 (0.6)
2019-nCoV/USA-WA1-F6/2020 (0.6)
hCoV-19/Canada/BC_4118226/2020 (EPI_ISL_418825) (0.6)
hCoV-19/Guangzhou/GZMU0047/2020 (CNA0013715) (0.6)
BetaCoV/Fujian/13/2020 (EPI_ISL_411066)MT3650292020-01-22 SNP:
17373: C>T (23 strain(s) in DB)
29755: G>A (5 strain(s) in DB)

Deletions:
29891: AAAAAAAAAAAAA>A (154 strain(s) in DB)

BetaCoV/Wuhan/WH19001/2019 (0.33)
BetaCoV/Jiangsu/JS03/2020 (EPI_ISL_411953) (0.33)
Chongqing/ZX01/2020 (EPI_ISL_408479) (0.33)
WIV04 (0.33)
BetaCoV/Wuhan/IVDC-HB-01/2019 (0.33)
BetaCoV/Taiwan/4/2020 (EPI_ISL_411927) (0.25)
hCoV-19/Guangzhou/GZMU0059/2020 (CNA0013954) (0.25)
SARS-CoV-2/nCoV-19-01S/human/2020/VNM (MT192772) (0.25)
BetaCoV/Wuhan/YS8011/2020 (0.25)
BetaCoV/Wuhan/WH19008/2019  (0.25)
SARS-CoV-2/human/HKG/HKU-911a/2020 (MT365029) (0.25)
BetaCoV/France/IDF0571/2020 (EPI_ISL_411218)NMDC60013076-012020-02-02 SNP:
1190: C>T (3 strain(s) in DB)
9438: C>T (15 strain(s) in DB)
11083: G>T (1220 strain(s) in DB)

Deletions:
29873: AAAAAAAAAAAAAAAAAAAA...>A (124 strain(s) in DB)

BetaCoV/France/IDF0515-isl/2020 (EPI_ISL_410984) (0.75)
France/IDF0515/2020 (EPI_ISL_408430) (0.5)
hCoV-19/Norway/1694/2020 (EPI_ISL_420136) (0.29)
hCoV-19/Austria/CeMM0114/2020 (EPI_ISL_437972) (0.25)
hCoV-19/France/B2334/2020 (EPI_ISL_416503) (0.25)
hCoV-19/India/NCDC-02320/2020 (EPI_ISL_435099) (0.22)
hCoV-19/Belgium/ULG-10080/2020 (EPI_ISL_424641) (0.22)
hCoV-19/Austria/CeMM0254/2020 (EPI_ISL_438083) (0.22)
hCoV-19/Wales/PHWC-2415E/2020 (EPI_ISL_418149) (0.2)
hCoV-19/Italy/SPL1/2020 (0.2)
Chongqing/IVDC-CQ-001/2020 (NMDC60013076-01) (0.2)
BetaCoV/France/IDF0386/2020/P1 (EPI_ISL_411219)EPI_ISL_4129742020-01-28 SNP:
22661: G>T (13 strain(s) in DB)
26144: G>T (818 strain(s) in DB)

Deletions:
29872: AAAAAAAAAAAAAAAAAAAA...>A (168 strain(s) in DB)

BetaCoV/France/IDF0386/2020/P3 (EPI_ISL_411220) (0.5)
BetaCoV/France/IDF0372-isl/2020 (EPI_ISL_410720) (0.5)
BetaCoV/France/IDF0372/2020 (EPI_ISL_406596) (0.4)
BetaCoV/France/IDF0373/2020 (EPI_ISL_406597) (0.4)
hCoV-19/Georgia/Tb-54/2020 (EPI_ISL_415641) (0.33)
hCoV-19/HongKong/Case28_30012020/2020 (EPI_ISL_417185) (0.33)
hCoV-19/USA/NY-WCMP12C01P/2020 (EPI_ISL_427600) (0.25)
hCoV-19/USA/NY-WCMP12G03P/2020 (EPI_ISL_427615) (0.25)
hCoV-19/Guangdong/20SF602/2020 (NMDC60013127-01) (0.25)
hCoV-19/Guangdong/20SF1136/2020 (NMDC60013105-01) (0.25)
hCoV-19/Italy/SPL1/2020 (0.25)
BetaCoV/France/IDF0386/2020/P3 (EPI_ISL_411220)EPI_ISL_4129742020-01-28 SNP:
22661: G>T (13 strain(s) in DB)
26144: G>T (818 strain(s) in DB)

Deletions:
29878: AAAAAAAAAAAAAAAAAAAA...>A (46 strain(s) in DB)

BetaCoV/France/IDF0372-isl/2020 (EPI_ISL_410720) (0.5)
BetaCoV/France/IDF0386/2020/P1 (EPI_ISL_411219) (0.5)
BetaCoV/France/IDF0372/2020 (EPI_ISL_406596) (0.4)
BetaCoV/France/IDF0373/2020 (EPI_ISL_406597) (0.4)
hCoV-19/HongKong/Case28_30012020/2020 (EPI_ISL_417185) (0.33)
hCoV-19/Guangdong/20SF1136/2020 (NMDC60013105-01) (0.25)
hCoV-19/Guangdong/20SF602/2020 (NMDC60013127-01) (0.25)
hCoV-19/England/20134027504/2020 (EPI_ISL_423136) (0.25)
hCoV-19/Guangdong/GD2020087-P0008/2020 (0.25)
hCoV-19/Australia/VIC03/2020 (MT450920) (0.25)
hCoV-19/Italy/SPL1/2020 (0.25)
BetaCoV/Cambodia/0012/2020 (EPI_ISL_411902)EPI_ISL_4119022020-01-27 SNP:
25654: G>T (1 strain(s) in DB)

Deletions:
1: AA>- (4882 strain(s) in DB)
29874: AAAAAAAAAAAAAAAAAAAA...>A (87 strain(s) in DB)

hCoV-19/Taiwan/3/2020EPI_ISL_4119262020-01-24 SNP:
8782: C>T (1672 strain(s) in DB)
28144: T>C (1654 strain(s) in DB)
29889: A>G (24 strain(s) in DB)

Deletions:
29891: AAAAAAAAAAAAA>A (154 strain(s) in DB)

BetaCoV/Taiwan/4/2020 (EPI_ISL_411927)EPI_ISL_4119272020-01-28 Deletions:
1: AA>- (4882 strain(s) in DB)
29891: AAAAAAAAAAAAA>A (154 strain(s) in DB)

BetaCoV/Shanghai/SH-01/2020EPI_ISL_4119492020-01-16
BetaCoV/Jiangsu/JS01/2020 (EPI_ISL_411950)NMDC60013002-072020-01-23 SNP:
3768: C>T (9 strain(s) in DB)
25919: C>T (3 strain(s) in DB)
29732: C>T (14 strain(s) in DB)

Deletions:
29891: AAAAAAAAAAAAA>A (154 strain(s) in DB)

BetaCoV/Jiangsu/JS03/2020 (EPI_ISL_411953) (0.25)
Chongqing/ZX01/2020 (EPI_ISL_408479) (0.25)
WIV04 (0.25)
BetaCoV/Wuhan/IVDC-HB-01/2019 (0.25)
BetaCoV/Wuhan/WH19001/2019 (0.25)
hCoV-19/Nanchang/JX177/2020 (EPI_ISL_421241) (0.22)
SARS-CoV-2/human/HKG/HKU-902b/2020 (0.2)
BetaCoV/Taiwan/4/2020 (EPI_ISL_411927) (0.2)
SARS-CoV-2/nCoV-19-01S/human/2020/VNM (MT192772) (0.2)
BetaCoV/Wuhan/WH19008/2019  (0.2)
BetaCoV/Wuhan/YS8011/2020 (0.2)
BetaCoV/Jiangsu/JS02/2020 (EPI_ISL_411952)GWHABKL000000012020-01-24 SNP:
3860: G>A (1 strain(s) in DB)
7420: C>T (32 strain(s) in DB)
13571: G>T (8 strain(s) in DB)
21707: C>T (27 strain(s) in DB)
26211: G>T (12 strain(s) in DB)

Deletions:
29891: AAAAAAAAAAAAA>A (154 strain(s) in DB)

hCoV-19/Guangzhou/GZMU0059/2020 (CNA0013954) (0.33)
hCoV-19/Shangrao/JX1215/2020 (EPI_ISL_421257) (0.29)
hCoV-19/Shangrao/JX1974/2020 (EPI_ISL_421258) (0.22)
BetaCoV/Wuhan/WH19001/2019 (0.17)
Chongqing/ZX01/2020 (EPI_ISL_408479) (0.17)
hCoV-19/Guangzhou/GZMU0052/2020 (CNA0013949) (0.17)
hCoV-19/Guangzhou/GZMU0033/2020 (CNA0013938) (0.17)
hCoV-19/Guangzhou/GZMU0003/2020 (CNA0013927) (0.17)
BetaCoV/Jiangsu/JS03/2020 (EPI_ISL_411953) (0.17)
BetaCoV/Wuhan/IVDC-HB-01/2019 (0.17)
WIV04 (0.17)
BetaCoV/Jiangsu/JS03/2020 (EPI_ISL_411953)MT1144132020-01-24 Deletions:
29891: AAAAAAAAAAAAA>A (154 strain(s) in DB)

Chongqing/ZX01/2020 (EPI_ISL_408479) (1)
BetaCoV/Wuhan/IVDC-HB-01/2019 (1)
BetaCoV/Wuhan/WH19001/2019 (1)
WIV04 (1)
BetaCoV/Wuhan/WH19008/2019  (0.5)
SARS-CoV-2/human/HKG/HKU-911a/2020 (MT365029) (0.5)
BetaCoV/Taiwan/4/2020 (EPI_ISL_411927) (0.5)
hCoV-19/Guangzhou/GZMU0059/2020 (CNA0013954) (0.5)
Chongqing/IVDC-CQ-001/2020 (NMDC60013076-01) (0.5)
BetaCoV/Wuhan/YS8011/2020 (0.5)
SARS-CoV-2/human/HKG/HKU-902b/2020 (0.5)
BetaCoV/Hefei/2/2020 (EPI_ISL_412026)MT5686362020-02-23 Deletions:
29870: CAAAAAAAAAAAAAAAAAAA...>C (353 strain(s) in DB)

SARS-CoV-2/human/CHN/IME-HZ01/2020 (MT039874) (0.5)
hCoV-19/Thailand/74/2020 (0.5)
BetaCov/Taiwan/NTU02/2020 (MT066176) (0.33)
SARS-CoV-2/NTU01/2020/TWN (MT066175) (0.33)
hCoV-19/Belgium/BJ-0325181/2020 (EPI_ISL_420438) (0.25)
WIV07 (0.25)
hCoV-19/Guangzhou/GZMU0030/2020 (CNA0013711) (0.2)
hCoV-19/Guangzhou/GZMU0030/2020/P2 (EPI_ISL_414686) (0.2)
hCoV-19/Norway/1493/2020 (EPI_ISL_417488) (0.2)
hCoV-19/Belgium/JJC-0325165/2020 (EPI_ISL_420422) (0.2)
hCoV-19/Guangzhou/GZMU0030/2020/P1 (MT568636) (0.2)
BetaCoV/HongKong/VM20001988/2020 (EPI_ISL_412029)EPI_ISL_4163252020-01-30 SNP:
13929: T>C (16 strain(s) in DB)
26144: G>T (818 strain(s) in DB)

Deletions:
1: AATTAAAGGTTTATACCTTC...>- (4882 strain(s) in DB)
29831: CTATCCCCATGTGATTTTAA...>C (4 strain(s) in DB)

hCoV-19/Hong Kong/case48_VM20002507/2020 (EPI_ISL_414528) (0.6)
hCoV-19/Hong Kong/case52_VM20002582/2020 (EPI_ISL_414569) (0.5)
hCoV-19/Australia/VIC03/2020 (MT450920) (0.5)
hCoV-19/Hong Kong/case42_VM20002493/2020 (EPI_ISL_414527) (0.43)
hCoV-19/Korea/KCDC2001/2020 (EPI_ISL_425117) (0.4)
BetaCoV/Sydney/3/2020 (EPI_ISL_408977) (0.4)
BetaCoV/Guangdong/20SF174/2020 (NMDC60013011-01) (0.4)
SARS-CoV-2/human/ITA/INMI1/2020 (MT077125) (0.33)
hCoV-19/Spain/Valencia124/2020 (EPI_ISL_436219) (0.33)
SARS-CoV-2/human/THA/SI200383-NT/2020 (MT447156) (0.33)
hCoV-19/Shanghai/SH0012/2020 (0.33)
BetaCoV/HongKong/VB20026565/2020 (EPI_ISL_412030)LC5709982020-02-01 SNP:
11083: G>T (1220 strain(s) in DB)
29841: G>A (13 strain(s) in DB)

Deletions:
1: AATTAAAGGTTTATACCTTC...>- (4882 strain(s) in DB)
29865: AATGACAAAAAAAAAAAAAA...>A (74 strain(s) in DB)

SARS-CoV-2/human/ITA/INMI1/2020 (MT077125) (0.6)
BetaCoV/Italy/INMI1-cs/2020 (EPI_ISL_410546) (0.6)
hCoV-19/Japan/DP0107/2020 (LC570972) (0.4)
BetaCoV/Singapore/3/2020 (EPI_ISL_407988) (0.4)
hCoV-19/Japan/DP0289/2020 (LC570988) (0.4)
hCoV-19/Japan/DP0482/2020 (LC571005) (0.4)
hCoV-19/Japan/DP0786/2020 (LC571035) (0.4)
hCoV-19/Japan/DP0802/2020 (LC571036) (0.4)
hCoV-19/Japan/DP0274/2020 (LC570984) (0.4)
hCoV-19/Japan/DP0804/2020 (LC571038) (0.4)
hCoV-19/Japan/DP0438/2020 (LC570998) (0.4)
BetaCoV/England/03/2020 (EPI_ISL_412116)EPI_ISL_4121162020-02-09 SNP:
2480: A>G (278 strain(s) in DB)
2558: C>T (299 strain(s) in DB)
14805: C>T (875 strain(s) in DB)
26144: G>T (818 strain(s) in DB)

BetaCoV/Shandong/LY001/2020EPI_ISL_4123872020-01-21
BetaCoV/Shandong/LY002/2020EPI_ISL_4124182020-01-21
BetaCoV/Shandong/LY003/2020EPI_ISL_4124192020-01-23
BetaCoV/Shandong/LY004/2020EPI_ISL_4124202020-01-26
BetaCoV/Shandong/LY005/2020EPI_ISL_4124212020-01-24
BetaCoV/Shandong/LY006/2020EPI_ISL_4124222020-01-24
BetaCoV/Shandong/LY007/2020EPI_ISL_4124232020-01-25
BetaCoV/Shandong/LY008/2020EPI_ISL_4124242020-01-30
BetaCoV/Shandong/LY-H13/2020EPI_ISL_4124252020-01-26
BetaCoV/Shandong/LY-H15/2020EPI_ISL_4124262020-01-26
BetaCoV/Korea/KCDC05/2020 (EPI_ISL_412869)EPI_ISL_4212412020-01-30 SNP:
1740: A>C (1 strain(s) in DB)
8767: T>C (15 strain(s) in DB)
8782: C>T (1672 strain(s) in DB)
17104: C>T (13 strain(s) in DB)
26167: G>T (5 strain(s) in DB)
28144: T>C (1654 strain(s) in DB)
29593: G>A (8 strain(s) in DB)
29869: A>G (89 strain(s) in DB)

Deletions:
1: AATTAAAGGTTTATACCTTC...>- (4882 strain(s) in DB)
29887: AAAAAAAAAAAAAAAAA>A (40 strain(s) in DB)

hCoV-19/Korea/KCDC2002/2020 (EPI_ISL_425118) (0.7)
hCoV-19/Korea/KCDC2003/2020 (EPI_ISL_426163) (0.5)
hCoV-19/Korea/KCDC2003/2020/P1 (EPI_ISL_426167) (0.5)
hCoV-19/Guangdong/2020XN4273-P0036/2020 (0.4)
hCoV-19/Beijing/BJ1112/2020 (EPI_ISL_430737) (0.39)
hCoV-19/Korea/KCDC2009/2020 (EPI_ISL_426173) (0.36)
hCoV-19/China/WF0029/2020 (CNA0013893) (0.33)
BetaCoV/Korea/KCDC06/2020 (EPI_ISL_412870) (0.33)
hCoV-19/Korea/KCDC2010/2020 (EPI_ISL_426180) (0.31)
hCoV-19/USA/OR-UW-1851/2020 (MT326040) (0.31)
hCoV-19/Nanchang/JX177/2020 (EPI_ISL_421241) (0.31)
BetaCoV/Korea/KCDC06/2020 (EPI_ISL_412870)EPI_ISL_4261732020-01-30 SNP:
4402: T>C (22 strain(s) in DB)
5062: G>T (22 strain(s) in DB)
8782: C>T (1672 strain(s) in DB)
28144: T>C (1654 strain(s) in DB)

Deletions:
1: AATTAAAGGTTTATACCTTC...>- (4882 strain(s) in DB)
29887: AAAAAAAAAAAAAAAAA>A (40 strain(s) in DB)

hCoV-19/Korea/KCDC2010/2020 (EPI_ISL_426180) (0.86)
hCoV-19/Korea/KCDC2018/2020 (EPI_ISL_427812) (0.83)
BetaCoV/Korea/KCDC07/2020 (EPI_ISL_412871) (0.75)
SARS-CoV-2/Wuhan_IME-BJ02/human/2020/CHN (GWHACAY01000001) (0.71)
hCoV-19/South Korea/KUMC03/2020 (EPI_ISL_413513) (0.71)
hCoV-19/South Korea/KCDC03/2020 (0.71)
hCoV-19/South Korea/KUMC04/2020 (EPI_ISL_413514) (0.71)
SARS-CoV-2/Wuhan_IME-BJ03/human/2020/CHN (GWHACAZ01000001) (0.71)
hCoV-19/South Korea/KUMC05/2020 (EPI_ISL_413515) (0.71)
hCoV-19/South Korea/KUMC06/2020 (EPI_ISL_413516) (0.71)
hCoV-19/Korea/KCDC2009/2020 (EPI_ISL_426173) (0.67)
BetaCoV/Korea/KCDC07/2020 (EPI_ISL_412871)EPI_ISL_4261812020-01-31 SNP:
1779: C>T (2 strain(s) in DB)
4402: T>C (22 strain(s) in DB)
5062: G>T (22 strain(s) in DB)
8782: C>T (1672 strain(s) in DB)
15017: C>T (4 strain(s) in DB)
28144: T>C (1654 strain(s) in DB)

Deletions:
1: AATTAAAGGTTTATACCTTC...>- (4882 strain(s) in DB)
29887: AAAAAAAAAAAAAAAAA>A (40 strain(s) in DB)

BetaCoV/Korea/KCDC06/2020 (EPI_ISL_412870) (0.75)
hCoV-19/Korea/KCDC2010/2020 (EPI_ISL_426180) (0.67)
hCoV-19/Korea/KCDC2018/2020 (EPI_ISL_427812) (0.63)
hCoV-19/South Korea/KCDC03/2020 (0.56)
hCoV-19/South Korea/KUMC03/2020 (EPI_ISL_413513) (0.56)
hCoV-19/South Korea/KUMC04/2020 (EPI_ISL_413514) (0.56)
hCoV-19/South Korea/KUMC05/2020 (EPI_ISL_413515) (0.56)
hCoV-19/South Korea/KUMC06/2020 (EPI_ISL_413516) (0.56)
SARS-CoV-2/Wuhan_IME-BJ02/human/2020/CHN (GWHACAY01000001) (0.56)
SARS-CoV-2/Wuhan_IME-BJ03/human/2020/CHN (GWHACAZ01000001) (0.56)
hCoV-19/Korea/KCDC2011/2020 (EPI_ISL_426181) (0.55)
BetaCoV/Korea/KCDC12/2020 (EPI_ISL_412872)EPI_ISL_4212322020-02-01 Deletions:
1: AATTAAAGGTTTATACCTTC...>- (4882 strain(s) in DB)
29868: GACAAAAAAAAAAAAAA>G (177 strain(s) in DB)

WIV06 (1)
hCoV-19/Korea/KCDC2004/2020 (EPI_ISL_426164) (0.5)
SARS-CoV-2/Wuhan_YB012506/human/2020/CHN (GWHACDI01000001) (0.5)
SARS-CoV-2/Wuhan_YB012504/human/2020/CHN (GWHACDJ01000001) (0.5)
SARS-CoV-2/Wuhan_YB012602/human/2020/CHN (GWHACDH01000001) (0.5)
hCoV-19/Korea/KCDC2007/2020 (EPI_ISL_426169) (0.5)
BetaCoV/Wuhan/YS8011/2020 (0.33)
hCoV-19/Hangzhou/HZCDC0091L/2020 (EPI_ISL_421227) (0.33)
hCoV-19/Hangzhou/HZCDC0090L/2020 (EPI_ISL_421229) (0.33)
hCoV-19/Hangzhou/HZCDC0049L/2020 (EPI_ISL_421231) (0.33)
hCoV-19/Hangzhou/HZCDC0048L/2020 (EPI_ISL_421232) (0.33)
BetaCoV/Korea/KCDC24/2020 (EPI_ISL_412873)EPI_ISL_4286742020-02-06 SNP:
3086: T>C (7 strain(s) in DB)
6255: C>T (15 strain(s) in DB)
8782: C>T (1672 strain(s) in DB)
11083: G>T (1220 strain(s) in DB)
17122: G>A (6 strain(s) in DB)
28144: T>C (1654 strain(s) in DB)
29871: A>G (158 strain(s) in DB)

Deletions:
1: AATTAAAGGTTTATACCTTC...>- (4882 strain(s) in DB)
29887: AAAAAAAAAAAAAAAAA>A (40 strain(s) in DB)

hCoV-19/Guangzhou/GZMU0047/2020 (CNA0013715) (0.44)
Guangzhou/GZ8H0007/2020 (CNA0013702) (0.4)
hCoV-19/Korea/KCDC2011/2020 (EPI_ISL_426181) (0.38)
hCoV-19/China/WF0014/2020 (CNA0013885) (0.36)
BetaCoV/Korea/KCDC06/2020 (EPI_ISL_412870) (0.36)
BetaCoV/Anhui/SZ005/2020 (EPI_ISL_413485) (0.33)
hCoV-19/Korea/KCDC2010/2020 (EPI_ISL_426180) (0.33)
hCoV-19/USA/CA-CZBRR057IX00090/2020 (MT385473) (0.33)
hCoV-19/Australia/VIC225/2020 (MT451125) (0.31)
hCoV-19/Netherlands/Utrecht_16/2020 (EPI_ISL_414555) (0.31)
hCoV-19/Spain/Madrid_LP11_2271/2020 (EPI_ISL_428674) (0.31)
BetaCoV/Germany/Baden-Wuerttemberg-1/2020 (EPI_ISL_412912)EPI_ISL_4214482020-02-25 SNP:
241: C>T (7669 strain(s) in DB)
3037: C>T (7693 strain(s) in DB)
10265: G>A (16 strain(s) in DB)
14408: C>T (7704 strain(s) in DB)
23403: A>G (7732 strain(s) in DB)
28881: G>A (2045 strain(s) in DB)
28882: G>A (2040 strain(s) in DB)
28883: G>C (2036 strain(s) in DB)

Deletions:
1: AATTAAAGGTTTATACCTTC...>- (4882 strain(s) in DB)
29803: CTAATGTGTAAAATTAATTT...>C (94 strain(s) in DB)

hCoV-19/Portugal/PT0077/2020 (EPI_ISL_421480) (0.9)
hCoV-19/Portugal/PT0050/2020 (EPI_ISL_421453) (0.9)
hCoV-19/Portugal/PT0076/2020 (EPI_ISL_421479) (0.9)
hCoV-19/Portugal/PT0083/2020 (EPI_ISL_421486) (0.9)
hCoV-19/Portugal/PT0008/2020 (EPI_ISL_417993) (0.9)
SARS-CoV-2/human/HKG/case163_VM20009579/2020 (MT270815) (0.9)
SARS-CoV-2/canine/HKG/20-03695/2020 (MT270814) (0.9)
hCoV-19/Portugal/PT0033/2020 (EPI_ISL_418018) (0.9)
hCoV-19/Portugal/PT0096/2020 (EPI_ISL_421499) (0.9)
hCoV-19/Portugal/PT0049/2020 (EPI_ISL_421452) (0.9)
hCoV-19/Portugal/PT0045/2020 (EPI_ISL_421448) (0.9)
BetaCoV/Brazil/SPBR-01/2020 (EPI_ISL_412964)EPI_ISL_4129642020-02-25
hCoV-19/Canada/BC_37_0-2/2020EPI_ISL_4129652020-02-16
hCoV-19/Finland/FIN-25/2020EPI_ISL_4129712020-02-25
BetaCoV/Mexico/CDMX/InDRE_01/2020 (EPI_ISL_412972)MT4510602020-02-27 SNP:
17: T>G (10 strain(s) in DB)
241: C>T (7669 strain(s) in DB)
3037: C>T (7693 strain(s) in DB)
13206: C>G (1 strain(s) in DB)
14408: C>T (7704 strain(s) in DB)
23403: A>G (7732 strain(s) in DB)
28881: G>A (2045 strain(s) in DB)
28882: G>A (2040 strain(s) in DB)
28883: G>C (2036 strain(s) in DB)

Deletions:
1: AATTAAAGGTTTATACC>- (4882 strain(s) in DB)
15805: CA>C (1 strain(s) in DB)
24267: TG>T (1 strain(s) in DB)
29865: AATGACAAAAAAAAAAAAAA...>A (74 strain(s) in DB)

hCoV-19/Australia/VIC310/2020 (MT451202) (0.69)
hCoV-19/Scotland/CVR1677/2020 (EPI_ISL_433651) (0.64)
hCoV-19/Japan/Donner26/2020 (EPI_ISL_438970) (0.64)
hCoV-19/Australia/VIC250/2020 (MT451147) (0.62)
hCoV-19/Turkey/HSGM-302/2020 (EPI_ISL_437313) (0.62)
hCoV-19/Turkey/HSGM-1428/2020 (EPI_ISL_437311) (0.62)
hCoV-19/Australia/VIC109/2020 (MT451018) (0.62)
hCoV-19/Wales/PHWC-29D55/2020 (EPI_ISL_432244) (0.62)
hCoV-19/Kuwait/KU008/2020 (EPI_ISL_422427) (0.62)
hCoV-19/Australia/VIC45/2020 (MT450960) (0.62)
hCoV-19/Australia/VIC156/2020 (MT451060) (0.62)
hCoV-19/Italy/CDG1/2020EPI_ISL_4129732020-02-20 SNP:
241: C>T (7669 strain(s) in DB)
3037: C>T (7693 strain(s) in DB)
14408: C>T (7704 strain(s) in DB)
23403: A>G (7732 strain(s) in DB)

hCoV-19/Italy/SPL1/2020EPI_ISL_4362192020-01-29 SNP:
11083: G>T (1220 strain(s) in DB)
26144: G>T (818 strain(s) in DB)

hCoV-19/Spain/Madrid201738/2020 (EPI_ISL_419237) (0.67)
hCoV-19/Taiwan/TSGH-06/2020 (EPI_ISL_427393) (0.67)
hCoV-19/England/SHEF-C2626/2020 (EPI_ISL_432746) (0.67)
hCoV-19/England/SHEF-C426C/2020 (EPI_ISL_432786) (0.67)
hCoV-19/England/SHEF-C0163/2020 (EPI_ISL_420255) (0.67)
hCoV-19/USA/WA-S413/2020 (MT633044) (0.67)
hCoV-19/England/SHEF-CD97D/2020 (EPI_ISL_432551) (0.67)
hCoV-19/USA/NY-NYUMC36/2020 (EPI_ISL_419697) (0.5)
BetaCoV/Italy/INMI1-cs/2020 (EPI_ISL_410546) (0.5)
hCoV-19/Ireland/24042/2020 (EPI_ISL_418583) (0.5)
hCoV-19/Spain/Valencia124/2020 (EPI_ISL_436219) (0.5)
BetaCoV/Australia/NSW05/2020 (EPI_ISL_412975)EPI_ISL_4129752020-02-28 SNP:
1397: G>A (164 strain(s) in DB)
4255: G>A (50 strain(s) in DB)
11083: G>T (1220 strain(s) in DB)
20047: A>G (3 strain(s) in DB)
28688: T>C (152 strain(s) in DB)
29742: G>T (236 strain(s) in DB)

Deletions:
1: AATTAAAGGTTTATACCTTC...>- (4882 strain(s) in DB)
29836: CCCATGTGATTTTAATAGCT...>C (754 strain(s) in DB)

BetaCoV/Canada/ON-PHL2445/2020 (EPI_ISL_413014)EPI_ISL_4332832020-01-25 SNP:
5084: A>G (8 strain(s) in DB)
28854: C>T (241 strain(s) in DB)

Deletions:
1: AATTAAAGGTTTATACCTTC...>- (4882 strain(s) in DB)
29900: AAAA>A (38 strain(s) in DB)

hCoV-19/Canada/ON-VIDO-01/2020 (EPI_ISL_425177) (0.6)
hCoV-19/Canada/ON_PHL4181/2020 (EPI_ISL_418327) (0.6)
BetaCoV/Canada/ON/VIDO-01/2020 (EPI_ISL_413015) (0.38)
BetaCoV/Foshan/20SF207/2020 (NMDC60013013-01) (0.33)
2019-nCoV/USA-CA4/2020 (MT027063) (0.33)
BetaCoV/Shenzhen/SZTH-003/2020 (EPI_ISL_406594) (0.33)
hCoV-19/Shanghai/SH0058/2020 (0.33)
2019-nCoV/USA-CA3/2020 (MT027062) (0.33)
hCoV-19/Guangdong/20SF1153/2020 (NMDC60013108-01) (0.33)
hCoV-19/Scotland/CVR495/2020 (EPI_ISL_433305) (0.29)
hCoV-19/Scotland/CVR309/2020 (EPI_ISL_433283) (0.29)
BetaCoV/Canada/ON/VIDO-01/2020 (EPI_ISL_413015)MT3261232020-01-23 SNP:
5084: A>G (8 strain(s) in DB)
26261: C>T (2 strain(s) in DB)
28854: C>T (241 strain(s) in DB)

Deletions:
1: AATTAAAGGTTTA>- (4882 strain(s) in DB)
67: TA>T (1 strain(s) in DB)
685: AAAGTCATTT>A (30 strain(s) in DB)
29901: AAA>A (60 strain(s) in DB)

BetaCoV/Canada/ON-PHL2445/2020 (EPI_ISL_413014) (0.38)
hCoV-19/Canada/ON_PHL4181/2020 (EPI_ISL_418327) (0.38)
hCoV-19/Canada/ON-VIDO-01/2020 (EPI_ISL_425177) (0.38)
hCoV-19/Shanghai/SH0058/2020 (0.25)
BetaCoV/Shenzhen/SZTH-003/2020 (EPI_ISL_406594) (0.22)
hCoV-19/Guangdong/20SF1153/2020 (NMDC60013108-01) (0.22)
2019-nCoV/USA-CA4/2020 (MT027063) (0.22)
hCoV-19/USA/CA-CZB-1056/2020 (MT449647) (0.22)
2019-nCoV/USA-CA3/2020 (MT027062) (0.22)
BetaCoV/Foshan/20SF207/2020 (NMDC60013013-01) (0.22)
hCoV-19/USA/WA-UW-1656/2020 (MT326123) (0.21)
BetaCov/Brazil/SPBR-02/2020 (EPI_ISL_413016)EPI_ISL_4237342020-02-28 SNP:
2388: C>T (5 strain(s) in DB)
11083: G>T (1220 strain(s) in DB)
14805: C>T (875 strain(s) in DB)
17247: T>C (334 strain(s) in DB)
26144: G>T (818 strain(s) in DB)

SARS-CoV-2/human/BRA/SP02cc/2020 (MT350282) (0.83)
hCoV-19/USA/TX-HMH074/2020 (EPI_ISL_434783) (0.8)
hCoV-19/Belgium/UGent-9/2020 (EPI_ISL_425053) (0.8)
hCoV-19/Ireland/24042/2020 (EPI_ISL_418583) (0.8)
hCoV-19/England/20139047104/2020 (EPI_ISL_420692) (0.8)
hCoV-19/Australia/VIC661/2020 (MT451461) (0.8)
hCoV-19/USA/NY-NYUMC36/2020 (EPI_ISL_419697) (0.8)
hCoV-19/England/200990006/2020 (EPI_ISL_414011) (0.8)
hCoV-19/England/NOTT-10E06B/2020 (EPI_ISL_425489) (0.8)
hCoV-19/England/CAMB-74438/2020 (EPI_ISL_425290) (0.8)
hCoV-19/England/20132018804/2020 (EPI_ISL_423734) (0.8)
BetaCoV/South Korea/KUMC01/2020 (EPI_ISL_413017)EPI_ISL_4135162020-02-06 SNP:
4402: T>C (22 strain(s) in DB)
5062: G>T (22 strain(s) in DB)
26144: G>T (818 strain(s) in DB)
26640: G>T (5 strain(s) in DB)
26677: T>C (15 strain(s) in DB)
28144: T>C (1654 strain(s) in DB)

SARS-CoV-2/235/human/2020/CHN (MT135044) (0.43)
SARS-CoV-2/231/human/2020/CHN (MT135042) (0.43)
SARS-CoV-2/105/human/2020/CHN (MT135041) (0.43)
SARS-CoV-2/233/human/2020/CHN (MT135043) (0.38)
hCoV-19/Korea/KCDC2018/2020 (EPI_ISL_427812) (0.38)
BetaCoV/South Korea/KUMC02/2020 (EPI_ISL_413018) (0.33)
hCoV-19/South Korea/KUMC05/2020 (EPI_ISL_413515) (0.33)
BetaCoV/Korea/KCDC06/2020 (EPI_ISL_412870) (0.33)
SARS-CoV-2/Wuhan_IME-BJ02/human/2020/CHN (GWHACAY01000001) (0.33)
hCoV-19/South Korea/KCDC03/2020 (0.33)
hCoV-19/South Korea/KUMC06/2020 (EPI_ISL_413516) (0.33)
BetaCoV/South Korea/KUMC02/2020 (EPI_ISL_413018)EPI_ISL_4039632020-02-06 SNP:
2707: A>G (6 strain(s) in DB)
26144: G>T (818 strain(s) in DB)
26640: G>T (5 strain(s) in DB)
26677: T>C (15 strain(s) in DB)

Deletions:
1: AATTAAAGGTTTA>- (4882 strain(s) in DB)
29870: CAAAAAAAAAAAAAAAAAAA...>C (353 strain(s) in DB)

hCoV-19/Belgium/BJ-0325181/2020 (EPI_ISL_420438) (0.43)
hCoV-19/Norway/1493/2020 (EPI_ISL_417488) (0.38)
hCoV-19/Belgium/JJC-0325165/2020 (EPI_ISL_420422) (0.38)
hCoV-19/Belgium/DMM-0325180/2020 (EPI_ISL_420437) (0.38)
hCoV-19/Jian/JX169/2020 (EPI_ISL_421256) (0.38)
ICDC-DT005 (NMDC60013142-01) (0.33)
BetaCoV/South Korea/KUMC01/2020 (EPI_ISL_413017) (0.33)
hCoV-19/Australia/VIC03/2020 (MT450920) (0.33)
SARS-CoV-2/human/CHN/IME-HZ01/2020 (MT039874) (0.33)
hCoV-19/Georgia/Tb-468/2020 (EPI_ISL_415643) (0.33)
hCoV-19/Thailand/74/2020 (0.33)
BetaCoV/Switzerland/1000477102/2020 (EPI_ISL_413019)EPI_ISL_4250532020-02-26 SNP:
11083: G>T (1220 strain(s) in DB)
14805: C>T (875 strain(s) in DB)
17247: T>C (334 strain(s) in DB)
24378: C>T (6 strain(s) in DB)
26144: G>T (818 strain(s) in DB)
26894: C>T (14 strain(s) in DB)

Insertions:
11074: C>CTTT (49 strain(s) in DB)

Deletions:
29876: AAAAAAAAAAAAAAAAAAAA...>A (51 strain(s) in DB)

SARS-CoV-2/SP02/human/2020/BRA (MT126808) (0.63)
hCoV-19/England/20139047104/2020 (EPI_ISL_420692) (0.5)
hCoV-19/England/20132018904/2020 (EPI_ISL_423735) (0.5)
hCoV-19/USA/TX-HMH074/2020 (EPI_ISL_434783) (0.5)
hCoV-19/England/200990006/2020 (EPI_ISL_414011) (0.5)
hCoV-19/England/CAMB-74438/2020 (EPI_ISL_425290) (0.5)
hCoV-19/Australia/VIC179/2020 (MT451082) (0.5)
hCoV-19/Australia/VIC661/2020 (MT451461) (0.5)
hCoV-19/England/NOTT-10E06B/2020 (EPI_ISL_425489) (0.5)
hCoV-19/England/20132018804/2020 (EPI_ISL_423734) (0.5)
hCoV-19/Belgium/UGent-9/2020 (EPI_ISL_425053) (0.5)
BetaCoV/Switzerland/1000477377/2020 (EPI_ISL_413020)EPI_ISL_4263592020-02-27 SNP:
241: C>T (7669 strain(s) in DB)
3037: C>T (7693 strain(s) in DB)
3373: C>A (52 strain(s) in DB)
14408: C>T (7704 strain(s) in DB)
23403: A>G (7732 strain(s) in DB)
28881: G>A (2045 strain(s) in DB)
28882: G>A (2040 strain(s) in DB)
28883: G>C (2036 strain(s) in DB)
29422: G>T (18 strain(s) in DB)

Deletions:
29864: GAATGACAAAAAAAAAAAAA...>G (204 strain(s) in DB)

hCoV-19/Russia/25I/2020 (EPI_ISL_428851) (0.8)
SARS-CoV-2/human/CZE/CzechiaMotol_1899/2020 (MT371573) (0.73)
hCoV-19/Japan/P4-3/2020 (EPI_ISL_419303) (0.73)
hCoV-19/England/20109099206/2020 (EPI_ISL_417299) (0.73)
hCoV-19/Iceland/542/2020 (0.73)
hCoV-19/Iceland/509/2020 (0.73)
hCoV-19/Iceland/508/2020 (0.73)
hCoV-19/Czech Republic/Seq4/2020 (EPI_ISL_426357) (0.73)
hCoV-19/Czech Republic/Seq7/2020 (EPI_ISL_426360) (0.73)
hCoV-19/Japan/P4-1/2020 (EPI_ISL_419301) (0.73)
hCoV-19/Czech Republic/Seq6/2020 (EPI_ISL_426359) (0.73)
BetaCoV/Switzerland/1000477757/2020 (EPI_ISL_413021)EPI_ISL_4409662020-02-29 SNP:
241: C>T (7669 strain(s) in DB)
959: C>T (1 strain(s) in DB)
3037: C>T (7693 strain(s) in DB)
5812: C>Y (20 strain(s) in DB)
10265: G>A (16 strain(s) in DB)
14408: C>T (7704 strain(s) in DB)
23403: A>G (7732 strain(s) in DB)
27618: T>C (5 strain(s) in DB)
28881: G>A (2045 strain(s) in DB)
28882: G>A (2040 strain(s) in DB)
28883: G>C (2036 strain(s) in DB)

Deletions:
29875: AAAAAAAAAAAAAAAAAAAA...>A (78 strain(s) in DB)

hCoV-19/Scotland/CVR491/2020 (EPI_ISL_433304) (0.67)
hCoV-19/Scotland/CVR694/2020 (EPI_ISL_433326) (0.67)
hCoV-19/Denmark/ALAB-SSI384/2020 (EPI_ISL_429484) (0.67)
hCoV-19/USA/NY-NYUMC112/2020 (EPI_ISL_421724) (0.67)
SARS-CoV-2/human/GRC/12/2020 (MT328033) (0.62)
hCoV-19/Austria/CeMM0183/2020 (EPI_ISL_438025) (0.62)
hCoV-19/Austria/CeMM0160/2020 (EPI_ISL_438006) (0.62)
hCoV-19/England/20140070504/2020 (EPI_ISL_423408) (0.58)
hCoV-19/Russia/Vector_64304/2020 (EPI_ISL_428868) (0.58)
hCoV-19/England/LOND-D359E/2020 (EPI_ISL_440958) (0.58)
hCoV-19/England/LOND-D3622/2020 (EPI_ISL_440966) (0.58)
BetaCoV/Switzerland/1000477796/2020 (EPI_ISL_413022)EPI_ISL_4322272020-02-29 SNP:
241: C>T (7669 strain(s) in DB)
3037: C>T (7693 strain(s) in DB)
14408: C>T (7704 strain(s) in DB)
23403: A>G (7732 strain(s) in DB)
28881: G>A (2045 strain(s) in DB)
28882: G>A (2040 strain(s) in DB)
28883: G>C (2036 strain(s) in DB)

Deletions:
29845: TTTTAATAGCTTCTTAGGAG...>T (27 strain(s) in DB)

hCoV-19/Saudi Arabia/KAUST-Jeddah60/2020 (EPI_ISL_437497) (0.88)
hCoV-19/England/LOND-D3622/2020 (EPI_ISL_440966) (0.88)
hCoV-19/England/CAMB-74465/2020 (EPI_ISL_425292) (0.88)
hCoV-19/England/LOND-D3798/2020 (EPI_ISL_440984) (0.88)
hCoV-19/England/CAMB-7440B/2020 (EPI_ISL_425288) (0.88)
hCoV-19/England/CAMB-73CD7/2020 (EPI_ISL_433685) (0.88)
hCoV-19/England/CAMB-74386/2020 (EPI_ISL_425283) (0.88)
hCoV-19/England/CAMB-73D5C/2020 (EPI_ISL_433691) (0.88)
hCoV-19/England/LOND-D36D7/2020 (EPI_ISL_440975) (0.88)
hCoV-19/Sri Lanka/COV53/2020 (MT371048) (0.88)
hCoV-19/Wales/PHWC-27AAB/2020 (EPI_ISL_432227) (0.88)
BetaCoV/Switzerland/1000477797/2020 (EPI_ISL_413023)EPI_ISL_4322022020-02-29 SNP:
241: C>T (7669 strain(s) in DB)
313: C>T (124 strain(s) in DB)
3037: C>T (7693 strain(s) in DB)
14408: C>T (7704 strain(s) in DB)
22168: A>C (10 strain(s) in DB)
23403: A>G (7732 strain(s) in DB)
28881: G>A (2045 strain(s) in DB)
28882: G>A (2040 strain(s) in DB)
28883: G>C (2036 strain(s) in DB)

Deletions:
1: AATTAAAGGTTTATACCTTC...>- (4882 strain(s) in DB)
29837: CCATGTGATTTTAATAGCTT...>C (23 strain(s) in DB)

hCoV-19/USA/MN69-MDH69/2020 (EPI_ISL_419397) (0.83)
hCoV-19/Switzerland/GE8102/2020 (EPI_ISL_415458) (0.82)
hCoV-19/Japan/Donner26/2020 (EPI_ISL_438970) (0.75)
hCoV-19/England/CAMB-71DE5/2020 (EPI_ISL_438500) (0.75)
hCoV-19/Australia/VIC143/2020 (MT451047) (0.75)
hCov-19/Israel/ISR_IT0320/2020 (MT276598) (0.75)
hCoV-19/USA/WA-UW258/2020 (MT259250) (0.75)
hCoV-19/England/CAMB-7A7A2/2020 (EPI_ISL_441255) (0.75)
hCoV-19/Japan/Donner12/2020 (EPI_ISL_438956) (0.75)
hCoV-19/India/c32/2020 (EPI_ISL_420555) (0.75)
hCoV-19/Wales/PHWC-29E8F/2020 (EPI_ISL_432202) (0.75)
BetaCoV/Switzerland/1000477806/2020 (EPI_ISL_413024)EPI_ISL_4201902020-02-29 SNP:
241: C>T (7669 strain(s) in DB)
3037: C>T (7693 strain(s) in DB)
13647: C>Y (5 strain(s) in DB)
14408: C>T (7704 strain(s) in DB)
19839: T>C (113 strain(s) in DB)
23403: A>G (7732 strain(s) in DB)
26227: G>K (2 strain(s) in DB)
28881: G>A (2045 strain(s) in DB)
28882: G>A (2040 strain(s) in DB)
28883: G>C (2036 strain(s) in DB)

Deletions:
29871: AAAAAAAAAAAAAAAAAAAA...>A (158 strain(s) in DB)

hCoV-19/Iceland/504/2020 (0.73)
hCoV-19/England/20144037304/2020 (EPI_ISL_421946) (0.73)
hCoV-19/Switzerland/GE3895/2020 (EPI_ISL_413997) (0.67)
hCoV-19/Hungary/SRC-00777/2020 (EPI_ISL_435417) (0.67)
hCoV-19/England/LIVE-9B626/2020 (EPI_ISL_440864) (0.67)
hCoV-19/Iceland/187/2020 (0.67)
hCoV-19/England/CAMB-73A28/2020 (EPI_ISL_425268) (0.67)
hCoV-19/England/CAMB-73A46/2020 (EPI_ISL_425270) (0.67)
hCoV-19/Wales/PHWC-2A12B/2020 (EPI_ISL_432178) (0.67)
hCoV-19/Switzerland/BS0914/2020 (EPI_ISL_415701) (0.67)
hCoV-19/England/SHEF-C03F4/2020 (EPI_ISL_420190) (0.67)
BetaCoV/Australia/NSW06/2020 (EPI_ISL_413213)EPI_ISL_4132132020-02-29 SNP:
884: C>T (45 strain(s) in DB)
1397: G>A (164 strain(s) in DB)
8653: G>T (55 strain(s) in DB)
11083: G>T (1220 strain(s) in DB)
24904: C>T (15 strain(s) in DB)
28688: T>C (152 strain(s) in DB)
29742: G>T (236 strain(s) in DB)

Deletions:
1: AATTAAAGGTTTATACCTTC...>- (4882 strain(s) in DB)
29836: CCCATGTGATTTTAATAGCT...>C (754 strain(s) in DB)

BetaCoV/Australia/NSW07/2020 (EPI_ISL_413214)EPI_ISL_4132142020-02-29 SNP:
1397: G>A (164 strain(s) in DB)
11083: G>T (1220 strain(s) in DB)
28688: T>C (152 strain(s) in DB)
29374: G>A (13 strain(s) in DB)
29742: G>T (236 strain(s) in DB)

Deletions:
1: AATTAAAGGTTTATACCTTC...>- (4882 strain(s) in DB)
29836: CCCATGTGATTTTAATAGCT...>C (754 strain(s) in DB)

BetaCoV/Indonesia/NIHRD-N206/2020EPI_ISL_4132192020-03-02
hCoV-19/Scotland/CVR01/2020EPI_ISL_4132212020-03-02
BetaCoV/Japan/TK/20-31-3/2020 (EPI_ISL_413459)EPI_ISL_4192112020-02-20 SNP:
11083: G>T (1220 strain(s) in DB)
29635: C>T (24 strain(s) in DB)

Deletions:
1: AATTAAAGGTTTATACCTTC...>- (4882 strain(s) in DB)
29871: AAAAAAAAAAAAAAAAAAAA...>A (158 strain(s) in DB)

hCoV-19/Australia/NT05/2020 (MT641648) (0.75)
hCoV-19/Japan/DP0357/2020 (LC570996) (0.6)
hCoV-19/Japan/DP0588/2020 (LC571009) (0.6)
hCoV-19/Japan/DP0278/2020 (LC570985) (0.5)
hCoV-19/Japan/DP0286/2020 (LC570986) (0.5)
hCoV-19/Japan/DP0005/2020 (LC570961) (0.5)
hCoV-19/Japan/DP0764/2020 (LC571030) (0.5)
hCoV-19/Japan/DP0464/2020 (LC571002) (0.5)
WH03 (0.5)
hCoV-19/Japan/DP0703/2020 (LC571022) (0.5)
hCov-19/Israel/ISR_JP0320/2020 (EPI_ISL_419211) (0.5)
BetaCoV/Anhui/SZ005/2020 (EPI_ISL_413485)EPI_ISL_4212472020-01-24 SNP:
4: A>T (66 strain(s) in DB)
2189: C>T (2 strain(s) in DB)
3086: T>C (7 strain(s) in DB)
5094: A>G (2 strain(s) in DB)
8782: C>T (1672 strain(s) in DB)
16049: C>T (3 strain(s) in DB)
17122: G>A (6 strain(s) in DB)
28144: T>C (1654 strain(s) in DB)

Deletions:
1: AATT>- (4882 strain(s) in DB)
11082: TG>T (3 strain(s) in DB)
29864: GAATGACAAAAAAAAAAAAA...>G (204 strain(s) in DB)

BetaCoV/Korea/KCDC24/2020 (EPI_ISL_412873) (0.33)
SARS-CoV-2/human/THA/SI200468-NT/2020 (MT447158) (0.31)
hCoV-19/USA/WA-UW167/2020 (MT252699) (0.29)
hCoV-19/USA/WA-UW177/2020 (MT252714) (0.29)
hCoV-19/USA/WA-UW150/2020 (MT252740) (0.29)
hCoV-19/Saudi Arabia/KAUST-MAKKAH03/2020 (EPI_ISL_437459) (0.27)
SARS-CoV-2/WA-UW354/human/2020/USA (MT263434) (0.27)
hCoV-19/USA/WA-UW-5371/2020 (MT412261) (0.27)
hCoV-19/USA/WA-UW189/2020 (MT252703) (0.27)
hCoV-19/USA/UNKNOWN-UW-1816/2020 (MT326104) (0.27)
hCoV-19/Nanchang/JX149/2020 (EPI_ISL_421247) (0.25)
BetaCoV/Italy/UniSR1/2020 (EPI_ISL_413489)EPI_ISL_4254342020-03-03 SNP:
187: A>G (94 strain(s) in DB)
241: C>T (7669 strain(s) in DB)
3037: C>T (7693 strain(s) in DB)
6956: A>C (6 strain(s) in DB)
14408: C>T (7704 strain(s) in DB)
23403: A>G (7732 strain(s) in DB)

Deletions:
1: AATTAAA>- (4882 strain(s) in DB)
29893: AAAAAAAAAAA>A (26 strain(s) in DB)

hCoV-19/Scotland/CVR355/2020 (EPI_ISL_439063) (0.67)
hCoV-19/USA/CA-CZBRR057IX00089/2020 (MT385474) (0.67)
hCoV-19/Switzerland/TI9486/2020 (EPI_ISL_413996) (0.67)
hCoV-19/Greece/56_37161/2020 (MT459925) (0.67)
hCoV-19/England/20136085404/2020 (EPI_ISL_420636) (0.63)
hCoV-19/England/CAMB-74605/2020 (EPI_ISL_425315) (0.63)
hCoV-19/Wales/PHWC-27267/2020 (EPI_ISL_432307) (0.63)
hCoV-19/England/CAMB-73B70/2020 (EPI_ISL_433668) (0.63)
hCoV-19/Australia/VIC92/2020 (MT451002) (0.63)
hCoV-19/Scotland/EDB1073/2020 (EPI_ISL_433383) (0.63)
hCoV-19/England/CAMB-76E74/2020 (EPI_ISL_425434) (0.63)
BetaCoV/New Zealand/01/2020 (EPI_ISL_413490)EPI_ISL_4165422020-02-27 SNP:
1397: G>A (164 strain(s) in DB)
11083: G>T (1220 strain(s) in DB)
25618: G>A (1 strain(s) in DB)
28688: T>C (152 strain(s) in DB)
29742: G>T (236 strain(s) in DB)

hCoV-19/United Arab Emirates/L2409/2020 (EPI_ISL_435131) (0.8)
hCoV-19/Canada/BC_4078583/2020 (EPI_ISL_418824) (0.8)
SARS-CoV-2/human/HKG/HKU-905a/2020 (MT365028) (0.67)
hCoV-19/Canada/BC_02421/2020 (EPI_ISL_415581) (0.67)
SARS-CoV-2/human/HKG/HKU-903b/2020 (0.67)
SARS-CoV-2/human/HKG/HKU-903a/2020 (0.67)
hCoV-19/United Arab Emirates/L6627/2020 (EPI_ISL_435139) (0.67)
hCoV-19/Turkey/ERAGEM-001/2020 (EPI_ISL_424366) (0.57)
hCoV-19/Australia/VIC97/2020 (MT451007) (0.57)
hCoV-19/Australia/VIC645/2020 (MT451447) (0.57)
hCoV-19/Kuwait/KU17/2020 (EPI_ISL_416542) (0.57)
hCoV-19/Hong Kong/VM20002493/2020EPI_ISL_4134912020-02-09
hCoV-19/Hong Kong/VM20002509/2020EPI_ISL_4134922020-02-10
hCoV-19/Hong Kong/VM20002507/2020EPI_ISL_4134932020-02-10
hCoV-19/Hong Kong/VM20002508/2020EPI_ISL_4134942020-02-10
hCoV-19/Hong Kong/VM20002582/2020EPI_ISL_4134952020-02-12
hCoV-19/Hong Kong/VM20002581/2020EPI_ISL_4134962020-02-13
hCoV-19/Hong Kong/VM20002588/2020EPI_ISL_4134972020-02-13
hCoV-19/Hong Kong/VM20002663/2020EPI_ISL_4134982020-02-17
hCoV-19/South Korea/KUMC03/2020 (EPI_ISL_413513)EPI_ISL_4135132020-02-27 SNP:
4402: T>C (22 strain(s) in DB)
5062: G>T (22 strain(s) in DB)
8782: C>T (1672 strain(s) in DB)
28144: T>C (1654 strain(s) in DB)

Deletions:
1: AATTAAAGGTTTA>- (4882 strain(s) in DB)
29870: CAAAAAAAAAAAAAAAAAAA...>C (353 strain(s) in DB)

hCoV-19/South Korea/KUMC04/2020 (EPI_ISL_413514)EPI_ISL_4135142020-02-27 SNP:
4402: T>C (22 strain(s) in DB)
5062: G>T (22 strain(s) in DB)
8782: C>T (1672 strain(s) in DB)
28144: T>C (1654 strain(s) in DB)

Deletions:
1: AATTAAAGGTTTA>- (4882 strain(s) in DB)
29870: CAAAAAAAAAAAAAAAAAAA...>C (353 strain(s) in DB)

hCoV-19/South Korea/KUMC05/2020 (EPI_ISL_413515)MT1350422020-02-27 SNP:
4402: T>C (22 strain(s) in DB)
5062: G>T (22 strain(s) in DB)
8782: C>T (1672 strain(s) in DB)
28144: T>C (1654 strain(s) in DB)

Deletions:
1: AATTAAAGGTTTA>- (4882 strain(s) in DB)
29870: CAAAAAAAAAAAAAAAAAAA...>C (353 strain(s) in DB)

hCoV-19/South Korea/KUMC06/2020 (EPI_ISL_413516) (1)
hCoV-19/South Korea/KUMC03/2020 (EPI_ISL_413513) (1)
hCoV-19/South Korea/KUMC04/2020 (EPI_ISL_413514) (1)
hCoV-19/Korea/KCDC2018/2020 (EPI_ISL_427812) (0.83)
SARS-CoV-2/Wuhan_IME-BJ02/human/2020/CHN (GWHACAY01000001) (0.71)
SARS-CoV-2/Wuhan_IME-BJ03/human/2020/CHN (GWHACAZ01000001) (0.71)
BetaCoV/Korea/KCDC06/2020 (EPI_ISL_412870) (0.71)
hCoV-19/South Korea/KCDC03/2020 (0.71)
SARS-CoV-2/105/human/2020/CHN (MT135041) (0.67)
SARS-CoV-2/235/human/2020/CHN (MT135044) (0.67)
SARS-CoV-2/231/human/2020/CHN (MT135042) (0.67)
hCoV-19/South Korea/KUMC06/2020 (EPI_ISL_413516)MT1350422020-02-27 SNP:
4402: T>C (22 strain(s) in DB)
5062: G>T (22 strain(s) in DB)
8782: C>T (1672 strain(s) in DB)
28144: T>C (1654 strain(s) in DB)

Deletions:
1: AATTAAAGGTTTA>- (4882 strain(s) in DB)
29870: CAAAAAAAAAAAAAAAAAAA...>C (353 strain(s) in DB)

hCoV-19/South Korea/KUMC05/2020 (EPI_ISL_413515) (1)
hCoV-19/South Korea/KUMC03/2020 (EPI_ISL_413513) (1)
hCoV-19/South Korea/KUMC04/2020 (EPI_ISL_413514) (1)
hCoV-19/Korea/KCDC2018/2020 (EPI_ISL_427812) (0.83)
SARS-CoV-2/Wuhan_IME-BJ02/human/2020/CHN (GWHACAY01000001) (0.71)
SARS-CoV-2/Wuhan_IME-BJ03/human/2020/CHN (GWHACAZ01000001) (0.71)
BetaCoV/Korea/KCDC06/2020 (EPI_ISL_412870) (0.71)
hCoV-19/South Korea/KCDC03/2020 (0.71)
SARS-CoV-2/105/human/2020/CHN (MT135041) (0.67)
SARS-CoV-2/235/human/2020/CHN (MT135044) (0.67)
SARS-CoV-2/231/human/2020/CHN (MT135042) (0.67)
hCoV-19/Nigeria/Lagos01/2020EPI_ISL_4135502020-02-27
hCoV-19/Wales/PHW1/2020 (EPI_ISL_413555)EPI_ISL_4135552020-02-27 SNP:
241: C>T (7669 strain(s) in DB)
3037: C>T (7693 strain(s) in DB)
14408: C>T (7704 strain(s) in DB)
23403: A>G (7732 strain(s) in DB)

Deletions:
1: AATTAAAGGTTTATACCTTC...>- (4882 strain(s) in DB)
29836: CCCATGTGATTTTAATAGCT...>C (754 strain(s) in DB)

hCoV-19/Wales/PHW2/2020EPI_ISL_4135562020-03-04
hCoV-19/USA/WA11-UW7/2020EPI_ISL_4135622020-03-02
hCoV-19/USA/WA12-UW8/2020 (EPI_ISL_413563)EPI_ISL_4135632020-03-03 SNP:
8782: C>T (1672 strain(s) in DB)
9430: C>A (17 strain(s) in DB)
17747: C>T (1036 strain(s) in DB)
17858: A>G (1049 strain(s) in DB)
18060: C>T (1069 strain(s) in DB)
28144: T>C (1654 strain(s) in DB)

Deletions:
1: AATTAAA>- (4882 strain(s) in DB)

hCoV-19/Netherlands/Andel_1365066/2020EPI_ISL_4135642020-03-01
hCoV-19/Netherlands/Berlicum_1363564/2020EPI_ISL_4135652020-02-24
hCoV-19/Netherlands/Blaricum_1364780/2020 (EPI_ISL_413566)EPI_ISL_4135662020-03-02 SNP:
241: C>T (7669 strain(s) in DB)
3037: C>T (7693 strain(s) in DB)
14408: C>T (7704 strain(s) in DB)
23403: A>G (7732 strain(s) in DB)

Deletions:
1: AATTAAAGGTTTATACCTTC...>- (4882 strain(s) in DB)
29829: TGCTATCCCCATGTGATTTT...>T (405 strain(s) in DB)

hCoV-19/Netherlands/Coevorden_1363618/2020EPI_ISL_4135672020
hCoV-19/Netherlands/Dalen_1363624/2020EPI_ISL_4135682020-03-01
hCoV-19/Netherlands/Delft_1363424/2020EPI_ISL_4135692020-02-28
hCoV-19/Netherlands/Diemen_1363454/2020EPI_ISL_4135702020-02-28
hCoV-19/Netherlands/Eindhoven_1363782/2020EPI_ISL_4135712020-03-02
hCoV-19/Netherlands/Haarlem_1363688/2020 (EPI_ISL_413572)EPI_ISL_4135722020-03-01 SNP:
241: C>T (7669 strain(s) in DB)
1059: C>T (2820 strain(s) in DB)
1666: T>C (4 strain(s) in DB)
3037: C>T (7693 strain(s) in DB)
14408: C>T (7704 strain(s) in DB)
23403: A>G (7732 strain(s) in DB)
25563: G>T (3418 strain(s) in DB)

Deletions:
1: AATTAAAGGTTTATACCTTC...>- (4882 strain(s) in DB)
29829: TGCTATCCCCATGTGATTTT...>T (405 strain(s) in DB)

hCoV-19/Netherlands/Hardinxveld_Giessendam_1364806/2020 (EPI_ISL_413573)EPI_ISL_4228892020-03-02 SNP:
514: T>C (127 strain(s) in DB)
16762: C>T (14 strain(s) in DB)

Deletions:
1: AATTAAAGGTTTATACCTTC...>- (4882 strain(s) in DB)
1604: AATG>A (288 strain(s) in DB)
29829: TGCTATCCCCATGTGATTTT...>T (405 strain(s) in DB)

hCoV-19/Netherlands/NA_97/2020 (EPI_ISL_422857) (1)
hCoV-19/Netherlands/NA_88/2020 (EPI_ISL_422848) (1)
hCoV-19/Netherlands/NA_155/2020 (EPI_ISL_422690) (1)
hCov-19/Netherlands/NoordBrabant/63/2020 (EPI_ISL_415519) (0.83)
hCov-19/Netherlands/NoordBrabant/61/2020 (EPI_ISL_415517) (0.83)
hCoV-19/Netherlands/NA_135/2020 (EPI_ISL_422679) (0.83)
hCoV-19/Netherlands/Naarden_1364774/2020 (EPI_ISL_413577) (0.8)
hCov-19/Netherlands/NA/32/2020 (EPI_ISL_415489) (0.8)
hCoV-19/Netherlands/NA_207/2020 (EPI_ISL_422742) (0.8)
hCoV-19/Netherlands/NA_195/2020 (EPI_ISL_422730) (0.8)
hCoV-19/Netherlands/NoordBrabant_95/2020 (EPI_ISL_422889) (0.8)
hCoV-19/Netherlands/Helmond_1363548/2020EPI_ISL_4135742020-02-29
hCoV-19/Netherlands/Houten_1363498/2020EPI_ISL_4135752020-02-29
hCoV-19/Netherlands/Loon_op_zand_1363512/2020EPI_ISL_4135762020-02-29
hCoV-19/Netherlands/Naarden_1364774/2020 (EPI_ISL_413577)EPI_ISL_4135772020-03-02 SNP:
514: T>C (127 strain(s) in DB)

Deletions:
1: AATTAAAGGTTTATACCTTC...>- (4882 strain(s) in DB)
1604: AATG>A (288 strain(s) in DB)
29829: TGCTATCCCCATGTGATTTT...>T (405 strain(s) in DB)

hCoV-19/Netherlands/Nieuwendijk_1363582/2020EPI_ISL_4135782020-03-01
hCoV-19/Netherlands/Nootdorp_1364222/2020 (EPI_ISL_413579)EPI_ISL_4226872020-03-03 SNP:
241: C>T (7669 strain(s) in DB)
3037: C>T (7693 strain(s) in DB)
14408: C>T (7704 strain(s) in DB)
23403: A>G (7732 strain(s) in DB)
28881: G>A (2045 strain(s) in DB)
28882: G>A (2040 strain(s) in DB)
28883: G>C (2036 strain(s) in DB)

Deletions:
1: AATTAAAGGTTTATACCTTC...>- (4882 strain(s) in DB)
29829: TGCTATCCCCATGTGATTTT...>T (405 strain(s) in DB)

hCoV-19/Netherlands/Tilburg_1364286/2020 (EPI_ISL_413587) (1)
hCoV-19/Netherlands/Utrecht_21/2020 (EPI_ISL_422898) (0.9)
hCoV-19/Netherlands/NA_265/2020 (EPI_ISL_422576) (0.9)
hCov-19/Netherlands/NoordBrabant/45/2020 (EPI_ISL_415502) (0.9)
hCoV-19/Netherlands/NA_111/2020 (EPI_ISL_422659) (0.9)
hCoV-19/Netherlands/NA_284/2020 (EPI_ISL_422593) (0.9)
hCoV-19/Netherlands/ZuidHolland_22/2020 (EPI_ISL_414564) (0.9)
hCoV-19/Netherlands/NA_272/2020 (EPI_ISL_422583) (0.9)
hCov-19/Netherlands/NoordBrabant/58/2020 (EPI_ISL_415514) (0.9)
hCoV-19/Netherlands/Utrecht_13/2020 (EPI_ISL_414552) (0.9)
hCoV-19/Netherlands/NA_152/2020 (EPI_ISL_422687) (0.9)
hCoV-19/Netherlands/Oisterwijk_1364072/2020 (EPI_ISL_413580)EPI_ISL_4135802020-03-02 Deletions:
1: AATTAAAGGTTTATACCTTC...>- (4882 strain(s) in DB)
1604: AATG>A (288 strain(s) in DB)
29829: TGCTATCCCCATGTGATTTT...>T (405 strain(s) in DB)

hCoV-19/Netherlands/Oss_1363500/2020EPI_ISL_4135812020-02-29
hCoV-19/Netherlands/Rotterdam_1363790/2020 (EPI_ISL_413582)EPI_ISL_4135822020-03-01 SNP:
12621: C>T (5 strain(s) in DB)

Deletions:
1: AATTAAAGGTTTATACCTTC...>- (4882 strain(s) in DB)
1604: AATG>A (288 strain(s) in DB)
29829: TGCTATCCCCATGTGATTTT...>T (405 strain(s) in DB)

hCoV-19/Netherlands/Rotterdam_1364040/2020 (EPI_ISL_413583)EPI_ISL_4135832020-03-02 SNP:
514: T>C (127 strain(s) in DB)

Deletions:
1: AATTAAAGGTTTATACCTTC...>- (4882 strain(s) in DB)
1604: AATG>A (288 strain(s) in DB)
29829: TGCTATCCCCATGTGATTTT...>T (405 strain(s) in DB)

hCoV-19/Netherlands/Rotterdam_1364740/2020 (EPI_ISL_413584)EPI_ISL_4135842020-03-03 SNP:
241: C>T (7669 strain(s) in DB)
3037: C>T (7693 strain(s) in DB)
14408: C>T (7704 strain(s) in DB)
23403: A>G (7732 strain(s) in DB)
27046: C>T (266 strain(s) in DB)
28881: G>A (2045 strain(s) in DB)
28882: G>A (2040 strain(s) in DB)
28883: G>C (2036 strain(s) in DB)

Deletions:
1: AATTAAAGGTTTATACCTTC...>- (4882 strain(s) in DB)
29829: TGCTATCCCCATGTGATTTT...>T (405 strain(s) in DB)

hCoV-19/Netherlands/Tilburg_/2020EPI_ISL_4135852020
hCoV-19/Netherlands/Tilburg_1363354/2020EPI_ISL_4135862020-02-27
hCoV-19/Netherlands/Tilburg_1364286/2020 (EPI_ISL_413587)EPI_ISL_4226872020-03-03 SNP:
241: C>T (7669 strain(s) in DB)
3037: C>T (7693 strain(s) in DB)
14408: C>T (7704 strain(s) in DB)
23403: A>G (7732 strain(s) in DB)
28881: G>A (2045 strain(s) in DB)
28882: G>A (2040 strain(s) in DB)
28883: G>C (2036 strain(s) in DB)

Deletions:
1: AATTAAAGGTTTATACCTTC...>- (4882 strain(s) in DB)
29829: TGCTATCCCCATGTGATTTT...>T (405 strain(s) in DB)

hCoV-19/Netherlands/Nootdorp_1364222/2020 (EPI_ISL_413579) (1)
hCoV-19/Netherlands/Utrecht_21/2020 (EPI_ISL_422898) (0.9)
hCoV-19/Netherlands/NA_265/2020 (EPI_ISL_422576) (0.9)
hCov-19/Netherlands/NoordBrabant/45/2020 (EPI_ISL_415502) (0.9)
hCoV-19/Netherlands/NA_111/2020 (EPI_ISL_422659) (0.9)
hCoV-19/Netherlands/NA_284/2020 (EPI_ISL_422593) (0.9)
hCoV-19/Netherlands/ZuidHolland_22/2020 (EPI_ISL_414564) (0.9)
hCoV-19/Netherlands/NA_272/2020 (EPI_ISL_422583) (0.9)
hCov-19/Netherlands/NoordBrabant/58/2020 (EPI_ISL_415514) (0.9)
hCoV-19/Netherlands/Utrecht_13/2020 (EPI_ISL_414552) (0.9)
hCoV-19/Netherlands/NA_152/2020 (EPI_ISL_422687) (0.9)
hCoV-19/Netherlands/Utrecht_1363564/2020EPI_ISL_4135882020-03-01
hCoV-19/Netherlands/Utrecht_1363628/2020 (EPI_ISL_413589)EPI_ISL_4229202020-03-01 SNP:
241: C>T (7669 strain(s) in DB)
2527: G>T (9 strain(s) in DB)
3037: C>T (7693 strain(s) in DB)
6428: C>T (1 strain(s) in DB)
11083: G>T (1220 strain(s) in DB)
14408: C>T (7704 strain(s) in DB)
23403: A>G (7732 strain(s) in DB)
25575: A>C (8 strain(s) in DB)

Deletions:
1: AATTAAAGGTTTATACCTTC...>- (4882 strain(s) in DB)
29829: TGCTATCCCCATGTGATTTT...>T (405 strain(s) in DB)

hCoV-19/Wales/PHWC-27504/2020 (EPI_ISL_432293) (0.7)
hCoV-19/Wales/PHWC-27513/2020 (EPI_ISL_432266) (0.7)
hCoV-19/Wales/PHWC-274CB/2020 (EPI_ISL_432316) (0.7)
hCoV-19/Netherlands/ZuidHolland_98/2020 (EPI_ISL_422634) (0.7)
hCoV-19/Netherlands/Blaricum_1364780/2020 (EPI_ISL_413566) (0.6)
hCoV-19/Netherlands/Zeewolde_1365080/2020 (EPI_ISL_413591) (0.6)
hCoV-19/Netherlands/Utrecht_11/2020 (EPI_ISL_414443) (0.6)
hCoV-19/Netherlands/Gelderland_6/2020 (EPI_ISL_422642) (0.6)
hCoV-19/USA/NY-PV08462/2020 (MT370869) (0.58)
hCoV-19/Netherlands/NA_257/2020 (EPI_ISL_422791) (0.55)
hCoV-19/Netherlands/ZuidHolland_52/2020 (EPI_ISL_422920) (0.55)
hCoV-19/Netherlands/Utrecht_1364066/2020 (EPI_ISL_413590)EPI_ISL_4135902020-03-02 Deletions:
1: AATTAAAGGTTTATACCTTC...>- (4882 strain(s) in DB)
1604: AATG>A (288 strain(s) in DB)
29829: TGCTATCCCCATGTGATTTT...>T (405 strain(s) in DB)

hCoV-19/Netherlands/Zeewolde_1365080/2020 (EPI_ISL_413591)EPI_ISL_4135912020-03-02 SNP:
241: C>T (7669 strain(s) in DB)
3037: C>T (7693 strain(s) in DB)
14408: C>T (7704 strain(s) in DB)
23403: A>G (7732 strain(s) in DB)

Deletions:
1: AATTAAAGGTTTATACCTTC...>- (4882 strain(s) in DB)
29829: TGCTATCCCCATGTGATTTT...>T (405 strain(s) in DB)

hCoV-19/Taiwan/NTU03/2020 (EPI_ISL_413592)EPI_ISL_4203022020-03-02 SNP:
241: C>T (7669 strain(s) in DB)
3037: C>T (7693 strain(s) in DB)
14408: C>T (7704 strain(s) in DB)
15857: C>Y (7 strain(s) in DB)
18877: C>T (375 strain(s) in DB)
23403: A>G (7732 strain(s) in DB)
25563: G>T (3418 strain(s) in DB)
26211: G>K (12 strain(s) in DB)

Deletions:
29870: CAAAAAAAAAAAAAAAAAAA...>C (353 strain(s) in DB)

hCoV-19/Taiwan/NTU08/2020 (EPI_ISL_422411) (0.78)
hCoV-19/USA/VA-DCLS-0054/2020 (MT350244) (0.7)
hCoV-19/USA/VA-DCLS-0009/2020 (MT322402) (0.7)
hCoV-19/USA/TX-HMH076/2020 (EPI_ISL_434785) (0.67)
hCoV-19/USA/WI-63/2020 (EPI_ISL_421321) (0.67)
hCoV-19/USA/WI-52/2020 (EPI_ISL_421310) (0.67)
hCoV-19/USA/NY-NYUMC270/2020 (EPI_ISL_428784) (0.67)
hCoV-19/USA/NY-NYUMC3/2020 (EPI_ISL_416831) (0.67)
hCoV-19/Australia/VIC606/2020 (MT451415) (0.67)
hCoV-19/Canada/BC_6129127/2020 (EPI_ISL_418837) (0.67)
hCoV-19/USA/NY-NYUMC51/2020 (EPI_ISL_420302) (0.67)
hCoV-19/Luxemburg/Lux1/2020 (EPI_ISL_413593)EPI_ISL_4135932020-02-29 SNP:
241: C>T (7669 strain(s) in DB)
3037: C>T (7693 strain(s) in DB)
14408: C>T (7704 strain(s) in DB)
23403: A>G (7732 strain(s) in DB)
23575: C>T (28 strain(s) in DB)

Deletions:
1: AATTAAAGGTTTATACCTTC...>- (4882 strain(s) in DB)
29829: TGCTATCCCCATGTGATTTT...>T (405 strain(s) in DB)

hCoV-19/Australia/NSW08/2020 (EPI_ISL_413594)LC5709872020-02-28 SNP:
25323: G>T (2 strain(s) in DB)

Deletions:
1: AATTAAAGGTTTATACCTTC...>- (4882 strain(s) in DB)
29674: GCAATCTTTAATCAGTGTGT...>G (54 strain(s) in DB)

hCoV-19/Australia/NSW10/2020 (EPI_ISL_413596) (0.75)
hCoV-19/Australia/NSW62/2020 (EPI_ISL_417412) (0.33)
hCoV-19/Korea/KCDC2004/2020 (EPI_ISL_426164) (0.33)
hCoV-19/Australia/NSW39/2020 (EPI_ISL_417397) (0.33)
hCoV-19/Korea/KCDC2007/2020 (EPI_ISL_426169) (0.33)
hCoV-19/USA/SEARCH-0016-SAN/2020 (MT598173) (0.33)
BetaCoV/Singapore/4/2020 (EPI_ISL_410535) (0.33)
hCoV-19/Australia/NSW52/2020 (EPI_ISL_417405) (0.29)
hCoV-19/JOR/SEARCH-0056-JOR/2020 (MT811564) (0.29)
hCoV-19/Australia/NSW41/2020 (EPI_ISL_417399) (0.29)
hCoV-19/Japan/DP0287/2020 (LC570987) (0.29)
hCoV-19/Australia/NSW09/2020 (EPI_ISL_413595)EPI_ISL_4174842020-02-28 SNP:
884: C>T (45 strain(s) in DB)
1397: G>A (164 strain(s) in DB)
8653: G>T (55 strain(s) in DB)
11083: G>T (1220 strain(s) in DB)
24381: C>T (3 strain(s) in DB)
28457: G>A (2 strain(s) in DB)
28688: T>C (152 strain(s) in DB)
29627: C>T (5 strain(s) in DB)

Deletions:
1: AATTAAAGGTTTATACCTTC...>- (4882 strain(s) in DB)
29674: GCAATCTTTAATCAGTGTGT...>G (54 strain(s) in DB)

hCoV-19/Australia/NSW12/2020 (EPI_ISL_413598) (1)
hCoV-19/Australia/NSW11/2020 (EPI_ISL_413597) (0.7)
hCoV-19/Turkey/HSGM-11518/2020 (EPI_ISL_429872) (0.55)
hCoV-19/Turkey/HSGM-1450/2020 (EPI_ISL_437306) (0.5)
hCoV-19/Turkey/HSGM-8010/2020 (EPI_ISL_428722) (0.5)
hCoV-19/Turkey/HSGM-1468/2020 (EPI_ISL_437312) (0.5)
hCoV-19/Turkey/HSGM-4598/2020 (EPI_ISL_429868) (0.46)
BetaCoV/Australia/NSW06/2020 (EPI_ISL_413213) (0.46)
hCoV-19/Australia/NSW24/2020 (EPI_ISL_417387) (0.46)
hCoV-19/India/1616/2020 (EPI_ISL_421669) (0.43)
hCoV-19/Norway/1380/2020 (EPI_ISL_417484) (0.43)
hCoV-19/Australia/NSW10/2020 (EPI_ISL_413596)EPI_ISL_4261642020-02-28 SNP:
18351: T>Y (1 strain(s) in DB)
25323: G>T (2 strain(s) in DB)

Deletions:
1: AATTAAAGGTTTATACCTTC...>- (4882 strain(s) in DB)
29674: GCAATCTTTAATCAGTGTGT...>G (54 strain(s) in DB)

hCoV-19/Australia/NSW08/2020 (EPI_ISL_413594) (0.75)
hCoV-19/Australia/NSW39/2020 (EPI_ISL_417397) (0.29)
hCoV-19/USA/SEARCH-0016-SAN/2020 (MT598173) (0.29)
hCoV-19/Australia/NSW62/2020 (EPI_ISL_417412) (0.29)
BetaCoV/Singapore/4/2020 (EPI_ISL_410535) (0.29)
hCoV-19/JOR/SEARCH-0056-JOR/2020 (MT811564) (0.25)
hCoV-19/JOR/SEARCH-0037-JOR/2020 (MT811549) (0.25)
hCoV-19/Korea/KCDC2007/2020 (EPI_ISL_426169) (0.25)
hCoV-19/Japan/DP0287/2020 (LC570987) (0.25)
hCoV-19/Australia/NSW52/2020 (EPI_ISL_417405) (0.25)
hCoV-19/Korea/KCDC2004/2020 (EPI_ISL_426164) (0.25)
hCoV-19/Australia/NSW11/2020 (EPI_ISL_413597)EPI_ISL_4135972020-03-02 SNP:
884: C>T (45 strain(s) in DB)
1397: G>A (164 strain(s) in DB)
8653: G>T (55 strain(s) in DB)
11083: G>T (1220 strain(s) in DB)
28688: T>C (152 strain(s) in DB)

Deletions:
1: AATTAAAGGTTTATACCTTC...>- (4882 strain(s) in DB)
29674: GCAATCTTTAATCAGTGTGT...>G (54 strain(s) in DB)

hCoV-19/Australia/NSW12/2020 (EPI_ISL_413598)EPI_ISL_4135982020-03-04 SNP:
884: C>T (45 strain(s) in DB)
1397: G>A (164 strain(s) in DB)
8653: G>T (55 strain(s) in DB)
11083: G>T (1220 strain(s) in DB)
24381: C>T (3 strain(s) in DB)
28457: G>A (2 strain(s) in DB)
28688: T>C (152 strain(s) in DB)
29627: C>T (5 strain(s) in DB)

Deletions:
1: AATTAAAGGTTTATACCTTC...>- (4882 strain(s) in DB)
29674: GCAATCTTTAATCAGTGTGT...>G (54 strain(s) in DB)

hCoV-19/Australia/NSW13/2020 (EPI_ISL_413599)EPI_ISL_4173862020-03-04 SNP:
1397: G>A (164 strain(s) in DB)
2113: C>T (41 strain(s) in DB)
11083: G>T (1220 strain(s) in DB)
18928: C>T (9 strain(s) in DB)
26213: C>Y (1 strain(s) in DB)
28688: T>C (152 strain(s) in DB)
29374: G>A (13 strain(s) in DB)

Deletions:
1: AATTAAAGGTTTATACCTTC...>- (4882 strain(s) in DB)
29674: GCAATCTTTAATCAGTGTGT...>G (54 strain(s) in DB)

hCoV-19/Australia/NSW40/2020 (EPI_ISL_417398) (0.73)
hCoV-19/Australia/NSW35/2020 (EPI_ISL_417393) (0.67)
hCoV-19/Australia/NSW15/2020 (EPI_ISL_417383) (0.64)
hCoV-19/Australia/NSW31/2020 (EPI_ISL_417392) (0.58)
hCoV-19/Australia/NSW28/2020 (EPI_ISL_417391) (0.54)
hCoV-19/Australia/NSW26/2020 (EPI_ISL_417389) (0.54)
BetaCoV/Australia/NSW07/2020 (EPI_ISL_413214) (0.45)
hCoV-19/Australia/NSW14/2020 (EPI_ISL_413600) (0.45)
hCoV-19/Australia/NSW11/2020 (EPI_ISL_413597) (0.45)
hCoV-19/Australia/QLD09/2020 (EPI_ISL_414414) (0.42)
hCoV-19/Australia/NSW21/2020 (EPI_ISL_417386) (0.42)
hCoV-19/Australia/NSW14/2020 (EPI_ISL_413600)EPI_ISL_4135982020-03-03 SNP:
1397: G>A (164 strain(s) in DB)
4255: G>A (50 strain(s) in DB)
11083: G>T (1220 strain(s) in DB)
20047: A>G (3 strain(s) in DB)
28688: T>C (152 strain(s) in DB)

Deletions:
1: AATTAAAGGTTTATACCTTC...>- (4882 strain(s) in DB)
29674: GCAATCTTTAATCAGTGTGT...>G (54 strain(s) in DB)

BetaCoV/Australia/NSW05/2020 (EPI_ISL_412975) (0.67)
hCoV-19/Australia/NSW11/2020 (EPI_ISL_413597) (0.56)
hCoV-19/Australia/NSW13/2020 (EPI_ISL_413599) (0.45)
hCoV-19/Australia/VIC58/2020 (MT450973) (0.44)
hCoV-19/Australia/VIC66/2020 (MT450980) (0.44)
hCoV-19/Australia/VIC97/2020 (MT451007) (0.44)
hCoV-19/Kuwait/KU17/2020 (EPI_ISL_416542) (0.44)
hCoV-19/Australia/NSW53/2020 (EPI_ISL_417406) (0.42)
hCoV-19/Australia/NSW09/2020 (EPI_ISL_413595) (0.42)
hCoV-19/Australia/NSW40/2020 (EPI_ISL_417398) (0.42)
hCoV-19/Australia/NSW12/2020 (EPI_ISL_413598) (0.42)
hCoV-19/USA/WA13-UW9/2020EPI_ISL_4136012020-03-02
hCoV-19/Finland/FIN03032020A/2020 (EPI_ISL_413602)EPI_ISL_4300712020-03-03 SNP:
241: C>T (7669 strain(s) in DB)
3037: C>T (7693 strain(s) in DB)
14408: C>T (7704 strain(s) in DB)
22865: G>T (1 strain(s) in DB)
23403: A>G (7732 strain(s) in DB)
29585: C>T (16 strain(s) in DB)

Deletions:
29808: GTGTAAAATTAATTTTAGTA...>G (7 strain(s) in DB)

hCoV-19/Italy/INMI3/2020 (MT525950) (0.63)
hCoV-19/Finland/14M77/2020 (EPI_ISL_418410) (0.63)
hCoV-19/Saudi Arabia/KAUST-JEDDAH61/2020 (EPI_ISL_437754) (0.57)
hCoV-19/Germany/BAV-MVP0095/2020 (EPI_ISL_437287) (0.57)
hCoV-19/Scotland/EDB022/2020 (EPI_ISL_425828) (0.57)
hCoV-19/Scotland/EDB021/2020 (EPI_ISL_425827) (0.57)
hCoV-19/Scotland/EDB020/2020 (EPI_ISL_425826) (0.57)
hCoV-19/Australia/VIC652/2020 (MT451452) (0.57)
hCoV-19/England/20104007503/2020 (EPI_ISL_417227) (0.57)
hCoV-19/India/GBRC2/2020 (MT435079) (0.57)
hCoV-19/Russia/StPetersburg-RII4936S/2020 (EPI_ISL_430071) (0.57)
hCoV-19/Finland/FIN03032020B/2020 (EPI_ISL_413603)EPI_ISL_4226532020-03-03 SNP:
11083: G>T (1220 strain(s) in DB)
14805: C>T (875 strain(s) in DB)
26144: G>T (818 strain(s) in DB)
29405: G>C (4 strain(s) in DB)

Deletions:
1: AATT>- (4882 strain(s) in DB)
29838: CATGTGATTTTAATAGCTTC...>C (10 strain(s) in DB)

hCoV-19/Australia/VIC327/2020 (MT451219) (0.57)
hCoV-19/Australia/VIC152/2020 (MT451056) (0.57)
hCoV-19/Australia/VIC169/2020 (MT451072) (0.57)
hCoV-19/Korea/KCDC2019/2020 (EPI_ISL_427813) (0.57)
hCoV-19/Australia/VIC328/2020 (MT451220) (0.57)
hCoV-19/Australia/VIC301/2020 (MT451193) (0.57)
hCoV-19/Australia/VIC70/2020 (MT450984) (0.57)
hCoV-19/Netherlands/NA_230/2020 (EPI_ISL_422765) (0.5)
hCoV-19/Korea/KCDC2017/2020 (EPI_ISL_427811) (0.5)
hCoV-19/Australia/NSW76/2020 (EPI_ISL_427704) (0.5)
hCoV-19/Netherlands/NA_104/2020 (EPI_ISL_422653) (0.5)
hCoV-19/Finland/FIN03032020C/2020 (EPI_ISL_413604)EPI_ISL_4294992020-03-03 SNP:
241: C>T (7669 strain(s) in DB)
3037: C>T (7693 strain(s) in DB)
14408: C>T (7704 strain(s) in DB)
23403: A>G (7732 strain(s) in DB)
27046: C>T (266 strain(s) in DB)
28881: G>A (2045 strain(s) in DB)
28882: G>A (2040 strain(s) in DB)
28883: G>C (2036 strain(s) in DB)

Indels:
29807: TGTGTAAAATTAATTTTAGT...>C (4 strain(s) in DB)

hCoV-19/Portugal/CV62/2020 (EPI_ISL_413647) (0.89)
hCoV-19/England/20108006003/2020 (EPI_ISL_417252) (0.89)
hCoV-19/Iceland/37/2020 (0.89)
hCoV-19/Denmark/ALAB-SSI-619/2020 (EPI_ISL_437000) (0.89)
hCoV-19/Scotland/EDB168/2020 (EPI_ISL_425925) (0.89)
hCoV-19/Denmark/ALAB-SSI365/2020 (EPI_ISL_429473) (0.89)
hCoV-19/Scotland/CVR1751/2020 (EPI_ISL_433658) (0.89)
hCoV-19/Iceland/22/2020 (0.89)
hCoV-19/Russia/Vector_71605/2020 (EPI_ISL_428872) (0.89)
hCoV-19/Scotland/EDB234/2020 (EPI_ISL_425952) (0.89)
hCoV-19/Denmark/ALAB-SSI405/2020 (EPI_ISL_429499) (0.89)
hCoV-19/Finland/FIN01032020/2020EPI_ISL_4136052020-03-01
hCoV-19/Portugal/CV62/2020 (EPI_ISL_413647)EPI_ISL_4136472020-03-01 SNP:
241: C>T (7669 strain(s) in DB)
3037: C>T (7693 strain(s) in DB)
14408: C>T (7704 strain(s) in DB)
23403: A>G (7732 strain(s) in DB)
27046: C>T (266 strain(s) in DB)
28881: G>A (2045 strain(s) in DB)
28882: G>A (2040 strain(s) in DB)
28883: G>C (2036 strain(s) in DB)

hCoV-19/Portugal/CV63/2020 (EPI_ISL_413648)MT4153212020-03-01 SNP:
241: C>T (7669 strain(s) in DB)
3037: C>T (7693 strain(s) in DB)
14408: C>T (7704 strain(s) in DB)
23403: A>G (7732 strain(s) in DB)
29144: C>T (35 strain(s) in DB)

hCoV-19/England/SHEF-CA0B7/2020 (EPI_ISL_432481) (0.8)
hCoV-19/Australia/VIC682/2020 (MT451478) (0.8)
hCoV-19/USA/NY-NYUMC70/2020 (EPI_ISL_420586) (0.8)
hCoV-19/Russia/Vector_73406/2020 (EPI_ISL_428885) (0.8)
hCoV-19/Wales/PHWC-27C1E/2020 (EPI_ISL_432238) (0.8)
hCoV-19/Italy/CDG1/2020 (0.8)
hCoV-19/England/20132081104/2020 (EPI_ISL_423809) (0.8)
hCoV-19/Belgium/UGent-25/2020 (EPI_ISL_425064) (0.8)
hCoV-19/England/NOTT-10E5F3/2020 (EPI_ISL_425570) (0.8)
hCoV-19/Germany/BAV-MVP0015/2020 (EPI_ISL_437216) (0.8)
SARS-CoV-2/human/IND/GMCKN318/2020 (MT415321) (0.8)
hCoV-19/USA/WA14-UW10/2020EPI_ISL_4136492020-03-05
hCoV-19/USA/WA15-UW11/2020 (EPI_ISL_413650)EPI_ISL_4136502020-03-05 SNP:
1: A>T (4882 strain(s) in DB)
8782: C>T (1672 strain(s) in DB)
17747: C>T (1036 strain(s) in DB)
17858: A>G (1049 strain(s) in DB)
18060: C>T (1069 strain(s) in DB)
23010: T>C (29 strain(s) in DB)
28144: T>C (1654 strain(s) in DB)

hCoV-19/USA/WA16-UW12/2020 (EPI_ISL_413651)EPI_ISL_4136512020-03-05 SNP:
1: A>T (4882 strain(s) in DB)
3: T>G (52 strain(s) in DB)
8782: C>T (1672 strain(s) in DB)
17747: C>T (1036 strain(s) in DB)
17858: A>G (1049 strain(s) in DB)
18060: C>T (1069 strain(s) in DB)
23010: T>C (29 strain(s) in DB)
28144: T>C (1654 strain(s) in DB)

hCoV-19/USA/WA17-UW13/2020EPI_ISL_4136522020-03-05
hCoV-19/USA/WA18-UW14/2020 (EPI_ISL_413653)EPI_ISL_4136532020-03-05 SNP:
1: A>T (4882 strain(s) in DB)
6: A>T (19 strain(s) in DB)
8782: C>T (1672 strain(s) in DB)
17747: C>T (1036 strain(s) in DB)
17858: A>G (1049 strain(s) in DB)
18060: C>T (1069 strain(s) in DB)
28144: T>C (1654 strain(s) in DB)

hCoV-19/Switzerland/TI9486/2020 (EPI_ISL_413996)EPI_ISL_4139962020-02-24 SNP:
187: A>G (94 strain(s) in DB)
241: C>T (7669 strain(s) in DB)
3037: C>T (7693 strain(s) in DB)
14408: C>T (7704 strain(s) in DB)
23403: A>G (7732 strain(s) in DB)

Deletions:
1: AATTAAAG>- (4882 strain(s) in DB)
29879: AAAAAAAAAAAAAAAAAAAA...>A (37 strain(s) in DB)

hCoV-19/Switzerland/GE3895/2020 (EPI_ISL_413997)EPI_ISL_4139972020-02-26 SNP:
241: C>T (7669 strain(s) in DB)
3037: C>T (7693 strain(s) in DB)
14408: C>T (7704 strain(s) in DB)
19839: T>C (113 strain(s) in DB)
23403: A>G (7732 strain(s) in DB)
28881: G>A (2045 strain(s) in DB)
28882: G>A (2040 strain(s) in DB)
28883: G>C (2036 strain(s) in DB)

Deletions:
1: AATTAAAGGTTTAT>- (4882 strain(s) in DB)

hCoV-19/Switzerland/AG0361/2020 (EPI_ISL_413999)EPI_ISL_4174912020-02-27 SNP:
241: C>T (7669 strain(s) in DB)
3037: C>T (7693 strain(s) in DB)
14408: C>T (7704 strain(s) in DB)
20398: G>A (4 strain(s) in DB)
23403: A>G (7732 strain(s) in DB)
26530: A>G (128 strain(s) in DB)

Deletions:
1: AATTAAAGGTTT>- (4882 strain(s) in DB)
29898: AAAAAA>A (33 strain(s) in DB)

hCoV-19/Australia/VIC54/2020 (MT450969) (0.75)
hCoV-19/Australia/VIC192/2020 (MT451094) (0.75)
hCoV-19/Australia/VIC44/2020 (MT450959) (0.75)
hCoV-19/Australia/VIC62/2020 (MT450977) (0.75)
hCoV-19/Australia/VIC398/2020 (MT451281) (0.75)
hCoV-19/Norway/1955/2020 (EPI_ISL_420146) (0.75)
hCoV-19/Portugal/PT0005/2020 (EPI_ISL_417989) (0.7)
hCoV-19/Lithuania/ChVir1632/2020 (EPI_ISL_416741) (0.67)
hCoV-19/Australia/QLDID923/2020 (EPI_ISL_418801) (0.67)
hCoV-19/Norway/1953/2020 (EPI_ISL_420313) (0.67)
hCoV-19/Italy/UnivPM1/2020 (EPI_ISL_417491) (0.67)
hCoV-19/England/200940527/2020 (EPI_ISL_414005)EPI_ISL_4238412020-02-25 SNP:
2480: A>G (278 strain(s) in DB)
2558: C>T (299 strain(s) in DB)
11171: C>Y (6 strain(s) in DB)
14805: C>T (875 strain(s) in DB)
21072: T>C (3 strain(s) in DB)
26144: G>T (818 strain(s) in DB)

hCoV-19/England/200990725/2020 (EPI_ISL_414007) (0.83)
hCoV-19/England/200990724/2020 (EPI_ISL_414006) (0.83)
BetaCoV/England/03/2020 (EPI_ISL_412116) (0.67)
hCoV-19/England/20122119302/2020 (EPI_ISL_418680) (0.57)
hCoV-19/England/SHEF-C0224/2020 (EPI_ISL_420211) (0.57)
hCoV-19/Scotland/EDB137/2020 (EPI_ISL_439148) (0.57)
hCoV-19/England/CAMB-74614/2020 (EPI_ISL_425316) (0.57)
hCoV-19/England/20134021104/2020 (EPI_ISL_423113) (0.57)
hCoV-19/England/CAMB-76D3B/2020 (EPI_ISL_425424) (0.57)
hCoV-19/Scotland/EDB1096/2020 (EPI_ISL_433392) (0.57)
hCoV-19/England/20132106104/2020 (EPI_ISL_423841) (0.57)
hCoV-19/England/200990724/2020 (EPI_ISL_414006)EPI_ISL_4240242020-02-28 SNP:
2480: A>G (278 strain(s) in DB)
2558: C>T (299 strain(s) in DB)
14805: C>T (875 strain(s) in DB)
21072: T>C (3 strain(s) in DB)
26144: G>T (818 strain(s) in DB)

hCoV-19/England/200990725/2020 (EPI_ISL_414007) (1)
hCoV-19/England/200940527/2020 (EPI_ISL_414005) (0.83)
BetaCoV/England/03/2020 (EPI_ISL_412116) (0.8)
hCoV-19/England/20109056906/2020 (EPI_ISL_417282) (0.67)
hCoV-19/England/20122119302/2020 (EPI_ISL_418680) (0.67)
hCoV-19/Scotland/EDB137/2020 (EPI_ISL_439148) (0.67)
hCoV-19/England/CAMB-76D3B/2020 (EPI_ISL_425424) (0.67)
hCoV-19/Wales/PHWC-2516C/2020 (EPI_ISL_420974) (0.67)
hCoV-19/Scotland/EDB1096/2020 (EPI_ISL_433392) (0.67)
hCoV-19/England/20134024104/2020 (EPI_ISL_423126) (0.67)
hCoV-19/England/20129033804/2020 (EPI_ISL_424024) (0.67)
hCoV-19/England/200990725/2020 (EPI_ISL_414007)EPI_ISL_4240242020-02-28 SNP:
2480: A>G (278 strain(s) in DB)
2558: C>T (299 strain(s) in DB)
14805: C>T (875 strain(s) in DB)
21072: T>C (3 strain(s) in DB)
26144: G>T (818 strain(s) in DB)

hCoV-19/England/200990724/2020 (EPI_ISL_414006) (1)
hCoV-19/England/200940527/2020 (EPI_ISL_414005) (0.83)
BetaCoV/England/03/2020 (EPI_ISL_412116) (0.8)
hCoV-19/England/20109056906/2020 (EPI_ISL_417282) (0.67)
hCoV-19/England/20122119302/2020 (EPI_ISL_418680) (0.67)
hCoV-19/Scotland/EDB137/2020 (EPI_ISL_439148) (0.67)
hCoV-19/England/CAMB-76D3B/2020 (EPI_ISL_425424) (0.67)
hCoV-19/Wales/PHWC-2516C/2020 (EPI_ISL_420974) (0.67)
hCoV-19/Scotland/EDB1096/2020 (EPI_ISL_433392) (0.67)
hCoV-19/England/20134024104/2020 (EPI_ISL_423126) (0.67)
hCoV-19/England/20129033804/2020 (EPI_ISL_424024) (0.67)
hCoV-19/England/200960041/2020 (EPI_ISL_414008)MT6417102020-02-27 SNP:
1397: G>A (164 strain(s) in DB)
11083: G>T (1220 strain(s) in DB)
12249: C>T (1 strain(s) in DB)
21641: G>K (8 strain(s) in DB)
21658: C>T (14 strain(s) in DB)
28688: T>C (152 strain(s) in DB)
29742: G>T (236 strain(s) in DB)

hCoV-19/Canada/BC_4078583/2020 (EPI_ISL_418824) (0.57)
hCoV-19/United Arab Emirates/L2409/2020 (EPI_ISL_435131) (0.57)
hCoV-19/Canada/BC_02421/2020 (EPI_ISL_415581) (0.5)
SARS-CoV-2/human/HKG/HKU-905a/2020 (MT365028) (0.5)
BetaCoV/New Zealand/01/2020 (EPI_ISL_413490) (0.5)
SARS-CoV-2/human/HKG/HKU-903a/2020 (0.5)
hCoV-19/United Arab Emirates/L6627/2020 (EPI_ISL_435139) (0.5)
SARS-CoV-2/human/HKG/HKU-903b/2020 (0.5)
hCoV-19/Australia/VIC879/2020 (MT451616) (0.45)
hCoV-19/Australia/VIC1334/2020 (MT641752) (0.45)
hCoV-19/Australia/VIC878/2020 (MT641710) (0.45)
hCoV-19/England/200960515/2020 (EPI_ISL_414009)EPI_ISL_4185832020-02-25 SNP:
10741: C>T (13 strain(s) in DB)
14805: C>T (875 strain(s) in DB)
26144: G>T (818 strain(s) in DB)

hCoV-19/England/SHEF-CD97D/2020 (EPI_ISL_432551) (0.5)
hCoV-19/USA/WA-S413/2020 (MT633044) (0.5)
hCoV-19/England/SHEF-C2626/2020 (EPI_ISL_432746) (0.5)
hCoV-19/England/SHEF-C426C/2020 (EPI_ISL_432786) (0.5)
hCoV-19/England/SHEF-C0163/2020 (EPI_ISL_420255) (0.5)
SARS-CoV-2/human/USA/MA_1355/2020 (MT325634) (0.4)
hCoV-19/Australia/VIC661/2020 (MT451461) (0.4)
hCoV-19/England/NOTT-10E14A/2020 (EPI_ISL_425502) (0.4)
hCoV-19/England/20132018904/2020 (EPI_ISL_423735) (0.4)
hCoV-19/England/CAMB-74438/2020 (EPI_ISL_425290) (0.4)
hCoV-19/Ireland/24042/2020 (EPI_ISL_418583) (0.4)
hCoV-19/England/200981386/2020EPI_ISL_4140102020-02-26
hCoV-19/England/200990006/2020 (EPI_ISL_414011)EPI_ISL_4140112020-02-26 SNP:
11083: G>T (1220 strain(s) in DB)
14805: C>T (875 strain(s) in DB)
17247: T>C (334 strain(s) in DB)
26144: G>T (818 strain(s) in DB)

hCoV-19/England/200990723/2020 (EPI_ISL_414012)EPI_ISL_4338162020-02-27 SNP:
241: C>T (7669 strain(s) in DB)
3037: C>T (7693 strain(s) in DB)
11842: G>A (7 strain(s) in DB)
14408: C>T (7704 strain(s) in DB)
23403: A>G (7732 strain(s) in DB)
28881: G>A (2045 strain(s) in DB)
28882: G>A (2040 strain(s) in DB)
28883: G>C (2036 strain(s) in DB)

hCoV-19/England/LOND-D3E66/2020 (EPI_ISL_441042) (0.88)
hCoV-19/England/CAMB-78ABA/2020 (EPI_ISL_433812) (0.88)
hCoV-19/England/CAMB-7377C/2020 (EPI_ISL_425234) (0.88)
hCoV-19/England/CAMB-737C7/2020 (EPI_ISL_425239) (0.88)
hCoV-19/England/LOND-D359E/2020 (EPI_ISL_440958) (0.88)
hCoV-19/Russia/Vector_87104/2020 (EPI_ISL_428914) (0.88)
hCoV-19/England/20139060504/2020 (EPI_ISL_420733) (0.88)
hCoV-19/Russia/Vector_84508/2020 (EPI_ISL_428913) (0.88)
hCoV-19/England/CAMB-79AF5/2020 (EPI_ISL_433823) (0.88)
hCoV-19/England/LOND-D3604/2020 (EPI_ISL_440964) (0.88)
hCoV-19/England/CAMB-79A5F/2020 (EPI_ISL_433816) (0.88)
hCoV-19/England/201000003/2020EPI_ISL_4140132020-03-01
hCoV-19/Brazil/SPBR-03/2020 (EPI_ISL_414014)EPI_ISL_4140142020-03-02
hCoV-19/Brazil/SPBR-06/2020 (EPI_ISL_414015)EPI_ISL_4140152020-02-29
hCoV-19/Brazil/SPBR-05/2020 (EPI_ISL_414016)EPI_ISL_4140162020-02-29
hCoV-19/Brazil/SPBR-04/2020 (EPI_ISL_414017)EPI_ISL_4140172020-03-04
hCoV-19/Switzerland/GE3121/2020 (EPI_ISL_414019)EPI_ISL_4140192020-02-27 SNP:
241: C>T (7669 strain(s) in DB)
3037: C>T (7693 strain(s) in DB)
14408: C>T (7704 strain(s) in DB)
20268: A>G (601 strain(s) in DB)
23403: A>G (7732 strain(s) in DB)

Deletions:
1: AATTAAAG>- (4882 strain(s) in DB)
29878: AAAAAAAAAAAAAAAAAAAA...>A (46 strain(s) in DB)

hCoV-19/Switzerland/GE5373/2020 (EPI_ISL_414020)EPI_ISL_4140202020-02-27 SNP:
241: C>T (7669 strain(s) in DB)
3037: C>T (7693 strain(s) in DB)
14408: C>T (7704 strain(s) in DB)
20268: A>G (601 strain(s) in DB)
23403: A>G (7732 strain(s) in DB)

Deletions:
1: AATTAAAGGTTT>- (4882 strain(s) in DB)
29876: AAAAAAAAAAAAAAAAAAAA...>A (51 strain(s) in DB)

hCoV-19/Switzerland/BL0902/2020 (EPI_ISL_414021)EPI_ISL_4140212020-02-27 SNP:
241: C>T (7669 strain(s) in DB)
3037: C>T (7693 strain(s) in DB)
14408: C>T (7704 strain(s) in DB)
19839: T>C (113 strain(s) in DB)
23403: A>G (7732 strain(s) in DB)
28881: G>A (2045 strain(s) in DB)
28882: G>A (2040 strain(s) in DB)
28883: G>C (2036 strain(s) in DB)

Deletions:
1: AATTAAAGGTT>- (4882 strain(s) in DB)
29900: AAAA>A (38 strain(s) in DB)

hCoV-19/Switzerland/GE9586/2020 (EPI_ISL_414022)EPI_ISL_4140222020-02-27 SNP:
241: C>T (7669 strain(s) in DB)
3037: C>T (7693 strain(s) in DB)
14408: C>T (7704 strain(s) in DB)
19839: T>C (113 strain(s) in DB)
23403: A>G (7732 strain(s) in DB)
28881: G>A (2045 strain(s) in DB)
28882: G>A (2040 strain(s) in DB)
28883: G>C (2036 strain(s) in DB)

Deletions:
1: AATTAAAGG>- (4882 strain(s) in DB)
29878: AAAAAAAAAAAAAAAAAAAA...>A (46 strain(s) in DB)

hCoV-19/Switzerland/VD5615/2020 (EPI_ISL_414023)EPI_ISL_4373132020-03-01 SNP:
241: C>T (7669 strain(s) in DB)
3037: C>T (7693 strain(s) in DB)
13503: G>T (3 strain(s) in DB)
14408: C>T (7704 strain(s) in DB)
23403: A>G (7732 strain(s) in DB)
28881: G>A (2045 strain(s) in DB)
28882: G>A (2040 strain(s) in DB)
28883: G>C (2036 strain(s) in DB)

Deletions:
1: AATTAAAGGTTT>- (4882 strain(s) in DB)
29902: AA>A (94 strain(s) in DB)

hCoV-19/Switzerland/VD0503/2020 (EPI_ISL_415459) (0.9)
hCoV-19/Wales/PHWC-29D55/2020 (EPI_ISL_432244) (0.8)
hCoV-19/Australia/VIC334/2020 (MT451225) (0.8)
hCoV-19/Australia/VIC387/2020 (MT451274) (0.8)
hCoV-19/Australia/VIC190/2020 (MT451092) (0.8)
hCoV-19/Northern Ireland/NIRE-102094/2020 (EPI_ISL_441375) (0.8)
hCoV-19/Australia/VIC250/2020 (MT451147) (0.8)
hCoV-19/Wales/PHWC-2B1FD/2020 (EPI_ISL_432246) (0.8)
hCoV-19/Australia/VIC219/2020 (MT451120) (0.8)
hCoV-19/Turkey/HSGM-1428/2020 (EPI_ISL_437311) (0.8)
hCoV-19/Turkey/HSGM-302/2020 (EPI_ISL_437313) (0.8)
hCoV-19/Scotland/CVR02/2020EPI_ISL_4140242020-03-02
hCoV-19/Scotland/CVR03/2020EPI_ISL_4140252020-03-01
hCoV-19/Scotland/CVR04/2020EPI_ISL_4140262020-03-04
hCoV-19/Scotland/CVR05/2020 (EPI_ISL_414027)EPI_ISL_4140272020-03-04 SNP:
241: C>T (7669 strain(s) in DB)
3037: C>T (7693 strain(s) in DB)
14408: C>T (7704 strain(s) in DB)
23403: A>G (7732 strain(s) in DB)
26530: A>G (128 strain(s) in DB)

hCoV-19/England/200641094/2020 (EPI_ISL_414040)EPI_ISL_4173132020-02-05 SNP:
24495: A>R (1 strain(s) in DB)
28052: A>W (5 strain(s) in DB)

Deletions:
1604: AATG>A (288 strain(s) in DB)

hCoV-19/England/20146005804/2020 (EPI_ISL_423574) (0.33)
hCoV-19/England/SHEF-C0673/2020 (EPI_ISL_420251) (0.33)
hCoV-19/England/20122073102/2020 (EPI_ISL_418675) (0.33)
hCoV-19/England/NOTT-10DEEA/2020 (EPI_ISL_425466) (0.25)
hCoV-19/England/NOTT-10E58A/2020 (EPI_ISL_425563) (0.25)
hCoV-19/England/NOTT-10E0C5/2020 (EPI_ISL_425495) (0.25)
hCoV-19/England/SHEF-C06A0/2020 (EPI_ISL_420280) (0.25)
hCoV-19/England/NOTT-10DFAB/2020 (EPI_ISL_425477) (0.25)
hCoV-19/England/200690306/2020 (EPI_ISL_414043) (0.25)
hCoV-19/England/200690300/2020 (EPI_ISL_414042) (0.25)
hCoV-19/England/20110097506/2020 (EPI_ISL_417313) (0.25)
hCoV-19/England/200690245/2020 (EPI_ISL_414041)EPI_ISL_4140412020-02-08 SNP:
28253: C>Y (23 strain(s) in DB)

Deletions:
1604: AATG>A (288 strain(s) in DB)

hCoV-19/England/200690300/2020 (EPI_ISL_414042)EPI_ISL_4140422020-02-08 SNP:
11002: A>M (6 strain(s) in DB)

Deletions:
1604: AATG>A (288 strain(s) in DB)

hCoV-19/England/200690306/2020 (EPI_ISL_414043)EPI_ISL_4140432020-02-07 SNP:
15237: C>Y (14 strain(s) in DB)

Deletions:
1604: AATG>A (288 strain(s) in DB)

hCoV-19/England/200690756/2020 (EPI_ISL_414044)EPI_ISL_4140422020-02-08 SNP:
6638: C>Y (6 strain(s) in DB)
13507: G>R (1 strain(s) in DB)

Deletions:
1604: AATG>A (288 strain(s) in DB)

hCoV-19/England/20146005804/2020 (EPI_ISL_423574) (0.33)
hCoV-19/England/20122073102/2020 (EPI_ISL_418675) (0.33)
hCoV-19/England/SHEF-C0673/2020 (EPI_ISL_420251) (0.33)
hCoV-19/England/NOTT-10DEEA/2020 (EPI_ISL_425466) (0.25)
hCoV-19/England/200690306/2020 (EPI_ISL_414043) (0.25)
hCoV-19/England/NOTT-10E0C5/2020 (EPI_ISL_425495) (0.25)
hCoV-19/Belgium/UGent-10/2020 (EPI_ISL_425054) (0.25)
hCoV-19/England/20110097506/2020 (EPI_ISL_417313) (0.25)
hCoV-19/England/20109058906/2020 (EPI_ISL_417283) (0.25)
hCoV-19/England/200690245/2020 (EPI_ISL_414041) (0.25)
hCoV-19/England/200690300/2020 (EPI_ISL_414042) (0.25)
hCoV-19/Brazil-RJ/314/2020 (EPI_ISL_414045)EPI_ISL_4140452020-03-04 SNP:
241: C>T (7669 strain(s) in DB)
3037: C>T (7693 strain(s) in DB)
14408: C>T (7704 strain(s) in DB)
23403: A>G (7732 strain(s) in DB)

Deletions:
1: AATTAAAGGTTTATACCTTC...>- (4882 strain(s) in DB)
29794: GGAAGAGCCCTAATGTGTAA...>G (4 strain(s) in DB)

hCoV-19/USA/WA-UW15/2020 (EPI_ISL_414363)MT6272822020-03-04 SNP:
8782: C>T (1672 strain(s) in DB)
17747: C>T (1036 strain(s) in DB)
17858: A>G (1049 strain(s) in DB)
18060: C>T (1069 strain(s) in DB)
23758: C>T (17 strain(s) in DB)
28144: T>C (1654 strain(s) in DB)
29861: G>A (62 strain(s) in DB)
29864: G>A (204 strain(s) in DB)

hCoV-19/USA/WA-S279/2020 (MT627618) (0.75)
hCoV-19/USA/WA-UW167/2020 (MT252699) (0.67)
hCoV-19/USA/WA-UW150/2020 (MT252740) (0.67)
hCoV-19/USA/WA-UW177/2020 (MT252714) (0.67)
hCoV-19/USA/WA-UW89/2020 (MT252688) (0.67)
hCoV-19/USA/WA-S29/2020 (MT627280) (0.63)
hCoV-19/Canada/BC_3808524/2020 (EPI_ISL_418819) (0.63)
hCoV-19/Canada/BC_1318414/2020 (EPI_ISL_418818) (0.63)
hCoV-19/USA/WA-S57/2020 (MT627284) (0.63)
hCoV-19/USA/WA-S91/2020 (MT627283) (0.63)
hCoV-19/USA/WA-S61/2020 (MT627282) (0.63)
hCoV-19/USA/WA-UW16/2020EPI_ISL_4143642020-03-05
hCoV-19/USA/WA-UW17/2020EPI_ISL_4143652020-03-06
hCoV-19/USA/WA-UW18/2020 (EPI_ISL_414366)EPI_ISL_4143662020-03-05 SNP:
8782: C>T (1672 strain(s) in DB)
17747: C>T (1036 strain(s) in DB)
17858: A>G (1049 strain(s) in DB)
18060: C>T (1069 strain(s) in DB)
28144: T>C (1654 strain(s) in DB)

Insertions:
29903: A>AGAA (207 strain(s) in DB)

Deletions:
1: AATTAAAGGT>- (4882 strain(s) in DB)

hCoV-19/USA/WA-UW19/2020 (EPI_ISL_414367)MT3345342020-03-05 SNP:
260: G>C (1 strain(s) in DB)
261: G>C (4 strain(s) in DB)
8782: C>T (1672 strain(s) in DB)
17747: C>T (1036 strain(s) in DB)
17858: A>G (1049 strain(s) in DB)
18060: C>T (1069 strain(s) in DB)
25731: C>T (13 strain(s) in DB)
28144: T>C (1654 strain(s) in DB)

Deletions:
1: AATTAAAGGTTTATACCTTC...>- (4882 strain(s) in DB)
262: TA>T (1 strain(s) in DB)
29894: AAAAAAAAAA>A (34 strain(s) in DB)

hCoV-19/USA/WA-UW292/2020 (MT259282) (0.58)
hCoV-19/USA/WA-UW41/2020 (MT252802) (0.58)
hCoV-19/USA/CA-CZBRR057IX00079/2020 (MT385429) (0.55)
hCoV-19/USA/WA-UW-2203/2020 (MT345833) (0.55)
hCoV-19/USA/WA-UW70/2020 (MT252798) (0.55)
hCoV-19/USA/WA-UW249/2020 (MT259241) (0.55)
hCoV-19/USA/WA-UW118/2020 (MT252782) (0.55)
hCoV-19/USA/WA-UW18/2020 (EPI_ISL_414366) (0.5)
hCoV-19/USA/WA-UW20/2020 (EPI_ISL_414368) (0.5)
hCoV-19/USA/IL-UW-1311/2020 (MT326181) (0.5)
hCoV-19/USA/UT-00015/2020 (MT334534) (0.5)
hCoV-19/USA/WA-UW20/2020 (EPI_ISL_414368)MT3587322020-03-05 SNP:
35: A>T (167 strain(s) in DB)
8782: C>T (1672 strain(s) in DB)
17747: C>T (1036 strain(s) in DB)
17858: A>G (1049 strain(s) in DB)
18060: C>T (1069 strain(s) in DB)
28144: T>C (1654 strain(s) in DB)

Deletions:
1: AATTAAAGGTTTAT>- (4882 strain(s) in DB)

hCoV-19/USA/WA-UW23/2020 (EPI_ISL_414592) (0.88)
hCoV-19/USA/CA-CZBRR057IX00079/2020 (MT385429) (0.86)
hCoV-19/USA/WA-UW-2203/2020 (MT345833) (0.86)
hCoV-19/USA/WA-UW70/2020 (MT252798) (0.86)
hCoV-19/USA/WA-UW118/2020 (MT252782) (0.86)
hCoV-19/USA/WA-UW249/2020 (MT259241) (0.86)
SARS-CoV-2/human/USAWA-UW422/2020 (MT293187) (0.78)
hCoV-19/USA/WA-UW285/2020 (MT259275) (0.78)
hCoV-19/USA/WA-UW24/2020 (EPI_ISL_414593) (0.75)
hCoV-19/USA/OR-UW-1851/2020 (MT326040) (0.75)
hCoV-19/USA/WA-UW-3985/2020 (MT358732) (0.75)
hCoV-19/USA/WA-UW21/2020 (EPI_ISL_414369)MT2528232020-03-05 SNP:
77: T>A (4 strain(s) in DB)
78: T>A (10 strain(s) in DB)
80: A>T (2 strain(s) in DB)
82: A>T (1 strain(s) in DB)
84: C>A (9 strain(s) in DB)
86: G>A (1 strain(s) in DB)
8782: C>T (1672 strain(s) in DB)
17747: C>T (1036 strain(s) in DB)
17858: A>G (1049 strain(s) in DB)
18060: C>T (1069 strain(s) in DB)
28144: T>C (1654 strain(s) in DB)

Insertions:
29903: A>AAAAAAANANANANV (207 strain(s) in DB)

Deletions:
1: AATTAAAGGTTTATACCTTC...>- (4882 strain(s) in DB)

hCoV-19/USA/WA-UW253/2020 (MT259245) (0.54)
hCoV-19/USA/WA-UW54/2020 (MT252813) (0.54)
hCoV-19/USA/WA-UW18/2020 (EPI_ISL_414366) (0.54)
hCoV-19/USA/WA-UW99/2020 (MT252763) (0.54)
hCoV-19/USA/UNKNOWN-UW-1791/2020 (MT326085) (0.5)
hCoV-19/USA/WA-UW276/2020 (MT259268) (0.5)
hCoV-19/USA/WA-UW76/2020 (MT252800) (0.5)
SARS-CoV-2/WA-UW360/human/2020/USA (MT263440) (0.5)
hCoV-19/USA/WA-UW-1695/2020 (MT326144) (0.5)
hCoV-19/USA/WA-UW-6186/2020 (MT412312) (0.5)
hCoV-19/USA/WA-UW38/2020 (MT252823) (0.47)
hCoV-19/Iran/Qom257039/2020EPI_ISL_4143712020-02-16
hCoV-19/Iran/Qom257524/2020EPI_ISL_4143722020-02-17
hCoV-19/Iran/Qom257540/2020EPI_ISL_4143732020-02-16
hCoV-19/Iran/Qom257526/2020EPI_ISL_4143742020-02-17
hCoV-19/Indonesia/NIHRD651/2020EPI_ISL_4143752020-03-01
hCoV-19/Indonesia/NIHRD655/2020EPI_ISL_4143762020-03-01
hCoV-19/Indonesia/NIHRD651-2/2020EPI_ISL_4143772020-03-01
hCoV-19/Singapore/12/2020 (EPI_ISL_414378)EPI_ISL_4288302020-02-17 SNP:
8782: C>T (1672 strain(s) in DB)
24011: T>C (1 strain(s) in DB)
25568: C>A (2 strain(s) in DB)
29741: C>T (3 strain(s) in DB)

Deletions:
27847: CACTTGAACTGCAAGATCAT...>C (16 strain(s) in DB)
29845: TTTTAATAGCTTCTTAGGAG...>T (27 strain(s) in DB)

hCoV-19/Singapore/14/2020 (EPI_ISL_414380) (0.5)
hCoV-19/Singapore/22/2020 (EPI_ISL_420099) (0.5)
hCoV-19/Singapore/23/2020 (EPI_ISL_420100) (0.43)
hCoV-19/Singapore/12Clin/2020 (EPI_ISL_418995) (0.43)
hCoV-19/Singapore/30/2020 (EPI_ISL_420107) (0.38)
hCoV-19/Singapore/13/2020 (EPI_ISL_414379) (0.33)
hCoV-19/Singapore/15/2020 (EPI_ISL_418996) (0.29)
hCoV-19/Singapore/19/2020 (EPI_ISL_419001) (0.29)
hCoV-19/Singapore/21/2020 (EPI_ISL_419000) (0.29)
hCoV-19/Singapore/14Clin/2020 (EPI_ISL_418998) (0.29)
hCoV-19/Singapore/51/2020 (EPI_ISL_428830) (0.25)
hCoV-19/Singapore/13/2020 (EPI_ISL_414379)EPI_ISL_4189982020-02-18 SNP:
8782: C>T (1672 strain(s) in DB)
17723: T>C (1 strain(s) in DB)
28868: C>T (5 strain(s) in DB)

Deletions:
1: AA>- (4882 strain(s) in DB)
27847: CACTTGAACTGCAAGATCAT...>C (16 strain(s) in DB)
29845: TTTTAATAGCTTCTTAGGAG...>T (27 strain(s) in DB)

hCoV-19/Singapore/23/2020 (EPI_ISL_420100) (0.67)
hCoV-19/Singapore/30/2020 (EPI_ISL_420107) (0.57)
hCoV-19/Singapore/14/2020 (EPI_ISL_414380) (0.5)
hCoV-19/Singapore/22/2020 (EPI_ISL_420099) (0.5)
hCoV-19/Singapore/51/2020 (EPI_ISL_428830) (0.43)
hCoV-19/Singapore/31/2020 (EPI_ISL_420108) (0.33)
hCoV-19/Singapore/32/2020 (EPI_ISL_420109) (0.33)
hCoV-19/Singapore/12/2020 (EPI_ISL_414378) (0.33)
hCoV-19/Singapore/43/2020 (EPI_ISL_428822) (0.33)
hCoV-19/Singapore/28/2020 (EPI_ISL_420105) (0.33)
hCoV-19/Singapore/14Clin/2020 (EPI_ISL_418998) (0.29)
hCoV-19/Singapore/14/2020 (EPI_ISL_414380)EPI_ISL_4189992020-02-13 SNP:
8782: C>T (1672 strain(s) in DB)

Deletions:
27847: CACTTGAACTGCAAGATCAT...>C (16 strain(s) in DB)
29845: TTTTAATAGCTTCTTAGGAG...>T (27 strain(s) in DB)

hCoV-19/Singapore/22/2020 (EPI_ISL_420099) (1)
hCoV-19/Singapore/23/2020 (EPI_ISL_420100) (0.75)
hCoV-19/Singapore/30/2020 (EPI_ISL_420107) (0.6)
hCoV-19/Singapore/19/2020 (EPI_ISL_419001) (0.5)
hCoV-19/Singapore/15/2020 (EPI_ISL_418996) (0.5)
hCoV-19/Singapore/13/2020 (EPI_ISL_414379) (0.5)
hCoV-19/Singapore/12/2020 (EPI_ISL_414378) (0.5)
hCoV-19/Singapore/21/2020 (EPI_ISL_419000) (0.5)
hCoV-19/Singapore/14Clin/2020 (EPI_ISL_418998) (0.5)
hCoV-19/Singapore/51/2020 (EPI_ISL_428830) (0.4)
hCoV-19/Singapore/18/2020 (EPI_ISL_418999) (0.4)
hCoV-19/Australia/QLD09/2020 (EPI_ISL_414414)EPI_ISL_4173832020-02-29 SNP:
1397: G>A (164 strain(s) in DB)
11074: C>T (49 strain(s) in DB)
11083: G>T (1220 strain(s) in DB)
28688: T>C (152 strain(s) in DB)
29374: G>A (13 strain(s) in DB)
29742: G>T (236 strain(s) in DB)

Deletions:
1: AATTAAA>- (4882 strain(s) in DB)
29870: CAAAAAAAAAAAAAAAAAAA...>C (353 strain(s) in DB)

BetaCoV/Australia/NSW07/2020 (EPI_ISL_413214) (0.67)
hCoV-19/Australia/NSW31/2020 (EPI_ISL_417392) (0.64)
hCoV-19/Shanghai/SH0023/2020 (0.6)
hCoV-19/China/Shanghai/SH0022 (0.6)
hCoV-19/Australia/NSW21/2020 (EPI_ISL_417386) (0.6)
hCoV-19/Kuwait/KU17/2020 (EPI_ISL_416542) (0.56)
hCoV-19/Australia/VIC58/2020 (MT450973) (0.56)
hCoV-19/Australia/VIC66/2020 (MT450980) (0.56)
hCoV-19/Australia/VIC97/2020 (MT451007) (0.56)
hCoV-19/Turkey/HSGM-4598/2020 (EPI_ISL_429868) (0.55)
hCoV-19/Australia/NSW15/2020 (EPI_ISL_417383) (0.55)
hCoV-19/Netherlands/Gelderland_1/2020 (EPI_ISL_414423)EPI_ISL_4144232020-03-02 SNP:
241: C>T (7669 strain(s) in DB)
3037: C>T (7693 strain(s) in DB)
14408: C>T (7704 strain(s) in DB)
23403: A>G (7732 strain(s) in DB)
27046: C>T (266 strain(s) in DB)
28881: G>A (2045 strain(s) in DB)
28882: G>A (2040 strain(s) in DB)
28883: G>C (2036 strain(s) in DB)

Deletions:
1: AATTAAAGGTTTATACCTTC...>- (4882 strain(s) in DB)
29829: TGCTATCCCCATGTGATTTT...>T (405 strain(s) in DB)

hCoV-19/Netherlands/Limburg_2/2020EPI_ISL_4144242020-03-03
hCoV-19/Netherlands/Limburg_3/2020EPI_ISL_4144252020-03-03
hCoV-19/Netherlands/Limburg_4/2020EPI_ISL_4144262020-03-03
hCoV-19/Netherlands/Limburg_6/2020EPI_ISL_4144272020-03-03
hCoV-19/Netherlands/NoordBrabant_1/2020 (EPI_ISL_414428)EPI_ISL_4229352020-03-02 SNP:
241: C>T (7669 strain(s) in DB)
514: T>C (127 strain(s) in DB)
3037: C>T (7693 strain(s) in DB)
14408: C>T (7704 strain(s) in DB)
23403: A>G (7732 strain(s) in DB)

Deletions:
1: AATTAAAGGTTTATACCTTC...>- (4882 strain(s) in DB)
29829: TGCTATCCCCATGTGATTTT...>T (405 strain(s) in DB)

hCoV-19/Netherlands/Utrecht_11/2020 (EPI_ISL_414443) (0.86)
hCoV-19/Netherlands/Blaricum_1364780/2020 (EPI_ISL_413566) (0.86)
hCoV-19/Netherlands/Gelderland_6/2020 (EPI_ISL_422642) (0.86)
hCoV-19/Netherlands/Zeewolde_1365080/2020 (EPI_ISL_413591) (0.86)
hCoV-19/Netherlands/NA_160/2020 (EPI_ISL_422695) (0.75)
hCoV-19/Netherlands/ZuidHolland_58/2020 (EPI_ISL_422926) (0.75)
hCoV-19/Netherlands/ZuidHolland_61/2020 (EPI_ISL_422929) (0.75)
hCoV-19/Netherlands/NA_202/2020 (EPI_ISL_422737) (0.75)
hCoV-19/Netherlands/NoordBrabant_104/2020 (EPI_ISL_422863) (0.75)
hCoV-19/Luxemburg/Lux1/2020 (EPI_ISL_413593) (0.75)
hCoV-19/Netherlands/ZuidHolland_67/2020 (EPI_ISL_422935) (0.75)
hCoV-19/Netherlands/NoordBrabant_3/2020 (EPI_ISL_414429)EPI_ISL_4226592020-03-02 SNP:
241: C>T (7669 strain(s) in DB)
3037: C>T (7693 strain(s) in DB)
14408: C>T (7704 strain(s) in DB)
23403: A>G (7732 strain(s) in DB)
27046: C>T (266 strain(s) in DB)
28344: C>A (21 strain(s) in DB)
28881: G>A (2045 strain(s) in DB)
28882: G>A (2040 strain(s) in DB)
28883: G>C (2036 strain(s) in DB)

Deletions:
1: AATTAAAGGTTTATACCTTC...>- (4882 strain(s) in DB)
29829: TGCTATCCCCATGTGATTTT...>T (405 strain(s) in DB)

hCov-19/Netherlands/NA/9/2020 (EPI_ISL_415498) (1)
hCov-19/Netherlands/NA/11/2020 (EPI_ISL_415467) (0.92)
hCov-19/Netherlands/NA/26/2020 (EPI_ISL_415483) (0.92)
hCoV-19/Netherlands/Utrecht_5/2020 (EPI_ISL_414439) (0.91)
hCoV-19/Netherlands/Gelderland_1/2020 (EPI_ISL_414423) (0.91)
hCoV-19/Netherlands/NoordHolland_1/2020 (EPI_ISL_414433) (0.91)
hCoV-19/Netherlands/NA_130/2020 (EPI_ISL_422674) (0.91)
hCoV-19/Netherlands/Utrecht_21/2020 (EPI_ISL_422898) (0.91)
hCoV-19/Netherlands/NA_51/2020 (EPI_ISL_422812) (0.91)
hCov-19/Netherlands/NoordBrabant/45/2020 (EPI_ISL_415502) (0.91)
hCoV-19/Netherlands/NA_111/2020 (EPI_ISL_422659) (0.91)
hCoV-19/Netherlands/NoordBrabant_5/2020EPI_ISL_4144302020-03-05
hCoV-19/Netherlands/NoordBrabant_10/2020EPI_ISL_4144312020-03-02
hCoV-19/Netherlands/NoordBrabant_11/2020EPI_ISL_4144322020-03-02
hCoV-19/Netherlands/NoordHolland_1/2020 (EPI_ISL_414433)EPI_ISL_4144332020-03-03 SNP:
241: C>T (7669 strain(s) in DB)
3037: C>T (7693 strain(s) in DB)
14408: C>T (7704 strain(s) in DB)
23403: A>G (7732 strain(s) in DB)
27046: C>T (266 strain(s) in DB)
28881: G>A (2045 strain(s) in DB)
28882: G>A (2040 strain(s) in DB)
28883: G>C (2036 strain(s) in DB)

Deletions:
1: AATTAAAGGTTTATACCTTC...>- (4882 strain(s) in DB)
29829: TGCTATCCCCATGTGATTTT...>T (405 strain(s) in DB)

hCoV-19/Netherlands/Overijssel_1/2020EPI_ISL_4144342020-03-03
hCoV-19/Netherlands/Utrecht_1/2020 (EPI_ISL_414435)EPI_ISL_4154962020-03-03 SNP:
241: C>T (7669 strain(s) in DB)
3037: C>T (7693 strain(s) in DB)
14408: C>T (7704 strain(s) in DB)
15407: C>T (1 strain(s) in DB)
23403: A>G (7732 strain(s) in DB)
27046: C>T (266 strain(s) in DB)
28881: G>A (2045 strain(s) in DB)
28882: G>A (2040 strain(s) in DB)
28883: G>C (2036 strain(s) in DB)

Deletions:
1: AATTAAAGGTTTATACCTTC...>- (4882 strain(s) in DB)
29829: TGCTATCCCCATGTGATTTT...>T (405 strain(s) in DB)

hCoV-19/Netherlands/NA_265/2020 (EPI_ISL_422576) (0.91)
hCoV-19/Netherlands/Gelderland/3/2020 (EPI_ISL_415463) (0.91)
hCoV-19/Netherlands/ZuidHolland/29/2020 (EPI_ISL_415533) (0.91)
hCoV-19/Netherlands/NA_284/2020 (EPI_ISL_422593) (0.91)
hCoV-19/Netherlands/ZuidHolland/25/2020 (EPI_ISL_415529) (0.91)
hCoV-19/Netherlands/NA_51/2020 (EPI_ISL_422812) (0.91)
hCov-19/Netherlands/NoordBrabant/67/2020 (EPI_ISL_415523) (0.91)
hCov-19/Netherlands/NoordBrabant/58/2020 (EPI_ISL_415514) (0.91)
hCov-19/Netherlands/NoordBrabant/45/2020 (EPI_ISL_415502) (0.91)
hCoV-19/Netherlands/NA_111/2020 (EPI_ISL_422659) (0.91)
hCov-19/Netherlands/NA/7/2020 (EPI_ISL_415496) (0.91)
hCoV-19/Netherlands/Utrecht_2/2020EPI_ISL_4144362020-03-03
hCoV-19/Netherlands/Utrecht_3/2020EPI_ISL_4144372020-03-03
hCoV-19/Netherlands/Utrecht_4/2020EPI_ISL_4144382020-03-03
hCoV-19/Netherlands/Utrecht_5/2020 (EPI_ISL_414439)EPI_ISL_4144392020-03-02 SNP:
241: C>T (7669 strain(s) in DB)
3037: C>T (7693 strain(s) in DB)
14408: C>T (7704 strain(s) in DB)
23403: A>G (7732 strain(s) in DB)
27046: C>T (266 strain(s) in DB)
28881: G>A (2045 strain(s) in DB)
28882: G>A (2040 strain(s) in DB)
28883: G>C (2036 strain(s) in DB)

Deletions:
1: AATTAAAGGTTTATACCTTC...>- (4882 strain(s) in DB)
29829: TGCTATCCCCATGTGATTTT...>T (405 strain(s) in DB)

hCoV-19/Netherlands/Utrecht_7/2020EPI_ISL_4144402020-03-03
hCoV-19/Netherlands/Utrecht_8/2020EPI_ISL_4144412020-03-03
hCoV-19/Netherlands/Utrecht_10/2020EPI_ISL_4144422020-03-03
hCoV-19/Netherlands/Utrecht_11/2020 (EPI_ISL_414443)EPI_ISL_4144432020-03-03 SNP:
241: C>T (7669 strain(s) in DB)
3037: C>T (7693 strain(s) in DB)
14408: C>T (7704 strain(s) in DB)
23403: A>G (7732 strain(s) in DB)

Deletions:
1: AATTAAAGGTTTATACCTTC...>- (4882 strain(s) in DB)
29829: TGCTATCCCCATGTGATTTT...>T (405 strain(s) in DB)

hCoV-19/Netherlands/ZuidHolland_1/2020EPI_ISL_4144442020-03-02
hCoV-19/Netherlands/ZuidHolland_9/2020 (EPI_ISL_414445)EPI_ISL_4204142020-03-03 SNP:
241: C>T (7669 strain(s) in DB)
3037: C>T (7693 strain(s) in DB)
4255: G>T (50 strain(s) in DB)
5284: C>T (15 strain(s) in DB)
14408: C>T (7704 strain(s) in DB)
16456: T>G (10 strain(s) in DB)
20051: C>T (4 strain(s) in DB)
23403: A>G (7732 strain(s) in DB)
24117: C>T (3 strain(s) in DB)

Deletions:
1: AATTAAAGGTTTATACCTTC...>- (4882 strain(s) in DB)
29829: TGCTATCCCCATGTGATTTT...>T (405 strain(s) in DB)

hCov-19/Netherlands/NA/23/2020 (EPI_ISL_415480) (1)
hCoV-19/Netherlands/NA_256/2020 (EPI_ISL_422790) (0.92)
hCoV-19/Netherlands/Gelderland_7/2020 (EPI_ISL_422643) (0.58)
hCoV-19/USA/NY-PV09309/2020 (MT371017) (0.57)
hCoV-19/Netherlands/Utrecht_11/2020 (EPI_ISL_414443) (0.55)
hCoV-19/Netherlands/Gelderland_6/2020 (EPI_ISL_422642) (0.55)
hCoV-19/Netherlands/Blaricum_1364780/2020 (EPI_ISL_413566) (0.55)
hCoV-19/Netherlands/Zeewolde_1365080/2020 (EPI_ISL_413591) (0.55)
hCoV-19/Netherlands/NA_61/2020 (EPI_ISL_422822) (0.54)
hCoV-19/Netherlands/NoordBrabant_74/2020 (EPI_ISL_422870) (0.5)
hCoV-19/Belgium/DRV-0325157/2020 (EPI_ISL_420414) (0.5)
hCoV-19/Netherlands/ZuidHolland_10/2020 (EPI_ISL_414446)EPI_ISL_4144462020-03-03 SNP:
241: C>T (7669 strain(s) in DB)
3037: C>T (7693 strain(s) in DB)
14408: C>T (7704 strain(s) in DB)
23403: A>G (7732 strain(s) in DB)
27046: C>T (266 strain(s) in DB)
28881: G>A (2045 strain(s) in DB)
28882: G>A (2040 strain(s) in DB)
28883: G>C (2036 strain(s) in DB)

Deletions:
1: AATTAAAGGTTTATACCTTC...>- (4882 strain(s) in DB)
29829: TGCTATCCCCATGTGATTTT...>T (405 strain(s) in DB)

hCoV-19/Netherlands/Limburg_5/2020EPI_ISL_4144482020-03-04
hCoV-19/Netherlands/NoordBrabant_2/2020EPI_ISL_4144492020-03-03
hCoV-19/Netherlands/NoordBrabant_4/2020EPI_ISL_4144502020-03-06
hCoV-19/Netherlands/NoordBrabant_6/2020 (EPI_ISL_414451)EPI_ISL_4229102020-03-06 SNP:
11083: G>T (1220 strain(s) in DB)
14805: C>T (875 strain(s) in DB)
17247: T>C (334 strain(s) in DB)
23926: T>C (6 strain(s) in DB)
26144: G>T (818 strain(s) in DB)

Deletions:
1: AATTAAAGGTTTATACCTTC...>- (4882 strain(s) in DB)
29829: TGCTATCCCCATGTGATTTT...>T (405 strain(s) in DB)

hCoV-19/Netherlands/NA_129/2020 (EPI_ISL_422673) (0.86)
hCoV-19/Netherlands/NA_230/2020 (EPI_ISL_422765) (0.86)
hCov-19/Netherlands/NA/34/2020 (EPI_ISL_415491) (0.86)
hCoV-19/Netherlands/NA_74/2020 (EPI_ISL_422834) (0.86)
hCoV-19/Netherlands/NA_57/2020 (EPI_ISL_422818) (0.86)
hCoV-19/Netherlands/NA_55/2020 (EPI_ISL_422816) (0.86)
hCoV-19/Netherlands/NA_48/2020 (EPI_ISL_422809) (0.86)
hCoV-19/Netherlands/NA_144/2020 (EPI_ISL_422684) (0.86)
hCoV-19/Netherlands/NA_60/2020 (EPI_ISL_422821) (0.86)
hCoV-19/Netherlands/NA_201/2020 (EPI_ISL_422736) (0.86)
hCoV-19/Netherlands/ZuidHolland_38/2020 (EPI_ISL_422910) (0.75)
hCoV-19/Netherlands/NoordBrabant_12/2020 (EPI_ISL_414452)EPI_ISL_4227302020-03-06 SNP:
514: T>C (127 strain(s) in DB)
4763: C>T (2 strain(s) in DB)
29392: G>T (4 strain(s) in DB)

Deletions:
1: AATTAAAGGTTTATACCTTC...>- (4882 strain(s) in DB)
1604: AATG>A (288 strain(s) in DB)
29829: TGCTATCCCCATGTGATTTT...>T (405 strain(s) in DB)

hCoV-19/Netherlands/Utrecht_12/2020 (EPI_ISL_414551) (0.67)
hCoV-19/Netherlands/NA_185/2020 (EPI_ISL_422720) (0.67)
hCov-19/Netherlands/NoordBrabant/51/2020 (EPI_ISL_415507) (0.67)
hCoV-19/Netherlands/Naarden_1364774/2020 (EPI_ISL_413577) (0.67)
hCoV-19/Netherlands/Rotterdam_1364040/2020 (EPI_ISL_413583) (0.67)
hCov-19/Netherlands/NA/32/2020 (EPI_ISL_415489) (0.67)
hCoV-19/Netherlands/NA_227/2020 (EPI_ISL_422762) (0.67)
hCoV-19/Netherlands/NA_226/2020 (EPI_ISL_422761) (0.67)
hCoV-19/Netherlands/NoordBrabant_95/2020 (EPI_ISL_422889) (0.67)
hCoV-19/Netherlands/NA_207/2020 (EPI_ISL_422742) (0.67)
hCoV-19/Netherlands/NA_195/2020 (EPI_ISL_422730) (0.67)
hCoV-19/Netherlands/NoordBrabant_13/2020EPI_ISL_4144532020-03-06
hCoV-19/Netherlands/NoordBrabant_14/2020EPI_ISL_4144542020-03-05
hCoV-19/Netherlands/NoordBrabant_15/2020EPI_ISL_4144552020-03-06
hCoV-19/Netherlands/NoordBrabant_16/2020EPI_ISL_4144562020-03-04
hCoV-19/Netherlands/NoordBrabant_17/2020 (EPI_ISL_414457)EPI_ISL_4227912020-03-06 SNP:
241: C>T (7669 strain(s) in DB)
3037: C>T (7693 strain(s) in DB)
7063: C>T (1 strain(s) in DB)
14408: C>T (7704 strain(s) in DB)
23403: A>G (7732 strain(s) in DB)
28739: G>T (9 strain(s) in DB)

Deletions:
1: AATTAAAGGTTTATACCTTC...>- (4882 strain(s) in DB)
29829: TGCTATCCCCATGTGATTTT...>T (405 strain(s) in DB)

hCoV-19/Netherlands/Utrecht_11/2020 (EPI_ISL_414443) (0.75)
hCoV-19/Netherlands/Zeewolde_1365080/2020 (EPI_ISL_413591) (0.75)
hCoV-19/Netherlands/Gelderland_6/2020 (EPI_ISL_422642) (0.75)
hCoV-19/Netherlands/Blaricum_1364780/2020 (EPI_ISL_413566) (0.75)
hCov-19/Netherlands/NoordBrabant/64/2020 (EPI_ISL_415520) (0.67)
hCov-19/Netherlands/NoordBrabant/59/2020 (EPI_ISL_415515) (0.67)
hCoV-19/Netherlands/NA_158/2020 (EPI_ISL_422693) (0.67)
hCoV-19/Netherlands/NA_159/2020 (EPI_ISL_422694) (0.67)
hCoV-19/Netherlands/NA_160/2020 (EPI_ISL_422695) (0.67)
hCov-19/Netherlands/NoordBrabant/62/2020 (EPI_ISL_415518) (0.67)
hCoV-19/Netherlands/NA_257/2020 (EPI_ISL_422791) (0.67)
hCoV-19/Netherlands/NoordBrabant_18/2020EPI_ISL_4144582020-03-05
hCoV-19/Netherlands/NoordBrabant_19/2020EPI_ISL_4144592020-03-06
hCoV-19/Netherlands/Overijssel_2/2020EPI_ISL_4144602020-03-03
hCoV-19/Netherlands/Utrecht_6/2020EPI_ISL_4144612020-03-04
hCoV-19/Netherlands/Utrecht_12/2020EPI_ISL_4144622020-03-04
hCoV-19/Netherlands/Utrecht_13/2020EPI_ISL_4144632020-03-04
hCoV-19/Netherlands/Utrecht_14/2020EPI_ISL_4144642020-03-04
hCoV-19/Netherlands/ZuidHolland_5/2020EPI_ISL_4144652020-03-04
hCoV-19/Netherlands/ZuidHolland_6/2020EPI_ISL_4144662020-03-04
hCoV-19/Netherlands/ZuidHolland_7/2020 (EPI_ISL_414467)EPI_ISL_4227422020-03-05 SNP:
12068: C>T (13 strain(s) in DB)
12621: C>T (5 strain(s) in DB)

Deletions:
1: AATTAAAGGTTTATACCTTC...>- (4882 strain(s) in DB)
1604: AATG>A (288 strain(s) in DB)
21990: TTTA>T (12 strain(s) in DB)
29829: TGCTATCCCCATGTGATTTT...>T (405 strain(s) in DB)

hCoV-19/Netherlands/Rotterdam_1363790/2020 (EPI_ISL_413582) (0.67)
hCoV-19/Netherlands/ZuidHolland_47/2020 (EPI_ISL_422918) (0.67)
hCoV-19/Netherlands/ZuidHolland_21/2020 (EPI_ISL_414563) (0.57)
hCoV-19/Netherlands/Oisterwijk_1364072/2020 (EPI_ISL_413580) (0.5)
hCoV-19/Netherlands/Utrecht_1364066/2020 (EPI_ISL_413590) (0.5)
hCoV-19/Netherlands/Naarden_1364774/2020 (EPI_ISL_413577) (0.43)
hCov-19/Netherlands/NoordBrabant/51/2020 (EPI_ISL_415507) (0.43)
hCov-19/Netherlands/NA/32/2020 (EPI_ISL_415489) (0.43)
hCoV-19/Netherlands/NA_227/2020 (EPI_ISL_422762) (0.43)
hCoV-19/Netherlands/NA_226/2020 (EPI_ISL_422761) (0.43)
hCoV-19/Netherlands/NA_207/2020 (EPI_ISL_422742) (0.43)
hCoV-19/Netherlands/ZuidHolland_8/2020 (EPI_ISL_414468)EPI_ISL_4144682020-03-06 SNP:
11083: G>T (1220 strain(s) in DB)
14805: C>T (875 strain(s) in DB)
15535: G>T (2 strain(s) in DB)
17247: T>C (334 strain(s) in DB)
26144: G>T (818 strain(s) in DB)

Deletions:
1: AATTAAAGGTTTATACCTTC...>- (4882 strain(s) in DB)
29829: TGCTATCCCCATGTGATTTT...>T (405 strain(s) in DB)

hCoV-19/Netherlands/ZuidHolland_11/2020EPI_ISL_4144692020-03-04
hCoV-19/Netherlands/ZuidHolland_13/2020 (EPI_ISL_414470)EPI_ISL_4227212020-03-06 SNP:
241: C>T (7669 strain(s) in DB)
3037: C>T (7693 strain(s) in DB)
14408: C>T (7704 strain(s) in DB)
23403: A>G (7732 strain(s) in DB)
28881: G>A (2045 strain(s) in DB)
28882: G>A (2040 strain(s) in DB)
28883: G>C (2036 strain(s) in DB)
29362: C>T (1 strain(s) in DB)

Deletions:
1: AATTAAAGGTTTATACCTTC...>- (4882 strain(s) in DB)
29829: TGCTATCCCCATGTGATTTT...>T (405 strain(s) in DB)

hCoV-19/Netherlands/Tilburg_1364286/2020 (EPI_ISL_413587) (0.9)
hCoV-19/Netherlands/Nootdorp_1364222/2020 (EPI_ISL_413579) (0.9)
hCoV-19/Netherlands/ZuidHolland/25/2020 (EPI_ISL_415529) (0.82)
hCov-19/Netherlands/NoordBrabant/58/2020 (EPI_ISL_415514) (0.82)
hCov-19/Netherlands/NA/7/2020 (EPI_ISL_415496) (0.82)
hCov-19/Netherlands/NoordBrabant/45/2020 (EPI_ISL_415502) (0.82)
hCoV-19/Netherlands/NA_37/2020 (EPI_ISL_422798) (0.82)
hCoV-19/Netherlands/NA_36/2020 (EPI_ISL_422797) (0.82)
hCoV-19/Netherlands/Rotterdam_1364740/2020 (EPI_ISL_413584) (0.82)
hCoV-19/Netherlands/ZuidHolland_22/2020 (EPI_ISL_414564) (0.82)
hCoV-19/Netherlands/NA_186/2020 (EPI_ISL_422721) (0.82)
hCoV-19/Netherlands/ZuidHolland_14/2020EPI_ISL_4144712020-03-05
hCoV-19/Iran/12Bj/2020EPI_ISL_4144752020-03-01
hCoV-19/Czech Republic/951/2020EPI_ISL_4144772020-03-01
hCoV-19/Wales/PHW03/2020EPI_ISL_4144862020-03-07
hCoV-19/Ireland/COR-20134/2020 (EPI_ISL_414487)EPI_ISL_4283112020-03-04 Deletions:
1: AATTAAAGGTTTATACCTTC...>- (4882 strain(s) in DB)
29836: CCCATGTGATTTTAATAGCT...>C (754 strain(s) in DB)

BetaCoV/Hangzhou/HZ-1/2020 (GWHABKS00000001) (1)
hCoV-19/USA/WI-180/2020 (EPI_ISL_428276) (0.67)
hCoV-19/USA/WI-193/2020 (EPI_ISL_428289) (0.67)
hCoV-19/USA/WI-169/2020 (EPI_ISL_428265) (0.67)
hCoV-19/USA/WI-170/2020 (EPI_ISL_428266) (0.67)
hCoV-19/USA/WI-214/2020 (EPI_ISL_428310) (0.67)
hCoV-19/USA/WI-232/2020 (EPI_ISL_428328) (0.67)
hCoV-19/USA/WI-171/2020 (EPI_ISL_428267) (0.67)
hCoV-19/USA/WI-173/2020 (EPI_ISL_428269) (0.67)
hCoV-19/USA/WI-174/2020 (EPI_ISL_428270) (0.67)
hCoV-19/USA/WI-215/2020 (EPI_ISL_428311) (0.67)
hCoV-19/Wales/PHW05/2020EPI_ISL_4144882020-03-08
hCoV-19/England/Sheff01/2020 (EPI_ISL_414500)EPI_ISL_4283342020-03-04 SNP:
514: T>C (127 strain(s) in DB)

Deletions:
1: AATTAAAGGTTTATACCTTC...>- (4882 strain(s) in DB)
29836: CCCATGTGATTTTAATAGCT...>C (754 strain(s) in DB)

hCoV-19/Scotland/CVR75/2020 (EPI_ISL_425805) (1)
hCoV-19/Scotland/CVR71/2020 (EPI_ISL_425802) (0.75)
hCoV-19/Scotland/CVR118/2020 (EPI_ISL_425662) (0.75)
hCoV-19/Ireland/20W269/2020 (EPI_ISL_437687) (0.75)
hCoV-19/Ireland/COR-20134/2020 (EPI_ISL_414487) (0.67)
BetaCoV/Hangzhou/HZ-1/2020 (GWHABKS00000001) (0.67)
hCoV-19/USA/WI-187/2020 (EPI_ISL_428283) (0.5)
BetaCoV/Sydney/3/2020 (EPI_ISL_408977) (0.5)
hCoV-19/USA/WI-182/2020 (EPI_ISL_428278) (0.5)
hCoV-19/USA/WI-240/2020 (EPI_ISL_428336) (0.5)
hCoV-19/USA/WI-238/2020 (EPI_ISL_428334) (0.5)
hCoV-19/England/Sheff02/2020EPI_ISL_4145012020-03-03
hCoV-19/Shenzhen/3/2020EPI_ISL_4145032020-03-01
hCoV-19/Italy/NIAA05032020/2020EPI_ISL_4145122020-03-05
hCoV-19/Germany/BavPat2/2020 (EPI_ISL_414520)EPI_ISL_4145202020-03-02 SNP:
1397: G>A (164 strain(s) in DB)
8880: C>T (1 strain(s) in DB)
9479: G>T (21 strain(s) in DB)
9514: A>G (28 strain(s) in DB)
9931: T>C (13 strain(s) in DB)
11083: G>T (1220 strain(s) in DB)
28688: T>C (152 strain(s) in DB)
29742: G>T (236 strain(s) in DB)

Deletions:
1: AATTAAAGG>- (4882 strain(s) in DB)
29882: AAAAAAAAAAAAAAAAAAAA...>A (514 strain(s) in DB)

hCoV-19/Germany/BavPat3/2020 (EPI_ISL_414521)EPI_ISL_4145212020-03-02 SNP:
8782: C>T (1672 strain(s) in DB)
23900: G>C (1 strain(s) in DB)
28144: T>C (1654 strain(s) in DB)
29095: C>T (58 strain(s) in DB)

Deletions:
1: AATTAAAG>- (4882 strain(s) in DB)
29882: AAAAAAAAAAAAAAAAAAAA...>A (514 strain(s) in DB)

hCoV-19/England/200990002/2020 (EPI_ISL_414522)EPI_ISL_4351312020-02-28 SNP:
1397: G>A (164 strain(s) in DB)
3263: A>G (6 strain(s) in DB)
8981: A>G (1 strain(s) in DB)
9479: G>T (21 strain(s) in DB)
9514: A>G (28 strain(s) in DB)
9931: T>C (13 strain(s) in DB)
28688: T>C (152 strain(s) in DB)
29742: G>T (236 strain(s) in DB)

hCoV-19/Germany/BavPat2/2020 (EPI_ISL_414520) (0.5)
hCoV-19/Australia/VIC752/2020 (MT451523) (0.42)
hCoV-19/Canada/BC_5282984/2020 (EPI_ISL_418832) (0.38)
hCoV-19/England/20134005104/2020 (EPI_ISL_423067) (0.38)
hCoV-19/Turkey/HSGM-1458/2020 (EPI_ISL_437327) (0.36)
hCoV-19/Turkey/HSGM-1492/2020 (EPI_ISL_437320) (0.36)
hCoV-19/Taiwan/CGMH-CGU-11/2020 (MT374107) (0.33)
hCoV-19/Taiwan/NTU11/2020 (EPI_ISL_422413) (0.33)
hCoV-19/Taiwan/TSGH-02/2020 (EPI_ISL_426630) (0.33)
hCoV-19/USA/NY1-PV08001/2020 (MT370904) (0.33)
hCoV-19/United Arab Emirates/L2409/2020 (EPI_ISL_435131) (0.33)
hCoV-19/England/200990660/2020 (EPI_ISL_414523)EPI_ISL_4145232020-02-27 SNP:
241: C>T (7669 strain(s) in DB)
3037: C>T (7693 strain(s) in DB)
14408: C>T (7704 strain(s) in DB)
23403: A>G (7732 strain(s) in DB)
25350: C>T (64 strain(s) in DB)

hCoV-19/England/200991076/2020 (EPI_ISL_414524)EPI_ISL_4409602020-03-01 SNP:
241: C>T (7669 strain(s) in DB)
3037: C>T (7693 strain(s) in DB)
14408: C>T (7704 strain(s) in DB)
16949: C>Y (4 strain(s) in DB)
23403: A>G (7732 strain(s) in DB)
26530: A>G (128 strain(s) in DB)
28739: G>T (9 strain(s) in DB)

hCoV-19/England/CAMB-7477B/2020 (EPI_ISL_425333) (0.86)
hCoV-19/Sweden/20-05469/2020 (EPI_ISL_434644) (0.71)
hCoV-19/Iceland/184/2020 (0.71)
hCoV-19/England/LOND-D36F5/2020 (EPI_ISL_440976) (0.71)
hCoV-19/England/LOND-D38A4/2020 (EPI_ISL_441001) (0.71)
hCoV-19/England/LOND-D37B6/2020 (EPI_ISL_440986) (0.71)
hCoV-19/England/LOND-D369B/2020 (EPI_ISL_440972) (0.71)
hCoV-19/England/LOND-D368C/2020 (EPI_ISL_440971) (0.71)
hCoV-19/England/LOND-D38C2/2020 (EPI_ISL_441003) (0.71)
hCoV-19/Iceland/183/2020 (0.71)
hCoV-19/England/LOND-D35BC/2020 (EPI_ISL_440960) (0.71)
hCoV-19/England/201040081/2020 (EPI_ISL_414525)EPI_ISL_4238092020-03-02 SNP:
241: C>T (7669 strain(s) in DB)
1927: T>W (2 strain(s) in DB)
3037: C>T (7693 strain(s) in DB)
14408: C>T (7704 strain(s) in DB)
23403: A>G (7732 strain(s) in DB)

hCoV-19/Wales/PHWC-26F25/2020 (EPI_ISL_422105) (0.8)
hCoV-19/Australia/VIC682/2020 (MT451478) (0.8)
hCoV-19/Russia/Vector_73406/2020 (EPI_ISL_428885) (0.8)
hCoV-19/Iceland/93/2020 (0.8)
hCoV-19/England/CAMB-73D2F/2020 (EPI_ISL_433688) (0.8)
hCoV-19/Italy/CDG1/2020 (0.8)
hCoV-19/Wales/PHWC-27C1E/2020 (EPI_ISL_432238) (0.8)
hCoV-19/USA/NY-NYUMC69/2020 (EPI_ISL_420585) (0.8)
hCoV-19/Belgium/UGent-25/2020 (EPI_ISL_425064) (0.8)
hCoV-19/USA/NY-NYUMC70/2020 (EPI_ISL_420586) (0.8)
hCoV-19/England/20132081104/2020 (EPI_ISL_423809) (0.8)
hCoV-19/England/201040141/2020 (EPI_ISL_414526)EPI_ISL_4145262020-03-03 SNP:
241: C>T (7669 strain(s) in DB)
3037: C>T (7693 strain(s) in DB)
14408: C>T (7704 strain(s) in DB)
23403: A>G (7732 strain(s) in DB)
25350: C>T (64 strain(s) in DB)

hCoV-19/Hong Kong/case42_VM20002493/2020 (EPI_ISL_414527)EPI_ISL_4145272020-02-09 SNP:
13929: T>C (16 strain(s) in DB)
23717: A>G (2 strain(s) in DB)
26144: G>T (818 strain(s) in DB)
29239: G>T (5 strain(s) in DB)

Deletions:
1: AATTAAAGGTTTATACCTTC...>- (4882 strain(s) in DB)
29803: CTAATGTGTAAAATTAATTT...>C (94 strain(s) in DB)

hCoV-19/Hong Kong/case48_VM20002507/2020 (EPI_ISL_414528)EPI_ISL_4145282020-02-10 SNP:
13929: T>C (16 strain(s) in DB)
26144: G>T (818 strain(s) in DB)

Deletions:
1: AATTAAAGGTTTATACCTTC...>- (4882 strain(s) in DB)
29803: CTAATGTGTAAAATTAATTT...>C (94 strain(s) in DB)

hCoV-19/Netherlands/NoordBrabant_20/2020EPI_ISL_4145292020-03-04
hCoV-19/Netherlands/NoordBrabant_21/2020EPI_ISL_4145302020-03-04
hCoV-19/Netherlands/NoordBrabant_22/2020EPI_ISL_4145312020-03-04
hCoV-19/Netherlands/NoordBrabant_23/2020EPI_ISL_4145322020-03-05
hCoV-19/Netherlands/NoordBrabant_24/2020EPI_ISL_4145332020-03-06
hCoV-19/Netherlands/NoordBrabant_25/2020EPI_ISL_4145342020-03-06
hCoV-19/Netherlands/NoordBrabant_26/2020EPI_ISL_4145352020-03-06
hCoV-19/Netherlands/NoordBrabant_27/2020 (EPI_ISL_414536)EPI_ISL_4228432020-03-08 SNP:
514: T>C (127 strain(s) in DB)
6255: C>T (15 strain(s) in DB)
17410: C>T (64 strain(s) in DB)

Deletions:
1: AATTAAAGGTTTATACCTTC...>- (4882 strain(s) in DB)
1604: AATG>A (288 strain(s) in DB)
29829: TGCTATCCCCATGTGATTTT...>T (405 strain(s) in DB)

hCov-19/Netherlands/NoordBrabant/65/2020 (EPI_ISL_415521) (1)
hCoV-19/Netherlands/NA_77/2020 (EPI_ISL_422837) (0.83)
hCoV-19/Netherlands/NoordBrabant_72/2020 (EPI_ISL_422868) (0.83)
hCoV-19/Netherlands/NA_128/2020 (EPI_ISL_422672) (0.83)
hCoV-19/Netherlands/NA_154/2020 (EPI_ISL_422689) (0.83)
hCoV-19/Netherlands/NoordBrabant_75/2020 (EPI_ISL_422871) (0.83)
hCov-19/Netherlands/NoordBrabant/68/2020 (EPI_ISL_415524) (0.83)
hCov-19/Netherlands/NoordBrabant/44/2020 (EPI_ISL_415501) (0.83)
hCoV-19/Netherlands/NA_193/2020 (EPI_ISL_422728) (0.83)
hCoV-19/Netherlands/Gelderland_5/2020 (EPI_ISL_422641) (0.83)
hCoV-19/Netherlands/NA_83/2020 (EPI_ISL_422843) (0.83)
hCoV-19/Netherlands/NoordBrabant_28/2020 (EPI_ISL_414537)EPI_ISL_4227202020-03-08 SNP:
514: T>C (127 strain(s) in DB)
6255: C>T (15 strain(s) in DB)

Deletions:
1: AATTAAAGGTTTATACCTTC...>- (4882 strain(s) in DB)
1604: AATG>A (288 strain(s) in DB)
29829: TGCTATCCCCATGTGATTTT...>T (405 strain(s) in DB)

hCov-19/Netherlands/NoordBrabant/65/2020 (EPI_ISL_415521) (0.83)
hCoV-19/Netherlands/NoordBrabant_30/2020 (EPI_ISL_414539) (0.83)
hCoV-19/Netherlands/NoordBrabant_27/2020 (EPI_ISL_414536) (0.83)
hCoV-19/Netherlands/Rotterdam_1364040/2020 (EPI_ISL_413583) (0.8)
hCoV-19/Netherlands/NA_227/2020 (EPI_ISL_422762) (0.8)
hCoV-19/Netherlands/NA_207/2020 (EPI_ISL_422742) (0.8)
hCoV-19/Netherlands/NA_226/2020 (EPI_ISL_422761) (0.8)
hCov-19/Netherlands/NA/32/2020 (EPI_ISL_415489) (0.8)
hCoV-19/Netherlands/Naarden_1364774/2020 (EPI_ISL_413577) (0.8)
hCov-19/Netherlands/NoordBrabant/51/2020 (EPI_ISL_415507) (0.8)
hCoV-19/Netherlands/NA_185/2020 (EPI_ISL_422720) (0.8)
hCoV-19/Netherlands/NoordBrabant_29/2020EPI_ISL_4145382020-03-08
hCoV-19/Netherlands/NoordBrabant_30/2020 (EPI_ISL_414539)EPI_ISL_4135832020-03-08 SNP:
514: T>C (127 strain(s) in DB)
6255: C>T (15 strain(s) in DB)
25252: G>T (9 strain(s) in DB)

Deletions:
1: AATTAAAGGTTTATACCTTC...>- (4882 strain(s) in DB)
1604: AATG>A (288 strain(s) in DB)
29829: TGCTATCCCCATGTGATTTT...>T (405 strain(s) in DB)

hCoV-19/Netherlands/NoordBrabant_28/2020 (EPI_ISL_414537) (0.83)
hCoV-19/Netherlands/NoordBrabant_27/2020 (EPI_ISL_414536) (0.71)
hCov-19/Netherlands/NoordBrabant/65/2020 (EPI_ISL_415521) (0.71)
hCoV-19/Netherlands/NA_195/2020 (EPI_ISL_422730) (0.67)
hCov-19/Netherlands/NoordBrabant/51/2020 (EPI_ISL_415507) (0.67)
hCoV-19/Netherlands/NoordBrabant_77/2020 (EPI_ISL_422873) (0.67)
hCoV-19/Netherlands/NoordBrabant_95/2020 (EPI_ISL_422889) (0.67)
hCoV-19/Netherlands/Utrecht_12/2020 (EPI_ISL_414551) (0.67)
hCov-19/Netherlands/NA/32/2020 (EPI_ISL_415489) (0.67)
hCoV-19/Netherlands/NA_207/2020 (EPI_ISL_422742) (0.67)
hCoV-19/Netherlands/Rotterdam_1364040/2020 (EPI_ISL_413583) (0.67)
hCoV-19/Netherlands/NoordBrabant_31/2020EPI_ISL_4145402020-03-08
hCoV-19/Netherlands/NoordBrabant_32/2020EPI_ISL_4145412020-03-08
hCoV-19/Netherlands/NoordBrabant_33/2020EPI_ISL_4145422020-03
hCoV-19/Netherlands/NoordBrabant_34/2020 (EPI_ISL_414543)EPI_ISL_4135772020-03 SNP:
514: T>C (127 strain(s) in DB)
11572: C>T (7 strain(s) in DB)
18647: C>T (4 strain(s) in DB)
25612: T>G (2 strain(s) in DB)
26274: T>C (1 strain(s) in DB)

Deletions:
1: AATTAAAGGTTTATACCTTC...>- (4882 strain(s) in DB)
1604: AATG>A (288 strain(s) in DB)
29829: TGCTATCCCCATGTGATTTT...>T (405 strain(s) in DB)

hCoV-19/Netherlands/NoordBrabant_95/2020 (EPI_ISL_422889) (0.5)
hCoV-19/Netherlands/NA_195/2020 (EPI_ISL_422730) (0.5)
hCov-19/Netherlands/NA/32/2020 (EPI_ISL_415489) (0.5)
hCoV-19/Netherlands/Utrecht_12/2020 (EPI_ISL_414551) (0.5)
hCov-19/Netherlands/NoordBrabant/51/2020 (EPI_ISL_415507) (0.5)
hCoV-19/Netherlands/NA_185/2020 (EPI_ISL_422720) (0.5)
hCoV-19/Netherlands/NoordBrabant_77/2020 (EPI_ISL_422873) (0.5)
hCoV-19/Netherlands/NA_207/2020 (EPI_ISL_422742) (0.5)
hCoV-19/Netherlands/Rotterdam_1364040/2020 (EPI_ISL_413583) (0.5)
hCoV-19/Netherlands/NA_226/2020 (EPI_ISL_422761) (0.5)
hCoV-19/Netherlands/Naarden_1364774/2020 (EPI_ISL_413577) (0.5)
hCoV-19/Netherlands/NoordBrabant_35/2020 (EPI_ISL_414544)EPI_ISL_4228682020-03-09 SNP:
514: T>C (127 strain(s) in DB)
2198: G>A (2 strain(s) in DB)
6255: C>T (15 strain(s) in DB)
10456: C>T (12 strain(s) in DB)
17410: C>T (64 strain(s) in DB)

Deletions:
1: AATTAAAGGTTTATACCTTC...>- (4882 strain(s) in DB)
1604: AATG>A (288 strain(s) in DB)
29829: TGCTATCCCCATGTGATTTT...>T (405 strain(s) in DB)

hCov-19/Netherlands/NoordBrabant/65/2020 (EPI_ISL_415521) (0.75)
hCoV-19/Netherlands/NoordBrabant_27/2020 (EPI_ISL_414536) (0.75)
hCoV-19/Netherlands/NA_77/2020 (EPI_ISL_422837) (0.63)
hCoV-19/Netherlands/NoordBrabant_28/2020 (EPI_ISL_414537) (0.63)
hCoV-19/Netherlands/NA_128/2020 (EPI_ISL_422672) (0.63)
hCoV-19/Netherlands/Gelderland_5/2020 (EPI_ISL_422641) (0.63)
hCov-19/Netherlands/NoordBrabant/44/2020 (EPI_ISL_415501) (0.63)
hCoV-19/Netherlands/NoordBrabant_75/2020 (EPI_ISL_422871) (0.63)
hCoV-19/Netherlands/NA_193/2020 (EPI_ISL_422728) (0.63)
hCoV-19/Netherlands/NA_83/2020 (EPI_ISL_422843) (0.63)
hCoV-19/Netherlands/NoordBrabant_72/2020 (EPI_ISL_422868) (0.63)
hCoV-19/Netherlands/NoordBrabant_36/2020 (EPI_ISL_414545)EPI_ISL_4144232020-03-03 SNP:
241: C>T (7669 strain(s) in DB)
3037: C>T (7693 strain(s) in DB)
3145: G>T (9 strain(s) in DB)
14408: C>T (7704 strain(s) in DB)
23403: A>G (7732 strain(s) in DB)
27046: C>T (266 strain(s) in DB)
28881: G>A (2045 strain(s) in DB)
28882: G>A (2040 strain(s) in DB)
28883: G>C (2036 strain(s) in DB)

Deletions:
1: AATTAAAGGTTTATACCTTC...>- (4882 strain(s) in DB)
29829: TGCTATCCCCATGTGATTTT...>T (405 strain(s) in DB)

hCoV-19/Netherlands/ZuidHolland_19/2020 (EPI_ISL_414561) (1)
hCoV-19/Netherlands/ZuidHolland_15/2020 (EPI_ISL_414557) (1)
hCoV-19/Netherlands/ZuidHolland_20/2020 (EPI_ISL_414562) (0.92)
hCoV-19/Netherlands/NoordHolland_1/2020 (EPI_ISL_414433) (0.91)
hCoV-19/Netherlands/ZuidHolland/25/2020 (EPI_ISL_415529) (0.91)
hCoV-19/Netherlands/NA_284/2020 (EPI_ISL_422593) (0.91)
hCoV-19/Netherlands/NA_51/2020 (EPI_ISL_422812) (0.91)
hCoV-19/Netherlands/Gelderland/3/2020 (EPI_ISL_415463) (0.91)
hCov-19/Netherlands/NoordBrabant/58/2020 (EPI_ISL_415514) (0.91)
hCoV-19/Netherlands/NA_111/2020 (EPI_ISL_422659) (0.91)
hCoV-19/Netherlands/Gelderland_1/2020 (EPI_ISL_414423) (0.91)
hCoV-19/Netherlands/NoordBrabant_37/2020EPI_ISL_4145462020-03-06
hCoV-19/Netherlands/NoordBrabant_38/2020EPI_ISL_4145472020-03-06
hCoV-19/Netherlands/NoordBrabant_39/2020EPI_ISL_4145482020-03-04
hCoV-19/Netherlands/NoordHolland_2/2020 (EPI_ISL_414549)EPI_ISL_4229512020-03-03 SNP:
241: C>T (7669 strain(s) in DB)
3037: C>T (7693 strain(s) in DB)
3145: G>T (9 strain(s) in DB)
14408: C>T (7704 strain(s) in DB)
19839: T>C (113 strain(s) in DB)
23403: A>G (7732 strain(s) in DB)
28881: G>A (2045 strain(s) in DB)
28882: G>A (2040 strain(s) in DB)
28883: G>C (2036 strain(s) in DB)

Deletions:
1: AATTAAAGGTTTATACCTTC...>- (4882 strain(s) in DB)
29829: TGCTATCCCCATGTGATTTT...>T (405 strain(s) in DB)

hCoV-19/Netherlands/NoordBrabant_36/2020 (EPI_ISL_414545) (0.83)
hCoV-19/Netherlands/NA_95/2020 (EPI_ISL_422855) (0.83)
hCoV-19/Netherlands/ZuidHolland_19/2020 (EPI_ISL_414561) (0.83)
hCoV-19/Netherlands/ZuidHolland_103/2020 (EPI_ISL_422902) (0.83)
hCoV-19/Netherlands/ZuidHolland_15/2020 (EPI_ISL_414557) (0.83)
hCoV-19/Switzerland/GE3895/2020 (EPI_ISL_413997) (0.82)
hCoV-19/Netherlands/Nootdorp_1364222/2020 (EPI_ISL_413579) (0.82)
hCoV-19/Netherlands/Tilburg_1364286/2020 (EPI_ISL_413587) (0.82)
hCoV-19/Switzerland/BS0914/2020 (EPI_ISL_415701) (0.82)
hCoV-19/Switzerland/GE0199(2020 (EPI_ISL_415455) (0.82)
hCoV-19/Netherlands/ZuidHolland_83/2020 (EPI_ISL_422951) (0.77)
hCoV-19/Netherlands/Overijssel_2-2/2020EPI_ISL_4145502020-03-06
hCoV-19/Netherlands/Utrecht_12/2020 (EPI_ISL_414551)EPI_ISL_4145512020-03-07 SNP:
514: T>C (127 strain(s) in DB)

Deletions:
1: AATTAAAGGTTTATACCTTC...>- (4882 strain(s) in DB)
1604: AATG>A (288 strain(s) in DB)
29829: TGCTATCCCCATGTGATTTT...>T (405 strain(s) in DB)

hCoV-19/Netherlands/Utrecht_13/2020 (EPI_ISL_414552)EPI_ISL_4145522020-03-07 SNP:
241: C>T (7669 strain(s) in DB)
3037: C>T (7693 strain(s) in DB)
14408: C>T (7704 strain(s) in DB)
23403: A>G (7732 strain(s) in DB)
27046: C>T (266 strain(s) in DB)
28881: G>A (2045 strain(s) in DB)
28882: G>A (2040 strain(s) in DB)
28883: G>C (2036 strain(s) in DB)

Deletions:
1: AATTAAAGGTTTATACCTTC...>- (4882 strain(s) in DB)
29829: TGCTATCCCCATGTGATTTT...>T (405 strain(s) in DB)

hCoV-19/Netherlands/Utrecht_14-2/2020EPI_ISL_4145532020-03-09
hCoV-19/Netherlands/Utrecht_15/2020 (EPI_ISL_414554)EPI_ISL_4135842020-03-08 SNP:
241: C>T (7669 strain(s) in DB)
3037: C>T (7693 strain(s) in DB)
14408: C>T (7704 strain(s) in DB)
22277: C>A (12 strain(s) in DB)
23403: A>G (7732 strain(s) in DB)
27046: C>T (266 strain(s) in DB)
28881: G>A (2045 strain(s) in DB)
28882: G>A (2040 strain(s) in DB)
28883: G>C (2036 strain(s) in DB)

Deletions:
1: AATTAAAGGTTTATACCTTC...>- (4882 strain(s) in DB)
29829: TGCTATCCCCATGTGATTTT...>T (405 strain(s) in DB)

hCoV-19/Netherlands/ZuidHolland/26/2020 (EPI_ISL_415530) (1)
hCov-19/Netherlands/NoordBrabant/55/2020 (EPI_ISL_415511) (1)
hCov-19/Netherlands/NA/12/2020 (EPI_ISL_415468) (1)
hCov-19/Netherlands/NA/8/2020 (EPI_ISL_415497) (0.92)
hCoV-19/Netherlands/Utrecht_13/2020 (EPI_ISL_414552) (0.91)
hCoV-19/Netherlands/Utrecht_21/2020 (EPI_ISL_422898) (0.91)
hCoV-19/Netherlands/NA_130/2020 (EPI_ISL_422674) (0.91)
hCoV-19/Netherlands/Utrecht_5/2020 (EPI_ISL_414439) (0.91)
hCoV-19/Netherlands/NA_111/2020 (EPI_ISL_422659) (0.91)
hCov-19/Netherlands/NoordBrabant/67/2020 (EPI_ISL_415523) (0.91)
hCoV-19/Netherlands/Rotterdam_1364740/2020 (EPI_ISL_413584) (0.91)
hCoV-19/Netherlands/Utrecht_16/2020 (EPI_ISL_414555)EPI_ISL_4145552020-03-08 SNP:
6255: C>T (15 strain(s) in DB)
8782: C>T (1672 strain(s) in DB)
16381: G>A (27 strain(s) in DB)
28144: T>C (1654 strain(s) in DB)
28878: G>A (75 strain(s) in DB)
29742: G>A (236 strain(s) in DB)

Deletions:
1: AATTAAAGGTTTATACCTTC...>- (4882 strain(s) in DB)
29829: TGCTATCCCCATGTGATTTT...>T (405 strain(s) in DB)

hCoV-19/Netherlands/ZuidHolland_2/2020EPI_ISL_4145562020-03-06
hCoV-19/Netherlands/ZuidHolland_15/2020 (EPI_ISL_414557)EPI_ISL_4226592020-03-08 SNP:
241: C>T (7669 strain(s) in DB)
3037: C>T (7693 strain(s) in DB)
3145: G>T (9 strain(s) in DB)
14408: C>T (7704 strain(s) in DB)
23403: A>G (7732 strain(s) in DB)
27046: C>T (266 strain(s) in DB)
28881: G>A (2045 strain(s) in DB)
28882: G>A (2040 strain(s) in DB)
28883: G>C (2036 strain(s) in DB)

Deletions:
1: AATTAAAGGTTTATACCTTC...>- (4882 strain(s) in DB)
29829: TGCTATCCCCATGTGATTTT...>T (405 strain(s) in DB)

hCoV-19/Netherlands/NoordBrabant_36/2020 (EPI_ISL_414545) (1)
hCoV-19/Netherlands/ZuidHolland_19/2020 (EPI_ISL_414561) (1)
hCoV-19/Netherlands/ZuidHolland_20/2020 (EPI_ISL_414562) (0.92)
hCoV-19/Netherlands/NoordHolland_1/2020 (EPI_ISL_414433) (0.91)
hCoV-19/Netherlands/NA_272/2020 (EPI_ISL_422583) (0.91)
hCoV-19/Netherlands/NA_284/2020 (EPI_ISL_422593) (0.91)
hCoV-19/Netherlands/ZuidHolland/25/2020 (EPI_ISL_415529) (0.91)
hCoV-19/Netherlands/NA_51/2020 (EPI_ISL_422812) (0.91)
hCoV-19/Netherlands/Gelderland/3/2020 (EPI_ISL_415463) (0.91)
hCov-19/Netherlands/NoordBrabant/58/2020 (EPI_ISL_415514) (0.91)
hCoV-19/Netherlands/NA_111/2020 (EPI_ISL_422659) (0.91)
hCoV-19/Netherlands/ZuidHolland_16/2020 (EPI_ISL_414558)EPI_ISL_4212602020-03-06 SNP:
61: G>T (4 strain(s) in DB)
1397: G>A (164 strain(s) in DB)
3145: G>T (9 strain(s) in DB)
11083: G>T (1220 strain(s) in DB)
20235: C>A (4 strain(s) in DB)
20787: T>C (2 strain(s) in DB)
22042: T>C (4 strain(s) in DB)
28688: T>C (152 strain(s) in DB)
28835: T>C (16 strain(s) in DB)
29742: G>T (236 strain(s) in DB)

Deletions:
1: AATTAAAGGTTTATACCTTC...>- (4882 strain(s) in DB)
29829: TGCTATCCCCATGTGATTTT...>T (405 strain(s) in DB)

hCoV-19/United Arab Emirates/L0904/2020 (EPI_ISL_435126) (0.69)
hCoV-19/Australia/VIC66/2020 (MT450980) (0.38)
hCoV-19/Kuwait/KU17/2020 (EPI_ISL_416542) (0.38)
hCoV-19/Australia/VIC58/2020 (MT450973) (0.38)
hCoV-19/Australia/VIC97/2020 (MT451007) (0.38)
BetaCoV/Australia/NSW07/2020 (EPI_ISL_413214) (0.36)
hCoV-19/Turkey/HSGM-11518/2020 (EPI_ISL_429872) (0.36)
hCoV-19/Canada/ON_PHL3919/2020 (EPI_ISL_418323) (0.36)
hCoV-19/Australia/VIC30/2020 (MT450945) (0.36)
hCoV-19/Canada/ON_PHL3917/2020 (EPI_ISL_418322) (0.36)
hCoV-19/Xinyu/JX124/2020 (EPI_ISL_421260) (0.36)
hCoV-19/Netherlands/ZuidHolland_17/2020 (EPI_ISL_414559)EPI_ISL_4135932020-03-07 SNP:
241: C>T (7669 strain(s) in DB)
3037: C>T (7693 strain(s) in DB)
3145: G>T (9 strain(s) in DB)
14408: C>T (7704 strain(s) in DB)
23403: A>G (7732 strain(s) in DB)

Deletions:
1: AATTAAAGGTTTATACCTTC...>- (4882 strain(s) in DB)
29829: TGCTATCCCCATGTGATTTT...>T (405 strain(s) in DB)

hCoV-19/Netherlands/Gelderland_6/2020 (EPI_ISL_422642) (0.86)
hCoV-19/Netherlands/Zeewolde_1365080/2020 (EPI_ISL_413591) (0.86)
hCoV-19/Netherlands/Blaricum_1364780/2020 (EPI_ISL_413566) (0.86)
hCoV-19/Netherlands/Utrecht_11/2020 (EPI_ISL_414443) (0.86)
hCov-19/Netherlands/NA/16/2020 (EPI_ISL_415472) (0.75)
hCoV-19/Netherlands/NoordBrabant_102/2020 (EPI_ISL_422861) (0.75)
hCoV-19/Netherlands/NoordBrabant_100/2020 (EPI_ISL_422859) (0.75)
hCoV-19/Netherlands/NA_91/2020 (EPI_ISL_422851) (0.75)
hCov-19/Netherlands/NoordBrabant/64/2020 (EPI_ISL_415520) (0.75)
hCoV-19/Netherlands/Gelderland/2/2020 (EPI_ISL_415462) (0.75)
hCoV-19/Luxemburg/Lux1/2020 (EPI_ISL_413593) (0.75)
hCoV-19/Netherlands/ZuidHolland_18/2020EPI_ISL_4145602020-03-03
hCoV-19/Netherlands/ZuidHolland_19/2020 (EPI_ISL_414561)EPI_ISL_4226592020-03-05 SNP:
241: C>T (7669 strain(s) in DB)
3037: C>T (7693 strain(s) in DB)
3145: G>T (9 strain(s) in DB)
14408: C>T (7704 strain(s) in DB)
23403: A>G (7732 strain(s) in DB)
27046: C>T (266 strain(s) in DB)
28881: G>A (2045 strain(s) in DB)
28882: G>A (2040 strain(s) in DB)
28883: G>C (2036 strain(s) in DB)

Deletions:
1: AATTAAAGGTTTATACCTTC...>- (4882 strain(s) in DB)
29829: TGCTATCCCCATGTGATTTT...>T (405 strain(s) in DB)

hCoV-19/Netherlands/NoordBrabant_36/2020 (EPI_ISL_414545) (1)
hCoV-19/Netherlands/ZuidHolland_15/2020 (EPI_ISL_414557) (1)
hCoV-19/Netherlands/ZuidHolland_20/2020 (EPI_ISL_414562) (0.92)
hCoV-19/Netherlands/NoordHolland_1/2020 (EPI_ISL_414433) (0.91)
hCoV-19/Netherlands/NA_272/2020 (EPI_ISL_422583) (0.91)
hCoV-19/Netherlands/NA_284/2020 (EPI_ISL_422593) (0.91)
hCoV-19/Netherlands/NA_51/2020 (EPI_ISL_422812) (0.91)
hCoV-19/Netherlands/ZuidHolland/25/2020 (EPI_ISL_415529) (0.91)
hCoV-19/Netherlands/Gelderland/3/2020 (EPI_ISL_415463) (0.91)
hCov-19/Netherlands/NoordBrabant/58/2020 (EPI_ISL_415514) (0.91)
hCoV-19/Netherlands/NA_111/2020 (EPI_ISL_422659) (0.91)
hCoV-19/Netherlands/ZuidHolland_20/2020 (EPI_ISL_414562)EPI_ISL_4145522020-03-03 SNP:
241: C>T (7669 strain(s) in DB)
2507: C>T (5 strain(s) in DB)
3037: C>T (7693 strain(s) in DB)
3145: G>T (9 strain(s) in DB)
14408: C>T (7704 strain(s) in DB)
23403: A>G (7732 strain(s) in DB)
27046: C>T (266 strain(s) in DB)
28881: G>A (2045 strain(s) in DB)
28882: G>A (2040 strain(s) in DB)
28883: G>C (2036 strain(s) in DB)

Deletions:
1: AATTAAAGGTTTATACCTTC...>- (4882 strain(s) in DB)
29829: TGCTATCCCCATGTGATTTT...>T (405 strain(s) in DB)

hCoV-19/Netherlands/ZuidHolland_15/2020 (EPI_ISL_414557) (0.92)
hCoV-19/Netherlands/ZuidHolland_19/2020 (EPI_ISL_414561) (0.92)
hCoV-19/Netherlands/NoordBrabant_36/2020 (EPI_ISL_414545) (0.92)
hCoV-19/Netherlands/Gelderland_1/2020 (EPI_ISL_414423) (0.83)
hCoV-19/Netherlands/NA_51/2020 (EPI_ISL_422812) (0.83)
hCoV-19/Netherlands/Rotterdam_1364740/2020 (EPI_ISL_413584) (0.83)
hCoV-19/Netherlands/ZuidHolland_10/2020 (EPI_ISL_414446) (0.83)
hCoV-19/Netherlands/NA_130/2020 (EPI_ISL_422674) (0.83)
hCov-19/Netherlands/NA/7/2020 (EPI_ISL_415496) (0.83)
hCoV-19/Netherlands/NA_272/2020 (EPI_ISL_422583) (0.83)
hCoV-19/Netherlands/Utrecht_13/2020 (EPI_ISL_414552) (0.83)
hCoV-19/Netherlands/ZuidHolland_21/2020 (EPI_ISL_414563)EPI_ISL_4227612020-03-03 SNP:
3145: G>T (9 strain(s) in DB)
12621: C>T (5 strain(s) in DB)

Deletions:
1: AATTAAAGGTTTATACCTTC...>- (4882 strain(s) in DB)
1604: AATG>A (288 strain(s) in DB)
29829: TGCTATCCCCATGTGATTTT...>T (405 strain(s) in DB)

hCoV-19/Netherlands/ZuidHolland_47/2020 (EPI_ISL_422918) (0.8)
hCoV-19/Netherlands/Rotterdam_1363790/2020 (EPI_ISL_413582) (0.8)
hCoV-19/Netherlands/Utrecht_1364066/2020 (EPI_ISL_413590) (0.6)
hCoV-19/Netherlands/Oisterwijk_1364072/2020 (EPI_ISL_413580) (0.6)
hCoV-19/Netherlands/ZuidHolland_7/2020 (EPI_ISL_414467) (0.57)
hCoV-19/Netherlands/Rotterdam_1364040/2020 (EPI_ISL_413583) (0.5)
hCoV-19/Netherlands/Naarden_1364774/2020 (EPI_ISL_413577) (0.5)
hCoV-19/Netherlands/NA_227/2020 (EPI_ISL_422762) (0.5)
hCov-19/Netherlands/NA/32/2020 (EPI_ISL_415489) (0.5)
hCov-19/Netherlands/NoordBrabant/51/2020 (EPI_ISL_415507) (0.5)
hCoV-19/Netherlands/NA_226/2020 (EPI_ISL_422761) (0.5)
hCoV-19/Netherlands/ZuidHolland_22/2020 (EPI_ISL_414564)EPI_ISL_4145642020-03-08 SNP:
241: C>T (7669 strain(s) in DB)
3037: C>T (7693 strain(s) in DB)
14408: C>T (7704 strain(s) in DB)
23403: A>G (7732 strain(s) in DB)
27046: C>T (266 strain(s) in DB)
28881: G>A (2045 strain(s) in DB)
28882: G>A (2040 strain(s) in DB)
28883: G>C (2036 strain(s) in DB)

Deletions:
1: AATTAAAGGTTTATACCTTC...>- (4882 strain(s) in DB)
29829: TGCTATCCCCATGTGATTTT...>T (405 strain(s) in DB)

hCoV-19/Netherlands/ZuidHolland_23/2020EPI_ISL_4145652020-03-09
hCoV-19/Netherlands/ZuidHolland_24/2020EPI_ISL_4145662020-03-06
hCoV-19/Hong Kong/VM20002508-2/2020EPI_ISL_4145672020-02-10
hCoV-19/Iran/113-2/2020EPI_ISL_4145682020-02-19
hCoV-19/Hong Kong/case52_VM20002582/2020 (EPI_ISL_414569)EPI_ISL_4145692020-02-12 SNP:
13929: T>C (16 strain(s) in DB)
25500: G>A (24 strain(s) in DB)
26144: G>T (818 strain(s) in DB)

Deletions:
1: AATTAAAGGTTTATACCTTC...>- (4882 strain(s) in DB)
29803: CTAATGTGTAAAATTAATTT...>C (94 strain(s) in DB)

hCoV-19/Hong Kong/case78_VM20002849/2020 (EPI_ISL_414571)LC5709732020-02-22 SNP:
11083: G>T (1220 strain(s) in DB)
29366: C>T (3 strain(s) in DB)

Deletions:
1: AATTAAAGGTTTATACCTTC...>- (4882 strain(s) in DB)
29803: CTAATGTGTAAAATTAATTT...>C (94 strain(s) in DB)

hCoV-19/Portugal/PT0020/2020 (EPI_ISL_418005) (0.43)
hCoV-19/Portugal/PT0040/2020 (EPI_ISL_418025) (0.43)
hCoV-19/Australia/NT05/2020 (MT641648) (0.4)
hCoV-19/Japan/DP0344/2020 (LC570994) (0.4)
hCoV-19/Japan/DP0078/2020 (LC570970) (0.4)
hCoV-19/Japan/DP0785/2020 (LC571034) (0.4)
hCoV-19/Japan/DP0289/2020 (LC570988) (0.4)
hCoV-19/Japan/DP0059/2020 (LC570967) (0.4)
hCoV-19/Japan/DP0786/2020 (LC571035) (0.4)
hCoV-19/Japan/DP0294/2020 (LC570990) (0.4)
hCoV-19/Japan/DP0121/2020 (LC570973) (0.4)
hCoV-19/Iran/133-2/2020EPI_ISL_4145722020-02-20
hCoV-19/Iran/137-2/2020EPI_ISL_4145732020-02-20
hCoV-19/Iran/113-1/2020EPI_ISL_4145752020-02-19
hCoV-19/Chile/Talca-1/2020 (EPI_ISL_414577)CNA00137002020-03-02 SNP:
1: A>G (4882 strain(s) in DB)
2: T>G (55 strain(s) in DB)
4: A>G (66 strain(s) in DB)
6: A>C (19 strain(s) in DB)
7: G>A (27 strain(s) in DB)
8: G>T (40 strain(s) in DB)
9: T>C (22 strain(s) in DB)
8782: C>T (1672 strain(s) in DB)
17470: C>T (18 strain(s) in DB)
18907: G>T (4 strain(s) in DB)
26088: C>T (61 strain(s) in DB)
28144: T>C (1654 strain(s) in DB)
28580: G>T (45 strain(s) in DB)

Deletions:
29850: ATAGCTTCTTAGGAGAATGA...>A (36 strain(s) in DB)

hCov-19/Chile/Talca-2/2020 (EPI_ISL_414578) (0.47)
hCoV-19/Hangzhou/ZJU-02/2020 (EPI_ISL_416042) (0.4)
hCoV-19/Scotland/CVR458/2020 (EPI_ISL_433298) (0.33)
hCoV-19/USA/WA-UW67/2020 (MT252793) (0.3)
hCoV-19/Greece/145/2020 (EPI_ISL_434464) (0.29)
hCoV-19/Scotland/EDB326/2020 (EPI_ISL_425972) (0.29)
hCoV-19/Scotland/EDB589/2020 (EPI_ISL_433207) (0.29)
hCoV-19/Scotland/CVR968/2020 (EPI_ISL_433367) (0.29)
hCoV-19/Australia/VIC138/2020 (MT451042) (0.29)
hCoV-19/Scotland/EDB222/2020 (EPI_ISL_425948) (0.29)
Guangzhou/GZ8H0004/2020 (CNA0013700) (0.29)
hCov-19/Chile/Talca-2/2020 (EPI_ISL_414578)EPI_ISL_4334432020-03-04 SNP:
8782: C>T (1672 strain(s) in DB)
17470: C>T (18 strain(s) in DB)
18907: G>K (4 strain(s) in DB)
26088: C>T (61 strain(s) in DB)
28144: T>C (1654 strain(s) in DB)
28580: G>T (45 strain(s) in DB)

Deletions:
1: AATTAAAGGTTTATACCTTC...>- (4882 strain(s) in DB)
29838: CATGTGATTTTAATAGCTTC...>C (10 strain(s) in DB)

hCoV-19/Scotland/CVR458/2020 (EPI_ISL_433298) (0.56)
hCoV-19/Scotland/EDB222/2020 (EPI_ISL_425948) (0.5)
hCoV-19/Scotland/EDB589/2020 (EPI_ISL_433207) (0.5)
hCoV-19/Australia/VIC138/2020 (MT451042) (0.5)
hCoV-19/Scotland/CVR968/2020 (EPI_ISL_433367) (0.5)
hCoV-19/Scotland/EDB442/2020 (EPI_ISL_426007) (0.5)
hCoV-19/Scotland/EDB326/2020 (EPI_ISL_425972) (0.5)
hCoV-19/Chile/Talca-1/2020 (EPI_ISL_414577) (0.47)
hCoV-19/Scotland/EDB2065/2020 (EPI_ISL_433172) (0.44)
hCoV-19/Scotland/EDB2064/2020 (EPI_ISL_433171) (0.44)
hCoV-19/Scotland/EDB1428/2020 (EPI_ISL_433443) (0.44)
hCov-19/Chile/Santiago-1/2020 (EPI_ISL_414579)EPI_ISL_4201172020-03-03 SNP:
1884: C>Y (4 strain(s) in DB)
8782: C>T (1672 strain(s) in DB)
9477: T>A (113 strain(s) in DB)
14805: C>T (875 strain(s) in DB)
25979: G>T (113 strain(s) in DB)
28144: T>C (1654 strain(s) in DB)
28657: C>T (132 strain(s) in DB)
28863: C>T (116 strain(s) in DB)

Deletions:
1: AATTAAAGGTTTATACCTTC...>- (4882 strain(s) in DB)
29837: CCATGTGATTTTAATAGCTT...>C (23 strain(s) in DB)

hCoV-19/Georgia/Tb-390/2020 (EPI_ISL_416477) (0.82)
hCoV-19/Netherlands/Limburg_9/2020 (EPI_ISL_422648) (0.73)
hCoV-19/Australia/VIC367/2020 (MT451258) (0.73)
hCoV-19/Spain/Valencia39/2020 (EPI_ISL_420124) (0.73)
hCoV-19/Spain/Valencia38/2020 (EPI_ISL_420123) (0.73)
hCoV-19/Spain/Valencia37/2020 (EPI_ISL_420122) (0.73)
hCoV-19/Spain/Valencia36/2020 (EPI_ISL_420121) (0.73)
hCoV-19/Netherlands/NA_42/2020 (EPI_ISL_422803) (0.73)
hCoV-19/Spain/Valencia35/2020 (EPI_ISL_420120) (0.73)
hCoV-19/Spain/Valencia34/2020 (EPI_ISL_420119) (0.73)
hCoV-19/Spain/Valencia32/2020 (EPI_ISL_420117) (0.73)
hCoV-19/Chile/Santiago-2/2020 (EPI_ISL_414580)MT4510922020-03-05 SNP:
241: C>T (7669 strain(s) in DB)
3037: C>T (7693 strain(s) in DB)
3393: C>T (11 strain(s) in DB)
14408: C>T (7704 strain(s) in DB)
23403: A>G (7732 strain(s) in DB)
28881: G>A (2045 strain(s) in DB)
28882: G>A (2040 strain(s) in DB)
28883: G>C (2036 strain(s) in DB)

Deletions:
1: AATTAAAGGTTTATACCTTC...>- (4882 strain(s) in DB)
29834: TCCCCATGTGATTTTAATAG...>T (6 strain(s) in DB)

hCoV-19/Wales/PHWC-29D55/2020 (EPI_ISL_432244) (0.8)
hCoV-19/Wales/PHWC-26981/2020 (EPI_ISL_422023) (0.8)
hCoV-19/Australia/VIC238/2020 (MT451136) (0.8)
hCoV-19/Australia/VIC309/2020 (MT451201) (0.8)
hCoV-19/Australia/VIC219/2020 (MT451120) (0.8)
hCoV-19/Wales/PHWC-26E19/2020 (EPI_ISL_422044) (0.8)
hCoV-19/Australia/VIC250/2020 (MT451147) (0.8)
hCoV-19/Wales/PHWC-2649F/2020 (EPI_ISL_422032) (0.8)
hCoV-19/Northern Ireland/NIRE-102094/2020 (EPI_ISL_441375) (0.8)
hCoV-19/Australia/VIC387/2020 (MT451274) (0.8)
hCoV-19/Australia/VIC190/2020 (MT451092) (0.8)
hCoV-19/Ireland/Dublin-19072/2020EPI_ISL_4145842020-03-02
hCoV-19/Ireland/Limerick-19933/2020EPI_ISL_4145852020-03-03
hCoV-19/Ireland/Limerick-19934/2020 (EPI_ISL_414586)EPI_ISL_4145872020-03-03 SNP:
241: C>T (7669 strain(s) in DB)
3037: C>T (7693 strain(s) in DB)
14408: C>T (7704 strain(s) in DB)
23403: A>G (7732 strain(s) in DB)
29769: C>T (19 strain(s) in DB)

Deletions:
1: AATTAAAGGTTTATACCTTC...>- (4882 strain(s) in DB)
29836: CCCATGTGATTTTAATAGCT...>C (754 strain(s) in DB)

hCoV-19/USA/MN58-MDH58/2020 (EPI_ISL_417502) (0.86)
hCoV-19/Scotland/CVR54/2020 (EPI_ISL_425783) (0.86)
hCoV-19/Scotland/CVR62/2020 (EPI_ISL_425790) (0.86)
hCoV-19/Wales/PHW1/2020 (EPI_ISL_413555) (0.86)
hCoV-19/USA/WI-151/2020 (EPI_ISL_427458) (0.86)
hCoV-19/USA/MN43-MDH43/2020 (EPI_ISL_417479) (0.86)
hCoV-19/USA/WI-134/2020 (EPI_ISL_427441) (0.86)
hCoV-19/USA/WI-UW-265/2020 (MT429187) (0.86)
hCoV-19/Scotland/CVR131/2020 (EPI_ISL_425674) (0.86)
hCoV-19/Scotland/CVR247/2020 (EPI_ISL_438913) (0.86)
hCoV-19/Ireland/Limerick-19935/2020 (EPI_ISL_414587) (0.86)
hCoV-19/Ireland/Limerick-19935/2020 (EPI_ISL_414587)EPI_ISL_4145872020-03-03 SNP:
241: C>T (7669 strain(s) in DB)
3037: C>T (7693 strain(s) in DB)
14408: C>T (7704 strain(s) in DB)
23403: A>G (7732 strain(s) in DB)

Deletions:
1: AATTAAAGGTTTATACCTTC...>- (4882 strain(s) in DB)
29836: CCCATGTGATTTTAATAGCT...>C (754 strain(s) in DB)

hCoV-19/USA/WA-UW22/2020 (EPI_ISL_414591)EPI_ISL_4298722020-03-06 SNP:
37: C>T (206 strain(s) in DB)
40: C>T (7 strain(s) in DB)
1397: G>A (164 strain(s) in DB)
11083: G>T (1220 strain(s) in DB)
28688: T>C (152 strain(s) in DB)
29742: G>T (236 strain(s) in DB)

Deletions:
1: AATTAAAGGTTTATA>- (4882 strain(s) in DB)
18: TCCCAGGTAACAAACCAAC>T (140 strain(s) in DB)
29893: AAAAAAAAAAA>A (26 strain(s) in DB)

hCoV-19/Australia/VIC97/2020 (MT451007) (0.5)
hCoV-19/Kuwait/KU17/2020 (EPI_ISL_416542) (0.5)
hCoV-19/Australia/VIC66/2020 (MT450980) (0.5)
hCoV-19/Australia/VIC58/2020 (MT450973) (0.5)
hCoV-19/Australia/VIC30/2020 (MT450945) (0.45)
BetaCoV/Australia/NSW07/2020 (EPI_ISL_413214) (0.45)
hCoV-19/Canada/ON_PHL3917/2020 (EPI_ISL_418322) (0.45)
hCoV-19/Australia/VIC294/2020 (MT451186) (0.45)
hCoV-19/Canada/ON_PHL3919/2020 (EPI_ISL_418323) (0.45)
hCoV-19/Xinyu/JX124/2020 (EPI_ISL_421260) (0.45)
hCoV-19/Turkey/HSGM-11518/2020 (EPI_ISL_429872) (0.45)
hCoV-19/USA/WA-UW23/2020 (EPI_ISL_414592)MT2527982020-03-06 SNP:
35: A>W (167 strain(s) in DB)
8782: C>T (1672 strain(s) in DB)
17747: C>T (1036 strain(s) in DB)
17858: A>G (1049 strain(s) in DB)
18060: C>T (1069 strain(s) in DB)
28144: T>C (1654 strain(s) in DB)

Deletions:
1: AATTAAAGGTTTATACCTTC...>- (4882 strain(s) in DB)
29901: AAA>A (60 strain(s) in DB)

SARS-CoV-2/human/USAWA-UW422/2020 (MT293187) (0.89)
hCoV-19/USA/WA-UW20/2020 (EPI_ISL_414368) (0.88)
SARS-CoV-2/WA-UW369/human/2020/USA (MT263449) (0.88)
hCoV-19/USA/IL-UW-1311/2020 (MT326181) (0.88)
hCoV-19/USA/WA-UW274/2020 (MT259266) (0.88)
SARS-CoV-2/WA-UW376/human/2020/USA (MT263456) (0.88)
hCoV-19/USA/CA-CZBRR057IX00079/2020 (MT385429) (0.75)
hCoV-19/USA/WA-UW118/2020 (MT252782) (0.75)
hCoV-19/USA/WA-UW-2203/2020 (MT345833) (0.75)
hCoV-19/USA/WA-UW249/2020 (MT259241) (0.75)
hCoV-19/USA/WA-UW70/2020 (MT252798) (0.75)
hCoV-19/USA/WA-UW24/2020 (EPI_ISL_414593)EPI_ISL_4136532020-03-05 SNP:
8782: C>T (1672 strain(s) in DB)
17747: C>T (1036 strain(s) in DB)
17858: A>G (1049 strain(s) in DB)
18060: C>T (1069 strain(s) in DB)
28144: T>C (1654 strain(s) in DB)

Deletions:
1: AATTAAAGGTTTATACCTTC...>- (4882 strain(s) in DB)
29895: AAAAAAAAA>A (29 strain(s) in DB)

hCoV-19/USA/WA-UW195/2020 (MT246452) (0.88)
hCoV-19/USA/WA-UW284/2020 (MT259274) (0.88)
hCoV-19/USA/WA-UW249/2020 (MT259241) (0.86)
hCoV-19/USA/CA-CZBRR057IX00079/2020 (MT385429) (0.86)
hCoV-19/USA/WA-UW70/2020 (MT252798) (0.86)
hCoV-19/USA/WA-UW118/2020 (MT252782) (0.86)
hCoV-19/USA/WA-UW-2203/2020 (MT345833) (0.86)
hCoV-19/USA/WA-UW95/2020 (MT252694) (0.78)
hCoV-19/USA/WA-UW215/2020 (MT246472) (0.78)
SARS-CoV-2/human/USAWA-UW421/2020 (MT293186) (0.78)
hCoV-19/USA/WA18-UW14/2020 (EPI_ISL_413653) (0.75)
hCoV-19/USA/WA-UW25/2020EPI_ISL_4145942020-03-05
hCoV-19/USA/WA-UW26/2020 (EPI_ISL_414595)MT3458332020-03-05 SNP:
3: T>G (52 strain(s) in DB)
832: C>T (5 strain(s) in DB)
8782: C>T (1672 strain(s) in DB)
17747: C>T (1036 strain(s) in DB)
17858: A>G (1049 strain(s) in DB)
18060: C>T (1069 strain(s) in DB)
28144: T>C (1654 strain(s) in DB)

Deletions:
1: AA>- (4882 strain(s) in DB)
29899: AAAAA>A (69 strain(s) in DB)

hCoV-19/USA/WA-UW-3810/2020 (MT358675) (0.78)
hCoV-19/USA/WA-UW-1295/2020 (EPI_ISL_422990) (0.78)
hCoV-19/USA/WA-UW92/2020 (MT252691) (0.78)
hCoV-19/USA/WA-UW179/2020 (MT252713) (0.78)
SARS-CoV-2/human/USACT-UW420/2020 (MT293185) (0.78)
hCoV-19/Puerto_Rico/CDC-S3/2020 (MT419812) (0.78)
hCoV-19/USA/WA-UW234/2020 (MT251977) (0.7)
hCoV-19/USA/WA16-UW12/2020 (EPI_ISL_413651) (0.7)
hCoV-19/USA/WA-UW-3895/2020 (MT358710) (0.7)
hCoV-19/USA/CA-CZBRR057IX00079/2020 (MT385429) (0.67)
hCoV-19/USA/WA-UW-2203/2020 (MT345833) (0.67)
hCoV-19/USA/WA-UW27/2020EPI_ISL_4145962020-03-04
hCoV-19/USA/WA-UW28/2020 (EPI_ISL_414597)MT3458332020-03-04 SNP:
150: T>C (12 strain(s) in DB)
153: T>G (11 strain(s) in DB)
5860: T>C (3 strain(s) in DB)
8782: C>T (1672 strain(s) in DB)
17747: C>T (1036 strain(s) in DB)
17858: A>G (1049 strain(s) in DB)
18060: C>T (1069 strain(s) in DB)
28144: T>C (1654 strain(s) in DB)

Deletions:
1: AATTAAAGGTTTATACCTTC...>- (4882 strain(s) in DB)

hCoV-19/USA/WA-UW84/2020 (MT252683) (0.8)
hCoV-19/USA/WA-UW37/2020 (MT252822) (0.73)
hCoV-19/USA/WA-UW-1656/2020 (MT326123) (0.73)
hCoV-19/USA/WA-UW66/2020 (MT252796) (0.7)
hCoV-19/USA/CA-CZBRR057IX00079/2020 (MT385429) (0.67)
hCoV-19/USA/WA-UW30/2020 (EPI_ISL_414617) (0.67)
hCoV-19/USA/WA-UW118/2020 (MT252782) (0.67)
hCoV-19/USA/WA-UW70/2020 (MT252798) (0.67)
hCoV-19/USA/WA-UW249/2020 (MT259241) (0.67)
hCoV-19/USA/WA-UW42/2020 (MT252803) (0.67)
hCoV-19/USA/WA-UW-2203/2020 (MT345833) (0.67)
hCoV-19/Italy/MBS-Cagliari-1/2020EPI_ISL_4145992020-03
hCoV-19/France/GE1583/2020 (EPI_ISL_414600)EPI_ISL_4192402020-02-26 SNP:
8782: C>T (1672 strain(s) in DB)
9477: T>A (113 strain(s) in DB)
14805: C>T (875 strain(s) in DB)
25553: C>T (3 strain(s) in DB)
25979: G>T (113 strain(s) in DB)
28144: T>C (1654 strain(s) in DB)
28657: C>T (132 strain(s) in DB)
28863: C>T (116 strain(s) in DB)

Deletions:
29862: GAGAATGACAAAAAAAAAAA...>G (145 strain(s) in DB)

hCoV-19/England/LOND-D3631/2020 (EPI_ISL_440967) (0.78)
hCoV-19/Spain/LaRioja201575/2020 (EPI_ISL_419234) (0.7)
hCoV-19/Spain/Canarias201495/2020 (EPI_ISL_419233) (0.7)
hCoV-19/Spain/PaisVasco201382/2020 (EPI_ISL_418253) (0.7)
hCoV-19/Spain/CastillayLeon201372/2020 (EPI_ISL_418249) (0.7)
hCoV-19/Spain/CastillayLeon201323/2020 (EPI_ISL_418248) (0.7)
hCoV-19/England/CAMB-82CC6/2020 (EPI_ISL_438679) (0.7)
hCoV-19/Senegal/136/2020 (EPI_ISL_418216) (0.7)
hCoV-19/England/20139064904/2020 (EPI_ISL_423352) (0.7)
hCoV-19/Kazakhstan/NCB-5/2020 (MT428554) (0.7)
hCoV-19/Spain/PaisVasco201607/2020 (EPI_ISL_419240) (0.7)
hCoV-19/France/N1620/2020 (EPI_ISL_414601)EPI_ISL_4206362020-02-27 SNP:
18: T>C (140 strain(s) in DB)
187: A>G (94 strain(s) in DB)
241: C>T (7669 strain(s) in DB)
3037: C>T (7693 strain(s) in DB)
10728: C>T (2 strain(s) in DB)
14408: C>T (7704 strain(s) in DB)
23403: A>G (7732 strain(s) in DB)

Deletions:
1: AAT>- (4882 strain(s) in DB)
29862: GAGAATGACAAAAAAAAAAA...>G (145 strain(s) in DB)

hCoV-19/France/N1620/2020/P1 (EPI_ISL_414624) (0.78)
hCoV-19/Scotland/CVR355/2020 (EPI_ISL_439063) (0.6)
hCoV-19/Switzerland/TI9486/2020 (EPI_ISL_413996) (0.6)
hCoV-19/USA/CA-CZBRR057IX00089/2020 (MT385474) (0.6)
hCoV-19/Greece/56_37161/2020 (MT459925) (0.6)
hCoV-19/Wales/PHWC-29E07/2020 (EPI_ISL_432267) (0.56)
hCoV-19/Australia/VIC198/2020 (MT451100) (0.56)
hCoV-19/England/CAMB-78407/2020 (EPI_ISL_433731) (0.56)
hCoV-19/England/CAMB-783FB/2020 (EPI_ISL_433730) (0.56)
hCoV-19/England/CAMB-78355/2020 (EPI_ISL_433721) (0.56)
hCoV-19/England/20136085404/2020 (EPI_ISL_420636) (0.56)
hCoV-19/USA/WA-UW29/2020 (EPI_ISL_414616)EPI_ISL_4146162020-03-08 SNP:
241: C>T (7669 strain(s) in DB)
1059: C>T (2820 strain(s) in DB)
3037: C>T (7693 strain(s) in DB)
14408: C>T (7704 strain(s) in DB)
23403: A>G (7732 strain(s) in DB)
25563: G>T (3418 strain(s) in DB)
29553: G>A (248 strain(s) in DB)

Deletions:
1: AATTAAAGGTTTATACCTTC...>- (4882 strain(s) in DB)

hCoV-19/USA/WA-UW30/2020 (EPI_ISL_414617)MT3458422020-03-08 SNP:
150: T>C (12 strain(s) in DB)
153: T>G (11 strain(s) in DB)
8782: C>T (1672 strain(s) in DB)
17747: C>T (1036 strain(s) in DB)
17858: A>G (1049 strain(s) in DB)
18060: C>T (1069 strain(s) in DB)
26530: A>G (128 strain(s) in DB)
28144: T>C (1654 strain(s) in DB)
29422: G>A (18 strain(s) in DB)

Deletions:
1: AATTAAAGGTTTATACCTTC...>- (4882 strain(s) in DB)
29902: AA>A (94 strain(s) in DB)

hCoV-19/USA/WA-UW28/2020 (EPI_ISL_414597) (0.67)
hCoV-19/USA/WA-UW84/2020 (MT252683) (0.67)
SARS-CoV-2/human/USAWA-UW403/2020 (MT293168) (0.64)
hCoV-19/USA/WA-UW33/2020 (EPI_ISL_414620) (0.64)
hCoV-19/USA/WA-UW262/2020 (MT259254) (0.64)
hCoV-19/USA/WA-UW37/2020 (MT252822) (0.62)
hCoV-19/USA/WA-UW-1656/2020 (MT326123) (0.62)
hCoV-19/USA/WA-UW111/2020 (MT252775) (0.58)
hCoV-19/USA/WA-UW125/2020 (MT252743) (0.58)
hCoV-19/USA/WA-UW-1666/2020 (MT326121) (0.58)
hCoV-19/USA/WA-UW-2250/2020 (MT345842) (0.58)
hCoV-19/USA/WA-UW31/2020 (EPI_ISL_414618)MT6272312020-03-08 SNP:
3: T>B (52 strain(s) in DB)
4: A>D (66 strain(s) in DB)
8782: C>T (1672 strain(s) in DB)
10369: C>T (14 strain(s) in DB)
17747: C>T (1036 strain(s) in DB)
17858: A>G (1049 strain(s) in DB)
18060: C>T (1069 strain(s) in DB)
23010: T>C (29 strain(s) in DB)
28144: T>C (1654 strain(s) in DB)

hCoV-19/USA/WA16-UW12/2020 (EPI_ISL_413651) (0.7)
hCoV-19/USA/WA-S20/2020 (MT627316) (0.67)
hCoV-19/USA/WA-S139/2020 (MT632595) (0.67)
hCoV-19/USA/WA-S19/2020 (MT627281) (0.67)
hCoV-19/USA/WA-S86/2020 (MT627246) (0.67)
hCoV-19/USA/WA-S107/2020 (MT627245) (0.67)
hCoV-19/USA/WA-S140/2020 (MT632598) (0.67)
hCoV-19/USA/WA-S161/2020 (MT632559) (0.6)
hCoV-19/USA/WA15-UW11/2020 (EPI_ISL_413650) (0.6)
hCoV-19/USA/WA-S106/2020 (MT627216) (0.6)
hCoV-19/USA/WA-S23/2020 (MT627231) (0.6)
hCoV-19/USA/WA-UW32/2020EPI_ISL_4146192020-03-07
hCoV-19/USA/WA-UW33/2020 (EPI_ISL_414620)EPI_ISL_4146202020-03-08 SNP:
8782: C>T (1672 strain(s) in DB)
17747: C>T (1036 strain(s) in DB)
17858: A>G (1049 strain(s) in DB)
18060: C>T (1069 strain(s) in DB)
28144: T>C (1654 strain(s) in DB)

Deletions:
1: AATTAAAGGTTTATACCTTC...>- (4882 strain(s) in DB)
29902: AA>A (94 strain(s) in DB)

hCoV-19/USA/WA-UW34/2020 (EPI_ISL_414621)EPI_ISL_4146212020-03-07 SNP:
8782: C>T (1672 strain(s) in DB)
17747: C>T (1036 strain(s) in DB)
17858: A>G (1049 strain(s) in DB)
18060: C>T (1069 strain(s) in DB)
28144: T>C (1654 strain(s) in DB)

Deletions:
1: AATTAAAGGTTTATACCTTC...>- (4882 strain(s) in DB)
29896: AAAAAAAA>A (30 strain(s) in DB)

hCoV-19/USA/WA-UW35/2020EPI_ISL_4146222020-03-08
hCoV-19/France/GE1583/2020/P1 (EPI_ISL_414623)EPI_ISL_4386792020-02-25 SNP:
8782: C>T (1672 strain(s) in DB)
9477: T>A (113 strain(s) in DB)
14805: C>T (875 strain(s) in DB)
25553: C>T (3 strain(s) in DB)
25979: G>T (113 strain(s) in DB)
28144: T>C (1654 strain(s) in DB)
28657: C>T (132 strain(s) in DB)
28863: C>T (116 strain(s) in DB)
29887: A>C (40 strain(s) in DB)
29891: A>C (154 strain(s) in DB)
29894: A>C (34 strain(s) in DB)

hCoV-19/France/GE1583/2020 (EPI_ISL_414600) (0.67)
hCoV-19/England/LOND-D3631/2020 (EPI_ISL_440967) (0.64)
hCoV-19/Spain/CastillayLeon201372/2020 (EPI_ISL_418249) (0.58)
hCoV-19/Spain/Canarias201495/2020 (EPI_ISL_419233) (0.58)
hCoV-19/Kazakhstan/NCB-5/2020 (MT428554) (0.58)
hCoV-19/Spain/CastillayLeon201323/2020 (EPI_ISL_418248) (0.58)
hCoV-19/Senegal/136/2020 (EPI_ISL_418216) (0.58)
hCoV-19/Spain/PaisVasco201607/2020 (EPI_ISL_419240) (0.58)
hCoV-19/Spain/LaRioja201575/2020 (EPI_ISL_419234) (0.58)
hCoV-19/Spain/PaisVasco201382/2020 (EPI_ISL_418253) (0.58)
hCoV-19/England/CAMB-82CC6/2020 (EPI_ISL_438679) (0.58)
hCoV-19/France/N1620/2020/P1 (EPI_ISL_414624)EPI_ISL_4206362020-02-26 SNP:
18: T>C (140 strain(s) in DB)
187: A>G (94 strain(s) in DB)
241: C>T (7669 strain(s) in DB)
3037: C>T (7693 strain(s) in DB)
10728: C>T (2 strain(s) in DB)
14408: C>T (7704 strain(s) in DB)
23403: A>G (7732 strain(s) in DB)

hCoV-19/France/N1620/2020 (EPI_ISL_414601) (0.78)
hCoV-19/Iceland/53/2020 (0.71)
hCoV-19/Germany/BAV-MVP0059/2020 (EPI_ISL_437258) (0.71)
hCoV-19/England/CAMB-7E1FB/2020 (EPI_ISL_434051) (0.71)
hCoV-19/England/CAMB-78407/2020 (EPI_ISL_433731) (0.71)
hCoV-19/England/CAMB-783FB/2020 (EPI_ISL_433730) (0.71)
hCoV-19/England/CAMB-78355/2020 (EPI_ISL_433721) (0.71)
hCoV-19/Canada/BC_9345715/2020 (EPI_ISL_418857) (0.71)
hCoV-19/Canada/BC_6997898/2020 (EPI_ISL_418842) (0.71)
hCoV-19/England/CAMB-7B4E6/2020 (EPI_ISL_433967) (0.71)
hCoV-19/England/20136085404/2020 (EPI_ISL_420636) (0.71)
hCoV-19/France/PL1643/2020 (EPI_ISL_414625)EPI_ISL_4382242020-02-26 SNP:
241: C>T (7669 strain(s) in DB)
1059: C>T (2820 strain(s) in DB)
3037: C>T (7693 strain(s) in DB)
12049: C>T (4 strain(s) in DB)
13521: T>C (7 strain(s) in DB)
14408: C>T (7704 strain(s) in DB)
23403: A>G (7732 strain(s) in DB)
25563: G>T (3418 strain(s) in DB)

hCoV-19/Denmark/ALAB-SSI523/2020 (EPI_ISL_429588) (0.78)
hCoV-19/Denmark/ALAB-SSI-559/2020 (EPI_ISL_436969) (0.78)
hCoV-19/USA/NY-NYUMC261/2020 (EPI_ISL_428775) (0.75)
hCoV-19/USA/NY-NYUMC8/2020 (EPI_ISL_418193) (0.75)
hCoV-19/Germany/NRW-26/2020 (MT582474) (0.75)
hCoV-19/Germany/NRW-28/2020 (MT582472) (0.75)
hCoV-19/Iceland/344/2020 (0.75)
hCoV-19/Iceland/343/2020 (0.75)
hCoV-19/USA/NY-NYUMC53/2020 (EPI_ISL_420308) (0.75)
hCoV-19/Denmark/ALAB-SSI464/2020 (EPI_ISL_429545) (0.75)
hCoV-19/USA/MD-HP028/2020 (EPI_ISL_438224) (0.75)
hCoV-19/France/HF1684/2020 (EPI_ISL_414626)EPI_ISL_4146262020-02-29 SNP:
241: C>T (7669 strain(s) in DB)
2416: C>T (203 strain(s) in DB)
3037: C>T (7693 strain(s) in DB)
14408: C>T (7704 strain(s) in DB)
23403: A>G (7732 strain(s) in DB)
25563: G>T (3418 strain(s) in DB)

hCoV-19/France/HF1795/2020 (EPI_ISL_414627)MT4509652020-03-02 SNP:
13: T>A (32 strain(s) in DB)
45: G>C (3 strain(s) in DB)
241: C>T (7669 strain(s) in DB)
1059: C>T (2820 strain(s) in DB)
3037: C>T (7693 strain(s) in DB)
14408: C>T (7704 strain(s) in DB)
23403: A>G (7732 strain(s) in DB)
25563: G>T (3418 strain(s) in DB)

Deletions:
1: AATTAAA>- (4882 strain(s) in DB)

hCoV-19/USA/CZB-RR057-011/2020 (MT258380) (0.8)
hCoV-19/Australia/VIC207/2020 (MT451108) (0.78)
hCoV-19/USA/CA-CZBRR057IX00069/2020 (MT385423) (0.78)
hCoV-19/Australia/VIC279/2020 (MT451175) (0.78)
hCoV-19/Thailand/Bangkok-0038/2020 (EPI_ISL_429174) (0.78)
SARS-CoV-2/tiger/NY/040420/2020 (MT365033) (0.78)
hCoV-19/USA/VA-DCLS-0158/2020 (MT482138) (0.78)
hCoV-19/Taiwan/CGMH-CGU-14/2020 (EPI_ISL_424970) (0.78)
SARS-CoV-2/human/TWN/CGMH-CGU-14/2020 (MT374110) (0.78)
hCoV-19/Norway/1989/2020 (EPI_ISL_420147) (0.78)
hCoV-19/Australia/VIC50/2020 (MT450965) (0.78)
hCoV-19/France/HF1805/2020 (EPI_ISL_414628)EPI_ISL_4177052020-03-02 SNP:
241: C>T (7669 strain(s) in DB)
3037: C>T (7693 strain(s) in DB)
14408: C>T (7704 strain(s) in DB)
23403: A>G (7732 strain(s) in DB)
24956: A>G (1 strain(s) in DB)
25563: G>T (3418 strain(s) in DB)
29892: A>C (27 strain(s) in DB)
29894: A>C (34 strain(s) in DB)

Deletions:
29867: TG>T (123 strain(s) in DB)

hCoV-19/Luxembourg/LNS1644489/2020 (EPI_ISL_421740) (0.6)
hCoV-19/France/B2337/2020 (EPI_ISL_416506) (0.6)
hCoV-19/Austria/CeMM0194/2020 (EPI_ISL_438035) (0.6)
hCoV-19/USA/NY-NYUMC276/2020 (EPI_ISL_428790) (0.56)
hCoV-19/USA/NY-NYUMC317/2020 (EPI_ISL_430344) (0.56)
hCoV-19/Denmark/ALAB-HH20/2020 (EPI_ISL_429278) (0.56)
hCoV-19/USA/NY-NYUMC181/2020 (EPI_ISL_427477) (0.56)
hCoV-19/Saudi Arabia/KAUST-MADINAH272/2020 (EPI_ISL_437753) (0.56)
hCoV-19/USA/NY-NYUMC267/2020 (EPI_ISL_428781) (0.56)
hCoV-19/Austria/CeMM0116/2020 (EPI_ISL_437974) (0.55)
hCoV-19/Iceland/65/2020 (0.5)
hCoV-19/France/HF1870/2020 (EPI_ISL_414629)EPI_ISL_4160312020-03-03 SNP:
241: C>T (7669 strain(s) in DB)
3037: C>T (7693 strain(s) in DB)
14408: C>T (7704 strain(s) in DB)
15324: C>T (278 strain(s) in DB)
16428: C>T (11 strain(s) in DB)
23403: A>G (7732 strain(s) in DB)

Deletions:
29866: AT>A (422 strain(s) in DB)

hCoV-19/Austria/CeMM0109/2020 (EPI_ISL_437968) (0.75)
hCoV-19/Belgium/BEG-0324149/2020 (0.75)
hCoV-19/Belgium/GM-0323139/2020 (EPI_ISL_420396) (0.75)
hCoV-19/Luxembourg/LNS3169999/2020 (EPI_ISL_429782) (0.75)
hCoV-19/Belgium/ULG-10030/2020 (EPI_ISL_421204) (0.71)
hCoV-19/Scotland/CVR1022/2020 (EPI_ISL_433499) (0.71)
hCoV-19/USA/WI-82/2020 (EPI_ISL_421341) (0.71)
hCoV-19/Hungary/MBL-003/2020 (EPI_ISL_435421) (0.71)
hCoV-19/Belgium/ULG-10142/2020 (EPI_ISL_427385) (0.71)
hCoV-19/USA/TX-HMH214/2020 (EPI_ISL_434889) (0.71)
hCoV-19/Brazil/SPBR-09/2020 (EPI_ISL_416031) (0.71)
hCoV-19/France/HF1871/2020 (EPI_ISL_414630)EPI_ISL_4303462020-03-03 SNP:
241: C>T (7669 strain(s) in DB)
1059: C>T (2820 strain(s) in DB)
2003: C>T (10 strain(s) in DB)
3037: C>T (7693 strain(s) in DB)
10582: C>T (44 strain(s) in DB)
14408: C>T (7704 strain(s) in DB)
23403: A>G (7732 strain(s) in DB)
25563: G>T (3418 strain(s) in DB)
27059: C>T (6 strain(s) in DB)

hCoV-19/USA/WA-S657/2020 (EPI_ISL_438210) (0.78)
hCoV-19/France/HF2595/2020 (EPI_ISL_418237) (0.75)
hCoV-19/Scotland/EDB389/2020 (EPI_ISL_425992) (0.7)
hCoV-19/Scotland/EDB125/2020 (EPI_ISL_425907) (0.7)
hCoV-19/Scotland/EDB412/2020 (EPI_ISL_426003) (0.7)
hCoV-19/Scotland/EDB124/2020 (EPI_ISL_425906) (0.7)
hCoV-19/Scotland/EDB1701/2020 (EPI_ISL_433122) (0.7)
hCoV-19/USA/NY-NYUMC290/2020 (EPI_ISL_428804) (0.67)
hCoV-19/USA/NY-NYUMC310/2020 (EPI_ISL_430337) (0.67)
hCoV-19/USA/NY-NYUMC318/2020 (EPI_ISL_430345) (0.67)
hCoV-19/USA/NY-NYUMC319/2020 (EPI_ISL_430346) (0.67)
hCoV-19/France/GE1973/2020 (EPI_ISL_414631)EPI_ISL_4146312020-03-04 SNP:
241: C>T (7669 strain(s) in DB)
3037: C>T (7693 strain(s) in DB)
14408: C>T (7704 strain(s) in DB)
23403: A>G (7732 strain(s) in DB)

hCoV-19/France/GE1977/2020 (EPI_ISL_414632)EPI_ISL_4186682020-03-04 SNP:
210: G>T (7 strain(s) in DB)
241: C>T (7669 strain(s) in DB)
2416: C>T (203 strain(s) in DB)
3037: C>T (7693 strain(s) in DB)
14408: C>T (7704 strain(s) in DB)
23403: A>G (7732 strain(s) in DB)
24378: C>T (6 strain(s) in DB)
25563: G>T (3418 strain(s) in DB)
29543: G>T (28 strain(s) in DB)
29876: A>C (51 strain(s) in DB)

hCoV-19/France/ARA09588/2020 (EPI_ISL_418416) (0.64)
hCoV-19/Sweden/20-50231/2020 (EPI_ISL_430863) (0.6)
hCoV-19/Russia/Vector_71403/2020 (EPI_ISL_428880) (0.6)
hCoV-19/France/HF1684/2020 (EPI_ISL_414626) (0.6)
hCoV-19/USA/NY-NYUMC32/2020 (EPI_ISL_418978) (0.6)
hCoV-19/Sweden/20-50230/2020 (EPI_ISL_429155) (0.6)
SARS-CoV-2/human/USA/MA_3672/2020 (MT325583) (0.55)
SARS-CoV-2/human/USA/MA_3626/2020 (MT325638) (0.55)
SARS-CoV-2/human/USA/KS_4126/2020 (MT325580) (0.55)
hCoV-19/England/CAMB-74492/2020 (EPI_ISL_425295) (0.55)
hCoV-19/England/20110136302/2020 (EPI_ISL_418668) (0.55)
hCoV-19/France/IDF1980/2020 (EPI_ISL_414633)EPI_ISL_4344952020-03-04 SNP:
241: C>T (7669 strain(s) in DB)
2416: C>T (203 strain(s) in DB)
3037: C>T (7693 strain(s) in DB)
14408: C>T (7704 strain(s) in DB)
23403: A>G (7732 strain(s) in DB)
25563: G>T (3418 strain(s) in DB)
29865: A>C (74 strain(s) in DB)
29866: A>C (422 strain(s) in DB)
29867: T>C (123 strain(s) in DB)
29868: G>A (177 strain(s) in DB)
29869: A>T (89 strain(s) in DB)
29871: A>T (158 strain(s) in DB)
29887: A>G (40 strain(s) in DB)

hCoV-19/USA/VA-DCLS-0196/2020 (MT450897) (0.5)
hCoV-19/USA/WA-UW60/2020 (MT252820) (0.47)
hCoV-19/Guangzhou/GZMU0037/2020 (CNA0013941) (0.47)
hCoV-19/France/HF1684/2020 (EPI_ISL_414626) (0.46)
hCoV-19/Sweden/20-50231/2020 (EPI_ISL_430863) (0.46)
hCoV-19/USA/NY-NYUMC32/2020 (EPI_ISL_418978) (0.46)
hCoV-19/Sweden/20-50230/2020 (EPI_ISL_429155) (0.46)
hCoV-19/Russia/Vector_71403/2020 (EPI_ISL_428880) (0.46)
hCoV-19/Georgia/Tb-477/2020 (EPI_ISL_415642) (0.45)
hCoV-19/USA/WI-GMF-00557/2020 (EPI_ISL_422459) (0.44)
hCoV-19/Luxembourg/LNS0188413/2020 (EPI_ISL_434495) (0.44)
hCoV-19/France/HF1986/2020 (EPI_ISL_414634)EPI_ISL_4146342020-03-04 SNP:
18: T>C (140 strain(s) in DB)
28: C>T (25 strain(s) in DB)
241: C>T (7669 strain(s) in DB)
1059: C>T (2820 strain(s) in DB)
3037: C>T (7693 strain(s) in DB)
5348: C>T (14 strain(s) in DB)
8651: A>G (7 strain(s) in DB)
14408: C>T (7704 strain(s) in DB)
23403: A>G (7732 strain(s) in DB)
25046: C>G (2 strain(s) in DB)
25563: G>T (3418 strain(s) in DB)
29866: A>C (422 strain(s) in DB)

Deletions:
25: TA>T (18 strain(s) in DB)

hCoV-19/France/HF1988/2020 (EPI_ISL_414635)MT5824632020-03-04 SNP:
105: G>T (4 strain(s) in DB)
241: C>T (7669 strain(s) in DB)
1059: C>T (2820 strain(s) in DB)
3037: C>T (7693 strain(s) in DB)
14408: C>T (7704 strain(s) in DB)
20766: A>G (4 strain(s) in DB)
23403: A>G (7732 strain(s) in DB)
25563: G>T (3418 strain(s) in DB)

hCoV-19/USA/NY-NYUMC301/2020 (EPI_ISL_430328) (0.75)
hCoV-19/Denmark/ALAB-SSI215/2020 (EPI_ISL_429407) (0.75)
hCoV-19/USA/WA-S561/2020 (MT632969) (0.75)
hCoV-19/Denmark/ALAB-SSI173/2020 (EPI_ISL_429386) (0.75)
hCoV-19/Denmark/ALAB-SSI174/2020 (EPI_ISL_429387) (0.75)
hCoV-19/Denmark/ALAB-SSI194/2020 (EPI_ISL_429395) (0.75)
hCoV-19/Denmark/ALAB-SSI195/2020 (EPI_ISL_429396) (0.75)
hCoV-19/Denmark/ALAB-SSI207/2020 (EPI_ISL_429404) (0.75)
hCoV-19/USA/WA-S483/2020 (MT632971) (0.75)
hCoV-19/Denmark/ALAB-SSI213/2020 (EPI_ISL_429406) (0.75)
hCoV-19/Germany/NRW-37/2020 (MT582463) (0.75)
hCoV-19/France/HF1989/2020 (EPI_ISL_414636)EPI_ISL_4293232020-03-04 SNP:
28: C>T (25 strain(s) in DB)
105: G>T (4 strain(s) in DB)
241: C>T (7669 strain(s) in DB)
1059: C>T (2820 strain(s) in DB)
3037: C>T (7693 strain(s) in DB)
14408: C>T (7704 strain(s) in DB)
15213: A>G (9 strain(s) in DB)
20766: A>G (4 strain(s) in DB)
23403: A>G (7732 strain(s) in DB)
25563: G>T (3418 strain(s) in DB)
26199: G>T (1 strain(s) in DB)

Deletions:
25: TA>T (18 strain(s) in DB)

hCoV-19/France/HF1988/2020 (EPI_ISL_414635) (0.67)
hCoV-19/Fujian/IM3520001T/2020 (EPI_ISL_431118) (0.53)
hCoV-19/USA/NY-NYUMC165/2020 (EPI_ISL_426620) (0.5)
hCoV-19/Iceland/216/2020 (0.5)
hCoV-19/USA/CA-SR0245/2020 (EPI_ISL_437564) (0.5)
hCoV-19/Denmark/ALAB-HH43/2020 (EPI_ISL_429299) (0.5)
hCoV-19/Scotland/EDB694/2020 (EPI_ISL_433224) (0.5)
hCoV-19/Denmark/ALAB-HH75/2020 (EPI_ISL_429316) (0.5)
hCoV-19/USA/WA-S477/2020 (MT632987) (0.5)
hCoV-19/Iceland/558/2020 (0.5)
hCoV-19/Denmark/ALAB-HH82/2020 (EPI_ISL_429323) (0.5)
hCoV-19/France/HF1993/2020 (EPI_ISL_414637)EPI_ISL_4252952020-03-04 SNP:
13: T>A (32 strain(s) in DB)
241: C>T (7669 strain(s) in DB)
2416: C>T (203 strain(s) in DB)
3037: C>T (7693 strain(s) in DB)
14408: C>T (7704 strain(s) in DB)
19884: C>T (9 strain(s) in DB)
23403: A>G (7732 strain(s) in DB)
25563: G>T (3418 strain(s) in DB)
29888: A>G (19 strain(s) in DB)
29892: A>G (27 strain(s) in DB)
29896: A>G (30 strain(s) in DB)
29900: A>G (38 strain(s) in DB)

hCoV-19/Iceland/430/2020 (0.54)
hCoV-19/Iceland/441/2020 (0.54)
hCoV-19/Russia/Vector_71403/2020 (EPI_ISL_428880) (0.5)
hCoV-19/Wales/PHWC-29E61/2020 (EPI_ISL_432186) (0.5)
hCoV-19/France/HF1684/2020 (EPI_ISL_414626) (0.5)
hCoV-19/Sweden/20-50231/2020 (EPI_ISL_430863) (0.5)
hCoV-19/Sweden/20-50230/2020 (EPI_ISL_429155) (0.5)
hCoV-19/USA/NY-NYUMC32/2020 (EPI_ISL_418978) (0.5)
SARS-CoV-2/human/USA/MA_0020/2020 (MT325582) (0.46)
SARS-CoV-2/human/USA/MA_3672/2020 (MT325583) (0.46)
hCoV-19/England/CAMB-74492/2020 (EPI_ISL_425295) (0.46)
hCoV-19/France/HF1995/2020 (EPI_ISL_414638)EPI_ISL_4382232020-03-04 SNP:
241: C>T (7669 strain(s) in DB)
2416: C>T (203 strain(s) in DB)
3037: C>T (7693 strain(s) in DB)
12722: T>C (3 strain(s) in DB)
14408: C>T (7704 strain(s) in DB)
23403: A>G (7732 strain(s) in DB)
25563: G>T (3418 strain(s) in DB)

hCoV-19/Russia/Vector_71403/2020 (EPI_ISL_428880) (0.86)
hCoV-19/France/HF1684/2020 (EPI_ISL_414626) (0.86)
hCoV-19/USA/NY-NYUMC32/2020 (EPI_ISL_418978) (0.86)
hCoV-19/Sweden/20-50230/2020 (EPI_ISL_429155) (0.86)
hCoV-19/Sweden/20-50231/2020 (EPI_ISL_430863) (0.86)
hCoV-19/France/HF2239/2020 (EPI_ISL_416497) (0.78)
SARS-CoV-2/human/USA/MA_9704/2020 (MT325632) (0.75)
SARS-CoV-2/human/USA/MA_3626/2020 (MT325638) (0.75)
SARS-CoV-2/human/USA/MA_3616/2020 (MT325637) (0.75)
SARS-CoV-2/human/USA/MA_9889/2020 (MT325633) (0.75)
hCoV-19/USA/MD-HP026/2020 (EPI_ISL_438223) (0.75)
hCoV-19/USA/NY-NYUMC1/2020EPI_ISL_4146392020-03-04
hCoV-19/Finland/FIN-114/2020EPI_ISL_4146402020-03-01
hCoV-19/Finland/FIN-313/2020 (EPI_ISL_414641)EPI_ISL_4288692020-03-05 SNP:
241: C>T (7669 strain(s) in DB)
3037: C>T (7693 strain(s) in DB)
14408: C>T (7704 strain(s) in DB)
22277: C>A (12 strain(s) in DB)
23403: A>G (7732 strain(s) in DB)
23635: C>T (21 strain(s) in DB)
27046: C>T (266 strain(s) in DB)
28881: G>A (2045 strain(s) in DB)
28882: G>A (2040 strain(s) in DB)
28883: G>C (2036 strain(s) in DB)

Deletions:
29807: TGTGTAAAATTAATTTTAGT...>T (4 strain(s) in DB)

hCoV-19/Denmark/ALAB-SSI221/2020 (EPI_ISL_429410) (0.82)
hCoV-19/Finland/FIN03032020C/2020 (EPI_ISL_413604) (0.82)
hCoV-19/Portugal/CV62/2020 (EPI_ISL_413647) (0.73)
hCoV-19/Russia/Vector_62506/2020 (EPI_ISL_428862) (0.73)
hCoV-19/Denmark/ALAB-SSI405/2020 (EPI_ISL_429499) (0.73)
hCoV-19/England/20109052006/2020 (EPI_ISL_417272) (0.73)
hCoV-19/Scotland/CVR1751/2020 (EPI_ISL_433658) (0.73)
hCoV-19/Denmark/ALAB-SSI365/2020 (EPI_ISL_429473) (0.73)
hCoV-19/Iceland/78/2020 (0.73)
hCoV-19/Iceland/83/2020 (0.73)
hCoV-19/Russia/Vector_64405/2020 (EPI_ISL_428869) (0.73)
hCoV-19/Finland/FIN-455/2020 (EPI_ISL_414642)MT6330222020-03-08 SNP:
241: C>T (7669 strain(s) in DB)
1059: C>T (2820 strain(s) in DB)
3037: C>T (7693 strain(s) in DB)
14408: C>T (7704 strain(s) in DB)
23403: A>G (7732 strain(s) in DB)
25563: G>T (3418 strain(s) in DB)

Deletions:
29809: TGTAAAATTAATTTTAGTAG...>T (6 strain(s) in DB)

hCoV-19/Finland/13M26/2020 (EPI_ISL_418386) (1)
hCoV-19/Germany/BAV-MVP0038/2020 (EPI_ISL_437237) (0.86)
hCoV-19/USA/NY-NYUMC168/2020 (EPI_ISL_426623) (0.86)
hCoV-19/Iceland/81/2020 (0.86)
hCoV-19/Denmark/ALAB-SSI195/2020 (EPI_ISL_429396) (0.86)
hCoV-19/Iceland/90/2020 (0.86)
hCoV-19/Denmark/ALAB-SSI207/2020 (EPI_ISL_429404) (0.86)
hCoV-19/Denmark/ALAB-SSI213/2020 (EPI_ISL_429406) (0.86)
hCoV-19/Denmark/ALAB-SSI215/2020 (EPI_ISL_429407) (0.86)
hCoV-19/USA/NY-NYUMC437/2020 (EPI_ISL_435504) (0.86)
hCoV-19/USA/WA-S571/2020 (MT633022) (0.86)
hCoV-19/Finland/FIN-508/2020 (EPI_ISL_414643)EPI_ISL_4178292020-03-07 SNP:
241: C>T (7669 strain(s) in DB)
3037: C>T (7693 strain(s) in DB)
14408: C>T (7704 strain(s) in DB)
23403: A>G (7732 strain(s) in DB)
27046: C>T (266 strain(s) in DB)
28881: G>A (2045 strain(s) in DB)
28882: G>A (2040 strain(s) in DB)
28883: G>C (2036 strain(s) in DB)

Deletions:
29809: TGTAAAATTAATTTTAGTAG...>T (6 strain(s) in DB)

hCoV-19/Denmark/ALAB-SSI-619/2020 (EPI_ISL_437000) (0.89)
hCoV-19/Denmark/ALAB-SSI405/2020 (EPI_ISL_429499) (0.89)
hCoV-19/Ireland/20G21145/2020 (EPI_ISL_418548) (0.89)
hCoV-19/Germany/BAV-MVP0047/2020 (EPI_ISL_437246) (0.89)
hCoV-19/Iceland/83/2020 (0.89)
hCoV-19/Germany/BAV-MVP0045/2020 (EPI_ISL_437244) (0.89)
hCoV-19/Iceland/78/2020 (0.89)
hCoV-19/Germany/BAV-MVP0017/2020 (EPI_ISL_437218) (0.89)
hCoV-19/Denmark/ALAB-HH62/2020 (EPI_ISL_429308) (0.89)
hCoV-19/Scotland/CVR1751/2020 (EPI_ISL_433658) (0.89)
hCoV-19/Iceland/210/2020 (0.89)
hCoV-19/Finland/FIN-318/2020EPI_ISL_4146442020-03-04
hCoV-19/Finland/FIN-274/2020EPI_ISL_4146452020-03-04
hCoV-19/Finland/FIN-266/2020 (EPI_ISL_414646)EPI_ISL_4175502020-03-04 SNP:
241: C>T (7669 strain(s) in DB)
3037: C>T (7693 strain(s) in DB)
14408: C>T (7704 strain(s) in DB)
23403: A>G (7732 strain(s) in DB)
26530: A>G (128 strain(s) in DB)

Deletions:
29807: TGTGTAAAATTAATTTTAGT...>T (4 strain(s) in DB)

hCoV-19/England/20134002104/2020 (EPI_ISL_423053) (0.83)
hCoV-19/England/LOND-D3789/2020 (EPI_ISL_440983) (0.83)
hCoV-19/Sweden/20-05469/2020 (EPI_ISL_434644) (0.83)
hCoV-19/Sweden/20-05448/2020 (EPI_ISL_434643) (0.83)
hCoV-19/England/LOND-D3AAE/2020 (EPI_ISL_441032) (0.83)
hCoV-19/Scotland/CVR05/2020 (EPI_ISL_414027) (0.83)
hCoV-19/England/LOND-D3947/2020 (EPI_ISL_441011) (0.83)
hCoV-19/England/LOND-D38E0/2020 (EPI_ISL_441005) (0.83)
hCoV-19/Iceland/183/2020 (0.83)
hCoV-19/England/LOND-D38C2/2020 (EPI_ISL_441003) (0.83)
hCoV-19/Iceland/184/2020 (0.83)
hCoV-19/DRC/KN-13/2020EPI_ISL_4146472020-03-09
hCoV-19/USA/CA-PC101P/2020 (EPI_ISL_414648)MT4514522020-03-11 SNP:
241: C>T (7669 strain(s) in DB)
3037: C>T (7693 strain(s) in DB)
14408: C>T (7704 strain(s) in DB)
18814: C>T (7 strain(s) in DB)
23403: A>G (7732 strain(s) in DB)

hCoV-19/Australia/VIC682/2020 (MT451478) (0.8)
hCoV-19/Scotland/EDB004/2020 (EPI_ISL_415629) (0.8)
hCoV-19/Denmark/ALAB-SSI117/2020 (EPI_ISL_429346) (0.8)
hCoV-19/Germany/BAV-MVP0095/2020 (EPI_ISL_437287) (0.8)
hCoV-19/Scotland/EDB3518/2020 (EPI_ISL_439277) (0.8)
hCoV-19/Germany/BAV-MVP0082/2020 (EPI_ISL_437276) (0.8)
hCoV-19/England/20109047803/2020 (EPI_ISL_418667) (0.8)
hCoV-19/India/GMC-KN318/2020 (EPI_ISL_431102) (0.8)
hCoV-19/Scotland/CVR1308/2020 (EPI_ISL_433535) (0.8)
hCoV-19/USA/NY-NYUMC4/2020 (EPI_ISL_416832) (0.8)
hCoV-19/Australia/VIC652/2020 (MT451452) (0.8)
hCoV-19/Guangzhou/GZMU0030/2020/P2 (EPI_ISL_414686)EPI_ISL_4204222020-02-27 SNP:
186: C>T (10 strain(s) in DB)
1734: C>T (4 strain(s) in DB)
26458: G>T (4 strain(s) in DB)

Deletions:
1: AATTAAAGGTTTA>- (4882 strain(s) in DB)
29870: CAAAAAAAAAAAAAAAAAAA...>C (353 strain(s) in DB)

hCoV-19/Guangzhou/GZMU0030/2020/P1 (MT568636) (1)
hCoV-19/Guangzhou/GZMU0030/2020 (CNA0013711) (1)
hCoV-19/Thailand/74/2020 (0.4)
SARS-CoV-2/human/CHN/IME-HZ01/2020 (MT039874) (0.4)
WIV07 (0.29)
hCoV-19/Belgium/BJ-0325181/2020 (EPI_ISL_420438) (0.29)
SARS-CoV-2/Wuhan_IME-BJ05/human/2020/CHN (GWHACBB01000001) (0.29)
hCoV-19/Guangzhou/GZMU0048/2020 (CNA0013716) (0.25)
hCoV-19/Belgium/DMM-0325180/2020 (EPI_ISL_420437) (0.25)
2019-nCoV_HKU-SZ-002a_2020 (0.25)
hCoV-19/Belgium/JJC-0325165/2020 (EPI_ISL_420422) (0.25)
hCoV-19/Shandong/LY001-2/2020EPI_ISL_4149342020-01-21
hCoV-19/Shandong/LY002-2/2020EPI_ISL_4149352020-01-21
hCoV-19/Shandong/LY003-2/2020EPI_ISL_4149362020-01-23
hCoV-19/Shandong/LY004-2/2020EPI_ISL_4149372020-01-26
hCoV-19/Shandong/LY005-2/2020EPI_ISL_4212422020-01-24 SNP:
3171: T>C (9 strain(s) in DB)
8782: C>T (1672 strain(s) in DB)
28144: T>C (1654 strain(s) in DB)

Deletions:
1: AATTAAAGGTTTATACCTTC...>- (4882 strain(s) in DB)
29816: TTAATTTTAGTAGTGCTATC...>T (2 strain(s) in DB)
29867: TGACAAAAAAAAAAAAAAAA...>T (123 strain(s) in DB)

hCoV-19/Shandong/LY008-2/2020 (0.57)
hCoV-19/Shanghai/SH0013/2020 (0.43)
hCoV-19/Jiujiang/JX22/2020 (EPI_ISL_421237) (0.43)
hCoV-19/China/WF0015/2020 (CNA0013884) (0.43)
hCov-19/China/WF0016/2020 (CNA0013883) (0.43)
hCoV-19/China/WF0018/2020 (CNA0013882) (0.43)
hCoV-19/China/WF0020/2020 (CNA0013880) (0.43)
hCoV-19/China/WF0001/2020 (CNA0013890) (0.43)
hCoV-19/Shanghai/SH0043/2020 (0.43)
hCoV-19/Shangrao/JX1948/2020 (EPI_ISL_421240) (0.43)
hCoV-19/Ganzhou/JX81/2020 (EPI_ISL_421242) (0.43)
hCoV-19/Shandong/LY006-2/2020EPI_ISL_4149392020-01-25
hCoV-19/Shandong/LY007-2/2020MT4471622020-01-25 SNP:
3171: T>C (9 strain(s) in DB)
8782: C>T (1672 strain(s) in DB)
28144: T>C (1654 strain(s) in DB)
29853: G>C (40 strain(s) in DB)
29855: T>G (24 strain(s) in DB)
29858: T>C (26 strain(s) in DB)
29859: T>A (71 strain(s) in DB)
29862: G>T (145 strain(s) in DB)
29863: A>C (15 strain(s) in DB)
29865: A>G (74 strain(s) in DB)
29867: T>G (123 strain(s) in DB)
29869: A>C (89 strain(s) in DB)

Deletions:
1: AATTAAA>- (4882 strain(s) in DB)
29839: ATGTGATTTTAAT>A (12 strain(s) in DB)
29871: AAAAAAAAAAAAAAAAAAAA...>A (158 strain(s) in DB)

hCoV-19/Shandong/LY005-2/2020 (0.31)
hCoV-19/Guangzhou/GZMU0047/2020 (CNA0013715) (0.27)
BetaCoV/Wuhan/HBCDC-HB-03/2020 (NMDC60013094-01) (0.27)
hCov-19/China/WF0016/2020 (CNA0013883) (0.27)
hCoV-19/China/WF0018/2020 (CNA0013882) (0.27)
hCoV-19/China/WF0001/2020 (CNA0013890) (0.27)
Guangzhou/GZ8H0007/2020 (CNA0013702) (0.25)
hCoV-19/Shandong/LY008-2/2020 (0.25)
hCoV-19/Spain/Valencia153/2020 (EPI_ISL_436248) (0.25)
hCoV-19/China/WF0021/2020 (CNA0013879) (0.25)
SARS-CoV-2/human/THA/SI202205-NT/2020 (MT447162) (0.24)
hCoV-19/Shandong/LY008-2/2020EPI_ISL_4078932020-01-30 SNP:
3171: T>C (9 strain(s) in DB)
8782: C>T (1672 strain(s) in DB)
28144: T>C (1654 strain(s) in DB)

Deletions:
1: AATTAAAGGTTTATACC>- (4882 strain(s) in DB)
29884: AAAAAAAAAAAAAAAAAAAA>A (34 strain(s) in DB)

hCoV-19/Shandong/LY005-2/2020 (0.57)
hCoV-19/Lishui/LS557/2020 (EPI_ISL_429854) (0.5)
hCoV-19/Shanghai/SH0013/2020 (0.5)
hCov-19/China/WF0016/2020 (CNA0013883) (0.5)
hCoV-19/China/WF0015/2020 (CNA0013884) (0.5)
hCoV-19/China/WF0001/2020 (CNA0013890) (0.5)
hCoV-19/Shanghai/SH0024/2020 (0.5)
hCoV-19/Australia/VIC138/2020 (MT451042) (0.5)
BetaCoV/Wuhan/HBCDC-HB-03/2020 (NMDC60013094-01) (0.5)
hCoV-19/China/WF0020/2020 (CNA0013880) (0.5)
BetaCoV/Australia/NSW01/2020 (EPI_ISL_407893) (0.5)
hCoV-19/Iran/Qom-257045/2020EPI_ISL_4149452020-02-15
hCoV-19/Iran/Qom-257531/2020EPI_ISL_4149462020-02-17
hCoV-19/Iran/Tehran-288885/2020EPI_ISL_4149482020-03-08
hCoV-19/Northern Ireland/HSCNI01/2020EPI_ISL_4149492020-02-26
hCoV-19/Wales/PHW04/2020EPI_ISL_4150412020-03-07
hCoV-19/Brazil/BA-312/2020 (EPI_ISL_415105)MT4510572020-03-04 SNP:
241: C>T (7669 strain(s) in DB)
313: C>T (124 strain(s) in DB)
3037: C>T (7693 strain(s) in DB)
14408: C>T (7704 strain(s) in DB)
23403: A>G (7732 strain(s) in DB)
26945: A>T (7 strain(s) in DB)
28881: G>A (2045 strain(s) in DB)
28882: G>A (2040 strain(s) in DB)
28883: G>C (2036 strain(s) in DB)

Deletions:
1: AATTAAAGGTTTATACCTTC...>- (4882 strain(s) in DB)
29794: GGAAGAGCCCTAATGTGTAA...>G (4 strain(s) in DB)

hCoV-19/Brazil/BA-510/2020 (EPI_ISL_427293) (0.83)
hCoV-19/Switzerland/GE8102/2020 (EPI_ISL_415458) (0.82)
hCoV-19/Japan/Donner26/2020 (EPI_ISL_438970) (0.75)
hCoV-19/USA/MN128-MDH128/2020 (EPI_ISL_421684) (0.75)
hCoV-19/India/c32/2020 (EPI_ISL_420555) (0.75)
hCoV-19/Japan/Donner12/2020 (EPI_ISL_438956) (0.75)
hCoV-19/USA/WA-UW258/2020 (MT259250) (0.75)
hCoV-19/Australia/VIC143/2020 (MT451047) (0.75)
hCoV-19/USA/WI-24/2020 (EPI_ISL_417512) (0.75)
hCoV-19/India/c31/2020 (EPI_ISL_426179) (0.75)
hCoV-19/Australia/VIC153/2020 (MT451057) (0.75)
hCoV-19/Brazil/ES-225/2020 (EPI_ISL_415128)EPI_ISL_4238172020-02-29 SNP:
2480: A>G (278 strain(s) in DB)
2558: C>T (299 strain(s) in DB)
4423: C>T (15 strain(s) in DB)
11083: G>T (1220 strain(s) in DB)
14805: C>T (875 strain(s) in DB)
26144: G>T (818 strain(s) in DB)

Deletions:
1: AATTAAAGGTTTATACCTTC...>- (4882 strain(s) in DB)
29792: ATGGAAGAGCCCTAATGTGT...>A (1 strain(s) in DB)

hCoV-19/Australia/NSW58/2020 (EPI_ISL_417410) (0.67)
hCoV-19/Portugal/IGC00009/2020 (EPI_ISL_419386) (0.67)
hCoV-19/Wales/PHWC-25B6E/2020 (EPI_ISL_422063) (0.67)
hCoV-19/Australia/VIC87/2020 (MT450997) (0.67)
hCoV-19/Australia/VIC88/2020 (MT450998) (0.67)
hCoV-19/Australia/QLDID929/2020 (EPI_ISL_420878) (0.67)
hCoV-19/England/CAMB-75FDC/2020 (EPI_ISL_438480) (0.67)
hCoV-19/Australia/VIC186/2020 (MT451088) (0.67)
hCoV-19/Australia/VIC187/2020 (MT451089) (0.67)
hCoV-19/England/NOTT-10E748/2020 (EPI_ISL_425587) (0.63)
hCoV-19/England/20132082504/2020 (EPI_ISL_423817) (0.63)
hCoV-19/England/20099038206/2020 (EPI_ISL_415129)EPI_ISL_4151292020-02-29 SNP:
241: C>T (7669 strain(s) in DB)
3037: C>T (7693 strain(s) in DB)
14408: C>T (7704 strain(s) in DB)
23403: A>G (7732 strain(s) in DB)
28881: G>A (2045 strain(s) in DB)
28882: G>A (2040 strain(s) in DB)
28883: G>C (2036 strain(s) in DB)

hCoV-19/England/20099079106/2020EPI_ISL_4151302020-03-01
hCoV-19/England/20099107406/2020EPI_ISL_4151312020-02-29
hCoV-19/England/20100001406/2020EPI_ISL_4151322020-02-28
hCoV-19/England/20100004706/2020EPI_ISL_4151332020-02-29
hCoV-19/England/20100004806/2020EPI_ISL_4151342020-02-29
hCoV-19/England/20100005406/2020EPI_ISL_4151352020-02-28
hCoV-19/England/20100022706/2020EPI_ISL_4151362020-02-29
hCoV-19/England/20100023206/2020EPI_ISL_4151372020-03-02
hCoV-19/England/20100024006/2020EPI_ISL_4151382020-03-02
hCoV-19/England/20100077906/2020EPI_ISL_4151392020-03-01
hCoV-19/England/20100121006/2020EPI_ISL_4151402020-02-29
hCoV-19/England/20100121007/2020EPI_ISL_4151412020-02-29
hCoV-19/England/20100122106/2020EPI_ISL_4151422020-03-02
hCoV-19/England/20100122107/2020EPI_ISL_4151432020-03-02
hCoV-19/England/20102000106/2020EPI_ISL_4151442020-02-27
hCoV-19/England/20102000206/2020EPI_ISL_4151452020-03-01
hCoV-19/England/20102000306/2020EPI_ISL_4151462020-03-01
hCoV-19/England/20102000506/2020EPI_ISL_4151472020-03-01
hCoV-19/England/20102000906/2020EPI_ISL_4151482020-03-03
hCoV-19/England/20102068506/2020EPI_ISL_4151492020-03-01
hCoV-19/England/20110003506/2020EPI_ISL_4151502020-03-09
hCoV-19/Panama/328677/2020EPI_ISL_4151522020-03-06
hCoV-19/Belgium/VLM-03011/2020 (EPI_ISL_415153)EPI_ISL_4151582020-03-03 SNP:
241: C>T (7669 strain(s) in DB)
3037: C>T (7693 strain(s) in DB)
5322: T>A (2 strain(s) in DB)
5325: A>T (1 strain(s) in DB)
13402: T>G (54 strain(s) in DB)
13408: T>A (13 strain(s) in DB)
14408: C>T (7704 strain(s) in DB)
20148: C>T (33 strain(s) in DB)
23116: A>T (12 strain(s) in DB)
23403: A>G (7732 strain(s) in DB)
28826: C>T (19 strain(s) in DB)

Deletions:
1: AATTAAAGGTTTATACCTTC...>- (4882 strain(s) in DB)
29868: GACAAAAAAAAAAAAAAAAA...>G (177 strain(s) in DB)

hCoV-19/Belgium/VAG-03013/2020 (EPI_ISL_415155) (0.71)
hCoV-19/Belgium/RS-030257/2020 (0.57)
hCoV-19/Belgium/BM-03012/2020 (EPI_ISL_415154) (0.47)
hCoV-19/Belgium/GE-030573/2020 (EPI_ISL_420329) (0.46)
hCoV-19/Belgium/WAM-030676/2020 (EPI_ISL_420332) (0.46)
hCoV-19/Belgium/MTR-03021/2020 (EPI_ISL_416467) (0.45)
hCoV-19/Denmark/SSI-01/2020 (EPI_ISL_416142) (0.44)
hCoV-19/Denmark/SSI-02/2020 (EPI_ISL_416143) (0.43)
hCoV-19/Belgium/SH-03014/2020 (EPI_ISL_415156) (0.43)
hCoV-19/Belgium/CA-0319111/2020 (EPI_ISL_420368) (0.43)
hCoV-19/Belgium/QKJ-03015/2020 (EPI_ISL_415158) (0.41)
hCoV-19/Belgium/BM-03012/2020 (EPI_ISL_415154)EPI_ISL_4151542020-03-01 SNP:
241: C>T (7669 strain(s) in DB)
3037: C>T (7693 strain(s) in DB)
13402: T>G (54 strain(s) in DB)
14408: C>T (7704 strain(s) in DB)
23403: A>G (7732 strain(s) in DB)
24389: A>C (57 strain(s) in DB)
24390: G>C (61 strain(s) in DB)

Deletions:
1: AATTAAAGGTTTATACCTTC...>- (4882 strain(s) in DB)
29868: GACAAAAAAAAAAAAAAAAA...>G (177 strain(s) in DB)

hCoV-19/Belgium/VAG-03013/2020 (EPI_ISL_415155)EPI_ISL_4151552020-03-01 SNP:
241: C>T (7669 strain(s) in DB)
3037: C>T (7693 strain(s) in DB)
13402: T>G (54 strain(s) in DB)
13408: T>G (13 strain(s) in DB)
14408: C>T (7704 strain(s) in DB)
20148: C>T (33 strain(s) in DB)
23403: A>G (7732 strain(s) in DB)
24390: G>C (61 strain(s) in DB)
28826: C>T (19 strain(s) in DB)

Deletions:
1: AATTAAAGGTTTATACCTTC...>- (4882 strain(s) in DB)
29868: GACAAAAAAAAAAAAAAAAA...>G (177 strain(s) in DB)

hCoV-19/Belgium/SH-03014/2020 (EPI_ISL_415156)EPI_ISL_4221122020-03-01 SNP:
241: C>T (7669 strain(s) in DB)
3037: C>T (7693 strain(s) in DB)
8072: A>G (11 strain(s) in DB)
14408: C>T (7704 strain(s) in DB)
23403: A>G (7732 strain(s) in DB)

Deletions:
1: AATTAAAGGTTTATACCTTC...>- (4882 strain(s) in DB)
29868: GACAAAAAAAAAAAAAAAAA...>G (177 strain(s) in DB)

hCoV-19/Belgium/GE-030573/2020 (EPI_ISL_420329) (0.86)
hCoV-19/Belgium/WAM-030676/2020 (EPI_ISL_420332) (0.86)
hCoV-19/Belgium/CA-0319111/2020 (EPI_ISL_420368) (0.75)
hCoV-19/Wales/PHWC-29E07/2020 (EPI_ISL_432267) (0.71)
hCoV-19/Australia/VIC174/2020 (MT451077) (0.71)
hCoV-19/Wales/PHWC-2B04B/2020 (EPI_ISL_432271) (0.71)
hCoV-19/Denmark/ALAB-SSI108/2020 (EPI_ISL_429340) (0.71)
hCoV-19/Wales/PHWC-2672D/2020 (EPI_ISL_422027) (0.71)
hCoV-19/Wales/PHWC-27267/2020 (EPI_ISL_432307) (0.71)
hCoV-19/Wales/PHWC-26F8F/2020 (EPI_ISL_422140) (0.71)
hCoV-19/Wales/PHWC-26417/2020 (EPI_ISL_422112) (0.71)
hCoV-19/Belgium/BC-03016/2020 (EPI_ISL_415157)MT4512742020-03-01 SNP:
241: C>T (7669 strain(s) in DB)
3037: C>T (7693 strain(s) in DB)
14408: C>T (7704 strain(s) in DB)
23403: A>G (7732 strain(s) in DB)
24389: A>C (57 strain(s) in DB)
24390: G>C (61 strain(s) in DB)
28881: G>A (2045 strain(s) in DB)
28882: G>A (2040 strain(s) in DB)
28883: G>C (2036 strain(s) in DB)

Deletions:
1: AATTAAAGGTTTATACCTTC...>- (4882 strain(s) in DB)
29868: GACAAAAAAAAAAAAAAAAA...>G (177 strain(s) in DB)

hCoV-19/Czech Republic/2308/2020 (EPI_ISL_434572) (0.82)
hCoV-19/Denmark/SSI-01/2020 (EPI_ISL_416142) (0.75)
hCoV-19/England/CAMB-75ABD/2020 (EPI_ISL_438311) (0.75)
hCoV-19/Australia/VIC190/2020 (MT451092) (0.73)
hCoV-19/Wales/PHWC-29D55/2020 (EPI_ISL_432244) (0.73)
hCoV-19/Australia/VIC45/2020 (MT450960) (0.73)
hCoV-19/Northern Ireland/NIRE-102094/2020 (EPI_ISL_441375) (0.73)
hCoV-19/Switzerland/GE8086/2020 (EPI_ISL_429213) (0.73)
hCoV-19/Northern Ireland/NIRE-101F7A/2020 (EPI_ISL_441360) (0.73)
hCoV-19/Australia/VIC250/2020 (MT451147) (0.73)
hCoV-19/Australia/VIC387/2020 (MT451274) (0.73)
hCoV-19/Belgium/QKJ-03015/2020 (EPI_ISL_415158)EPI_ISL_4413752020-03-01 SNP:
241: C>T (7669 strain(s) in DB)
3037: C>T (7693 strain(s) in DB)
13402: T>G (54 strain(s) in DB)
13947: A>T (20 strain(s) in DB)
14408: C>T (7704 strain(s) in DB)
23403: A>G (7732 strain(s) in DB)
28881: G>A (2045 strain(s) in DB)
28882: G>A (2040 strain(s) in DB)
28883: G>C (2036 strain(s) in DB)

Deletions:
1: AATTAAAGGTTTATACCTTC...>- (4882 strain(s) in DB)
29868: GACAAAAAAAAAAAAAAAAA...>G (177 strain(s) in DB)

hCoV-19/Belgium/DBD-03024/2020 (EPI_ISL_416471) (0.83)
hCoV-19/Czech Republic/2308/2020 (EPI_ISL_434572) (0.82)
hCoV-19/Belgium/JK-0305110/2020 (EPI_ISL_420367) (0.77)
hCoV-19/Denmark/SSI-01/2020 (EPI_ISL_416142) (0.75)
hCoV-19/England/CAMB-75ABD/2020 (EPI_ISL_438311) (0.75)
hCoV-19/Belgium/UMF-03025/2020 (EPI_ISL_416472) (0.75)
hCoV-19/Kuwait/KU008/2020 (EPI_ISL_422427) (0.73)
hCoV-19/Australia/VIC156/2020 (MT451060) (0.73)
hCoV-19/Wales/PHWC-29D55/2020 (EPI_ISL_432244) (0.73)
hCoV-19/Wales/PHWC-2B1FD/2020 (EPI_ISL_432246) (0.73)
hCoV-19/Northern Ireland/NIRE-102094/2020 (EPI_ISL_441375) (0.73)
hCoV-19/Belgium/BA-02291/2020 (EPI_ISL_415159)EPI_ISL_4291742020-02-29 SNP:
241: C>T (7669 strain(s) in DB)
1059: C>T (2820 strain(s) in DB)
1666: T>C (4 strain(s) in DB)
3037: C>T (7693 strain(s) in DB)
14408: C>T (7704 strain(s) in DB)
22935: A>G (1 strain(s) in DB)
23118: A>C (4 strain(s) in DB)
23403: A>G (7732 strain(s) in DB)
24382: C>T (14 strain(s) in DB)
24383: A>G (2 strain(s) in DB)
24389: A>C (57 strain(s) in DB)
24390: G>C (61 strain(s) in DB)
25563: G>T (3418 strain(s) in DB)

Deletions:
1: AATTAAAGGTTTATACCTTC...>- (4882 strain(s) in DB)
29868: GACAAAAAAAAAAAAAAAAA...>G (177 strain(s) in DB)

hCoV-19/Netherlands/Haarlem_1363688/2020 (EPI_ISL_413572) (0.5)
hCoV-19/USA/WA-UW-1689/2020 (MT326136) (0.5)
hCoV-19/USA/VA-DCLS-0159/2020 (MT482139) (0.5)
hCoV-19/Belgium/BM-03012/2020 (EPI_ISL_415154) (0.5)
hCoV-19/USA/VA-DCLS-0193/2020 (MT450894) (0.47)
hCoV-19/Belgium/WWM-030665/2020 (EPI_ISL_420321) (0.47)
hCoV-19/Belgium/DBOM-030566/2020 (EPI_ISL_420322) (0.47)
SARS-CoV-2/human/USAWA-UW463/2020 (MT293222) (0.47)
hCoV-19/Australia/VIC207/2020 (MT451108) (0.47)
hCoV-19/Norway/1989/2020 (EPI_ISL_420147) (0.47)
hCoV-19/Thailand/Bangkok-0038/2020 (EPI_ISL_429174) (0.47)
hCoV-19/Wales/PHW06/2020 (EPI_ISL_415435)EPI_ISL_4321822020-03-06 SNP:
241: C>T (7669 strain(s) in DB)
3037: C>T (7693 strain(s) in DB)
6990: C>T (24 strain(s) in DB)
14408: C>T (7704 strain(s) in DB)
23403: A>G (7732 strain(s) in DB)

Deletions:
1: AATTAAAGGTTTA>- (4882 strain(s) in DB)
19296: GTATGTAAATAAACATGCAT...>G (4 strain(s) in DB)
29854: CTTCTTAGGAGAATGACAAA...>C (35 strain(s) in DB)

hCoV-19/Denmark/SSI-09/2020 (EPI_ISL_416141) (0.75)
hCoV-19/Wales/PHWC-266F3/2020 (EPI_ISL_422109) (0.75)
hCoV-19/Wales/PHWC-25C01/2020 (EPI_ISL_422064) (0.75)
SARS-CoV-2/human/USA/MI-MDHHS-SC20171/2020 (MT439251) (0.67)
hCoV-19/Spain/Valencia173/2020 (EPI_ISL_436268) (0.67)
hCoV-19/Australia/VIC141/2020 (MT451045) (0.63)
hCoV-19/Wales/PHWC-27A23/2020 (EPI_ISL_432245) (0.63)
hCoV-19/Australia/VIC92/2020 (MT451002) (0.63)
hCoV-19/Wales/PHWC-25C3E/2020 (EPI_ISL_422041) (0.63)
hCoV-19/Wales/PHWC-26417/2020 (EPI_ISL_422112) (0.63)
hCoV-19/Wales/PHWC-2531B/2020 (EPI_ISL_432182) (0.63)
hCoV-19/Wales/PHW10/2020EPI_ISL_4154532020-03-10
hCoV-19/Switzerland/GE1422/2020 (EPI_ISL_415454)EPI_ISL_4220442020-02-28 SNP:
241: C>T (7669 strain(s) in DB)
3037: C>T (7693 strain(s) in DB)
10834: C>T (10 strain(s) in DB)
14408: C>T (7704 strain(s) in DB)
23403: A>G (7732 strain(s) in DB)
28881: G>A (2045 strain(s) in DB)
28882: G>A (2040 strain(s) in DB)
28883: G>C (2036 strain(s) in DB)
29148: T>C (28 strain(s) in DB)

Deletions:
1: AATTAAAG>- (4882 strain(s) in DB)

hCoV-19/Switzerland/AG7120/2020 (EPI_ISL_415457) (0.9)
hCoV-10/Switzerland/GE1736/2020 (EPI_ISL_429203) (0.9)
hCoV-19/Czech Republic/ChVir1912/2020 (EPI_ISL_416743) (0.82)
hCoV-19/Switzerland/GE1402/2020 (EPI_ISL_415700) (0.82)
hCoV-19/Australia/VIC238/2020 (MT451136) (0.8)
hCoV-19/Kuwait/KU008/2020 (EPI_ISL_422427) (0.8)
hCoV-19/Northern Ireland/NIRE-1023D7/2020 (EPI_ISL_441410) (0.8)
hCoV-19/Australia/VIC156/2020 (MT451060) (0.8)
hCoV-19/Wales/PHWC-29D55/2020 (EPI_ISL_432244) (0.8)
hCoV-19/Wales/PHWC-2B1FD/2020 (EPI_ISL_432246) (0.8)
hCoV-19/Wales/PHWC-26E19/2020 (EPI_ISL_422044) (0.8)
hCoV-19/Switzerland/GE0199(2020 (EPI_ISL_415455)EPI_ISL_4154552020-02-28 SNP:
241: C>T (7669 strain(s) in DB)
3037: C>T (7693 strain(s) in DB)
14408: C>T (7704 strain(s) in DB)
19839: T>C (113 strain(s) in DB)
23403: A>G (7732 strain(s) in DB)
28881: G>A (2045 strain(s) in DB)
28882: G>A (2040 strain(s) in DB)
28883: G>C (2036 strain(s) in DB)

Deletions:
1: AATTAAAGGTTT>- (4882 strain(s) in DB)

hCoV-19/Switzerland/BE6651/2020 (EPI_ISL_415456)EPI_ISL_4154562020-02-29 SNP:
241: C>T (7669 strain(s) in DB)
3037: C>T (7693 strain(s) in DB)
6861: C>T (7 strain(s) in DB)
14408: C>T (7704 strain(s) in DB)
19839: T>C (113 strain(s) in DB)
23403: A>G (7732 strain(s) in DB)
28881: G>A (2045 strain(s) in DB)
28882: G>A (2040 strain(s) in DB)
28883: G>C (2036 strain(s) in DB)

Deletions:
1: AATTA>- (4882 strain(s) in DB)

hCoV-19/Switzerland/AG7120/2020 (EPI_ISL_415457)EPI_ISL_4154572020-02-29 SNP:
241: C>T (7669 strain(s) in DB)
3037: C>T (7693 strain(s) in DB)
14408: C>T (7704 strain(s) in DB)
23403: A>G (7732 strain(s) in DB)
28881: G>A (2045 strain(s) in DB)
28882: G>A (2040 strain(s) in DB)
28883: G>C (2036 strain(s) in DB)
29148: T>C (28 strain(s) in DB)

Deletions:
1: AATTAAAG>- (4882 strain(s) in DB)

hCoV-19/Switzerland/GE8102/2020 (EPI_ISL_415458)EPI_ISL_4154582020-03-01 SNP:
241: C>T (7669 strain(s) in DB)
313: C>T (124 strain(s) in DB)
3037: C>T (7693 strain(s) in DB)
14408: C>T (7704 strain(s) in DB)
23403: A>G (7732 strain(s) in DB)
28881: G>A (2045 strain(s) in DB)
28882: G>A (2040 strain(s) in DB)
28883: G>C (2036 strain(s) in DB)

Deletions:
1: AATTAAA>- (4882 strain(s) in DB)

hCoV-19/Switzerland/VD0503/2020 (EPI_ISL_415459)EPI_ISL_4224272020-02-29 SNP:
241: C>T (7669 strain(s) in DB)
3037: C>T (7693 strain(s) in DB)
13503: G>T (3 strain(s) in DB)
14408: C>T (7704 strain(s) in DB)
23403: A>G (7732 strain(s) in DB)
28881: G>A (2045 strain(s) in DB)
28882: G>A (2040 strain(s) in DB)
28883: G>C (2036 strain(s) in DB)

Deletions:
1: AATTAAAGGTTT>- (4882 strain(s) in DB)

hCoV-19/Switzerland/VD5615/2020 (EPI_ISL_414023) (0.9)
hCoV-19/Wales/PHWC-2649F/2020 (EPI_ISL_422032) (0.89)
hCoV-19/Australia/VIC309/2020 (MT451201) (0.89)
hCoV-19/Australia/VIC45/2020 (MT450960) (0.89)
hCoV-19/Northern Ireland/NIRE-1023D7/2020 (EPI_ISL_441410) (0.89)
hCoV-19/Australia/VIC387/2020 (MT451274) (0.89)
hCoV-19/Australia/VIC109/2020 (MT451018) (0.89)
hCoV-19/Australia/VIC334/2020 (MT451225) (0.89)
hCoV-19/Wales/PHWC-2B1FD/2020 (EPI_ISL_432246) (0.89)
hCoV-19/Wales/PHWC-29D55/2020 (EPI_ISL_432244) (0.89)
hCoV-19/Kuwait/KU008/2020 (EPI_ISL_422427) (0.89)
hCov-19/Netherlands/Flevoland/1/2020 (EPI_ISL_415460)EPI_ISL_4154602020-03-09 SNP:
241: C>T (7669 strain(s) in DB)
1059: C>T (2820 strain(s) in DB)
3037: C>T (7693 strain(s) in DB)
14408: C>T (7704 strain(s) in DB)
23403: A>G (7732 strain(s) in DB)

Deletions:
1: AATTAAAGGTTTATACCTTC...>- (4882 strain(s) in DB)
29829: TGCTATCCCCATGTGATTTT...>T (405 strain(s) in DB)

hCov-19/Netherlands/Gelderland/1/2020 (EPI_ISL_415461)EPI_ISL_4154612020-03-10 SNP:
8782: C>T (1672 strain(s) in DB)
16381: G>A (27 strain(s) in DB)
28144: T>C (1654 strain(s) in DB)
28878: G>A (75 strain(s) in DB)
29742: G>A (236 strain(s) in DB)

Deletions:
1: AATTAAAGGTTTATACCTTC...>- (4882 strain(s) in DB)
29829: TGCTATCCCCATGTGATTTT...>T (405 strain(s) in DB)

hCoV-19/Netherlands/Gelderland/2/2020 (EPI_ISL_415462)EPI_ISL_4154622020-03-09 SNP:
241: C>T (7669 strain(s) in DB)
3037: C>T (7693 strain(s) in DB)
14408: C>T (7704 strain(s) in DB)
23403: A>G (7732 strain(s) in DB)
24862: A>G (98 strain(s) in DB)

Deletions:
1: AATTAAAGGTTTATACCTTC...>- (4882 strain(s) in DB)
29829: TGCTATCCCCATGTGATTTT...>T (405 strain(s) in DB)

hCoV-19/Netherlands/Gelderland/3/2020 (EPI_ISL_415463)EPI_ISL_4154632020-03-09 SNP:
241: C>T (7669 strain(s) in DB)
3037: C>T (7693 strain(s) in DB)
14408: C>T (7704 strain(s) in DB)
23403: A>G (7732 strain(s) in DB)
27046: C>T (266 strain(s) in DB)
28881: G>A (2045 strain(s) in DB)
28882: G>A (2040 strain(s) in DB)
28883: G>C (2036 strain(s) in DB)

Deletions:
1: AATTAAAGGTTTATACCTTC...>- (4882 strain(s) in DB)
29829: TGCTATCCCCATGTGATTTT...>T (405 strain(s) in DB)

hCoV-19/Netherlands/Limburg/7/2020 (EPI_ISL_415464)EPI_ISL_4194092020 SNP:
1440: G>A (174 strain(s) in DB)
2891: G>A (171 strain(s) in DB)

Deletions:
1: AATTAAAGGTTTATACCTTC...>- (4882 strain(s) in DB)
29829: TGCTATCCCCATGTGATTTT...>T (405 strain(s) in DB)

hCoV-19/Netherlands/NA_166/2020 (EPI_ISL_422701) (1)
hCoV-19/Netherlands/Gelderland_11/2020 (EPI_ISL_422639) (0.67)
hCov-19/Netherlands/NA/6/2020 (EPI_ISL_415495) (0.67)
hCoV-19/Netherlands/ZuidHolland/27/2020 (EPI_ISL_415531) (0.67)
hCoV-19/Belgium/ULG-6743/2020 (EPI_ISL_418627) (0.6)
hCoV-19/Wales/PHWC-24A62/2020 (EPI_ISL_419474) (0.6)
hCoV-19/Belgium/CG-030158/2020 (EPI_ISL_418987) (0.6)
hCoV-19/Wales/PHWC-29B79/2020 (EPI_ISL_432253) (0.6)
hCoV-19/Greece/149/2020 (EPI_ISL_434471) (0.6)
hCoV-19/Wales/PHWC-242C4/2020 (EPI_ISL_418163) (0.6)
hCoV-19/Wales/PHWC-24419/2020 (EPI_ISL_419409) (0.6)
hCov-19/Netherlands/NA/1/2020 (EPI_ISL_415465)EPI_ISL_4154652020-03-10 SNP:
241: C>T (7669 strain(s) in DB)
1059: C>T (2820 strain(s) in DB)
3037: C>T (7693 strain(s) in DB)
14408: C>T (7704 strain(s) in DB)
23403: A>G (7732 strain(s) in DB)

Deletions:
1: AATTAAAGGTTTATACCTTC...>- (4882 strain(s) in DB)
29829: TGCTATCCCCATGTGATTTT...>T (405 strain(s) in DB)

hCov-19/Netherlands/NA/10/2020 (EPI_ISL_415466)EPI_ISL_4227382020-03-09 SNP:
241: C>T (7669 strain(s) in DB)
1059: C>T (2820 strain(s) in DB)
3037: C>T (7693 strain(s) in DB)
14408: C>T (7704 strain(s) in DB)
23403: A>G (7732 strain(s) in DB)

Deletions:
1: AATTAAAGGTTTATACCTTC...>- (4882 strain(s) in DB)
29829: TGCTATCCCCATGTGATTTT...>T (405 strain(s) in DB)

hCov-19/Netherlands/NA/1/2020 (EPI_ISL_415465) (1)
hCov-19/Netherlands/NoordBrabant/59/2020 (EPI_ISL_415515) (1)
hCov-19/Netherlands/Flevoland/1/2020 (EPI_ISL_415460) (1)
hCov-19/Netherlands/NA/13/2020 (EPI_ISL_415469) (1)
hCoV-19/Netherlands/ZuidHolland_39/2020 (EPI_ISL_422911) (0.88)
hCoV-19/Netherlands/ZuidHolland/30/2020 (EPI_ISL_415534) (0.88)
hCoV-19/Netherlands/NoordHolland_4/2020 (EPI_ISL_422895) (0.88)
hCoV-19/Netherlands/NA_229/2020 (EPI_ISL_422764) (0.88)
hCoV-19/Netherlands/NA_220/2020 (EPI_ISL_422755) (0.88)
hCoV-19/Netherlands/NA_136/2020 (EPI_ISL_422680) (0.88)
hCoV-19/Netherlands/NA_203/2020 (EPI_ISL_422738) (0.88)
hCov-19/Netherlands/NA/11/2020 (EPI_ISL_415467)EPI_ISL_4228982020-03-10 SNP:
241: C>T (7669 strain(s) in DB)
3037: C>T (7693 strain(s) in DB)
10741: C>T (13 strain(s) in DB)
14408: C>T (7704 strain(s) in DB)
23403: A>G (7732 strain(s) in DB)
27046: C>T (266 strain(s) in DB)
28344: C>A (21 strain(s) in DB)
28881: G>A (2045 strain(s) in DB)
28882: G>A (2040 strain(s) in DB)
28883: G>C (2036 strain(s) in DB)

Deletions:
1: AATTAAAGGTTTATACCTTC...>- (4882 strain(s) in DB)
29829: TGCTATCCCCATGTGATTTT...>T (405 strain(s) in DB)

hCov-19/Netherlands/NA/26/2020 (EPI_ISL_415483) (1)
hCov-19/Netherlands/NA/9/2020 (EPI_ISL_415498) (0.92)
hCoV-19/Netherlands/NoordBrabant_3/2020 (EPI_ISL_414429) (0.92)
hCoV-19/Scotland/CVR49/2020 (EPI_ISL_425777) (0.85)
hCoV-19/Belgium/DWAEE-030954/2020 (EPI_ISL_418983) (0.85)
hCoV-19/Netherlands/NA_37/2020 (EPI_ISL_422798) (0.83)
hCov-19/Netherlands/NoordBrabant/67/2020 (EPI_ISL_415523) (0.83)
hCov-19/Netherlands/NoordBrabant/58/2020 (EPI_ISL_415514) (0.83)
hCov-19/Netherlands/NoordBrabant/45/2020 (EPI_ISL_415502) (0.83)
hCoV-19/Netherlands/Gelderland/3/2020 (EPI_ISL_415463) (0.83)
hCoV-19/Netherlands/Utrecht_21/2020 (EPI_ISL_422898) (0.83)
hCov-19/Netherlands/NA/12/2020 (EPI_ISL_415468)EPI_ISL_4154682020-03-10 SNP:
241: C>T (7669 strain(s) in DB)
3037: C>T (7693 strain(s) in DB)
14408: C>T (7704 strain(s) in DB)
22277: C>A (12 strain(s) in DB)
23403: A>G (7732 strain(s) in DB)
27046: C>T (266 strain(s) in DB)
28881: G>A (2045 strain(s) in DB)
28882: G>A (2040 strain(s) in DB)
28883: G>C (2036 strain(s) in DB)

Deletions:
1: AATTAAAGGTTTATACCTTC...>- (4882 strain(s) in DB)
29829: TGCTATCCCCATGTGATTTT...>T (405 strain(s) in DB)

hCov-19/Netherlands/NA/13/2020 (EPI_ISL_415469)EPI_ISL_4227382020-03-10 SNP:
241: C>T (7669 strain(s) in DB)
1059: C>T (2820 strain(s) in DB)
3037: C>T (7693 strain(s) in DB)
14408: C>T (7704 strain(s) in DB)
23403: A>G (7732 strain(s) in DB)

Deletions:
1: AATTAAAGGTTTATACCTTC...>- (4882 strain(s) in DB)
29829: TGCTATCCCCATGTGATTTT...>T (405 strain(s) in DB)

hCov-19/Netherlands/NA/1/2020 (EPI_ISL_415465) (1)
hCov-19/Netherlands/NoordBrabant/59/2020 (EPI_ISL_415515) (1)
hCov-19/Netherlands/Flevoland/1/2020 (EPI_ISL_415460) (1)
hCov-19/Netherlands/NA/10/2020 (EPI_ISL_415466) (1)
hCoV-19/Netherlands/ZuidHolland_39/2020 (EPI_ISL_422911) (0.88)
hCoV-19/Netherlands/ZuidHolland/30/2020 (EPI_ISL_415534) (0.88)
hCoV-19/Netherlands/NoordHolland_4/2020 (EPI_ISL_422895) (0.88)
hCoV-19/Netherlands/NA_229/2020 (EPI_ISL_422764) (0.88)
hCoV-19/Netherlands/NA_220/2020 (EPI_ISL_422755) (0.88)
hCoV-19/Netherlands/NA_136/2020 (EPI_ISL_422680) (0.88)
hCoV-19/Netherlands/NA_203/2020 (EPI_ISL_422738) (0.88)
hCoV-19/Netherlands/NA_14/2020EPI_ISL_4154702020-03-10
hCov-19/Netherlands/NA/15/2020 (EPI_ISL_415471)EPI_ISL_4155292020-03-11 SNP:
241: C>T (7669 strain(s) in DB)
3037: C>T (7693 strain(s) in DB)
11438: A>G (13 strain(s) in DB)
14408: C>T (7704 strain(s) in DB)
23403: A>G (7732 strain(s) in DB)
27046: C>T (266 strain(s) in DB)
28881: G>A (2045 strain(s) in DB)
28882: G>A (2040 strain(s) in DB)
28883: G>C (2036 strain(s) in DB)

Deletions:
1: AATTAAAGGTTTATACCTTC...>- (4882 strain(s) in DB)
29829: TGCTATCCCCATGTGATTTT...>T (405 strain(s) in DB)

hCoV-19/Netherlands/Limburg_8/2020 (EPI_ISL_422647) (1)
hCoV-19/Netherlands/NA_54/2020 (EPI_ISL_422815) (1)
hCoV-19/Netherlands/NA_119/2020 (EPI_ISL_422666) (1)
hCoV-19/Netherlands/NA_56/2020 (EPI_ISL_422817) (1)
hCoV-19/Netherlands/NA_92/2020 (EPI_ISL_422852) (1)
hCoV-19/Netherlands/NA_102/2020 (EPI_ISL_422651) (1)
hCoV-19/Netherlands/NA_237/2020 (EPI_ISL_422771) (1)
hCoV-19/Netherlands/ZuidHolland_43/2020 (EPI_ISL_422915) (1)
hCoV-19/Netherlands/NA_163/2020 (EPI_ISL_422698) (0.92)
hCoV-19/Netherlands/NA_164/2020 (EPI_ISL_422699) (0.92)
hCoV-19/Netherlands/ZuidHolland/25/2020 (EPI_ISL_415529) (0.91)
hCov-19/Netherlands/NA/16/2020 (EPI_ISL_415472)EPI_ISL_4227242020-03-11 SNP:
241: C>T (7669 strain(s) in DB)
3037: C>T (7693 strain(s) in DB)
14408: C>T (7704 strain(s) in DB)
20275: G>A (22 strain(s) in DB)
23403: A>G (7732 strain(s) in DB)

Deletions:
1: AATTAAAGGTTTATACCTTC...>- (4882 strain(s) in DB)
29829: TGCTATCCCCATGTGATTTT...>T (405 strain(s) in DB)

hCoV-19/Netherlands/NA_159/2020 (EPI_ISL_422694) (1)
hCoV-19/Netherlands/NA_91/2020 (EPI_ISL_422851) (1)
hCoV-19/Netherlands/NA_288/2020 (EPI_ISL_422597) (1)
hCoV-19/Netherlands/NA_150/2020 (EPI_ISL_422686) (1)
hCoV-19/Netherlands/NA_317/2020 (EPI_ISL_422626) (1)
hCoV-19/Netherlands/NA_160/2020 (EPI_ISL_422695) (1)
hCoV-19/Netherlands/NA_171/2020 (EPI_ISL_422706) (1)
hCoV-19/Netherlands/NA_285/2020 (EPI_ISL_422594) (0.88)
hCoV-19/Netherlands/ZuidHolland_40/2020 (EPI_ISL_422912) (0.88)
hCoV-19/Netherlands/ZuidHolland_97/2020 (EPI_ISL_422633) (0.88)
hCoV-19/Netherlands/NA_189/2020 (EPI_ISL_422724) (0.88)
hCov-19/Netherlands/NA/17/2020 (EPI_ISL_415473)EPI_ISL_4135912020-03-09 SNP:
241: C>T (7669 strain(s) in DB)
1594: C>T (34 strain(s) in DB)
3037: C>T (7693 strain(s) in DB)
11109: C>T (21 strain(s) in DB)
14408: C>T (7704 strain(s) in DB)
23403: A>G (7732 strain(s) in DB)

Deletions:
1: AATTAAAGGTTTATACCTTC...>- (4882 strain(s) in DB)
29829: TGCTATCCCCATGTGATTTT...>T (405 strain(s) in DB)

hCov-19/Netherlands/NA/18/2020 (EPI_ISL_415474) (1)
hCov-19/Netherlands/NoordBrabant/41/2020 (EPI_ISL_415499) (1)
hCoV-19/Netherlands/ZuidHolland_56/2020 (EPI_ISL_422924) (0.89)
hCov-19/Netherlands/NA/28/2020 (EPI_ISL_415485) (0.89)
hCoV-19/Netherlands/NA_52/2020 (EPI_ISL_422813) (0.89)
hCoV-19/Netherlands/NA_268/2020 (EPI_ISL_422579) (0.89)
hCoV-19/Netherlands/NA_126/2020 (EPI_ISL_422670) (0.8)
hCoV-19/Netherlands/NA_301/2020 (EPI_ISL_422610) (0.8)
hCoV-19/Netherlands/NA_168/2020 (EPI_ISL_422703) (0.8)
hCoV-19/Netherlands/NA_210/2020 (EPI_ISL_422745) (0.8)
hCoV-19/Netherlands/Zeewolde_1365080/2020 (EPI_ISL_413591) (0.75)
hCov-19/Netherlands/NA/18/2020 (EPI_ISL_415474)EPI_ISL_4154742020-03-09 SNP:
241: C>T (7669 strain(s) in DB)
1594: C>T (34 strain(s) in DB)
3037: C>T (7693 strain(s) in DB)
11109: C>T (21 strain(s) in DB)
14408: C>T (7704 strain(s) in DB)
23403: A>G (7732 strain(s) in DB)

Deletions:
1: AATTAAAGGTTTATACCTTC...>- (4882 strain(s) in DB)
29829: TGCTATCCCCATGTGATTTT...>T (405 strain(s) in DB)

hCov-19/Netherlands/NA/19/2020 (EPI_ISL_415475)EPI_ISL_4228982020-03-12 SNP:
241: C>T (7669 strain(s) in DB)
3037: C>T (7693 strain(s) in DB)
6255: C>T (15 strain(s) in DB)
14408: C>T (7704 strain(s) in DB)
23403: A>G (7732 strain(s) in DB)
27046: C>T (266 strain(s) in DB)
28881: G>A (2045 strain(s) in DB)
28882: G>A (2040 strain(s) in DB)
28883: G>C (2036 strain(s) in DB)

Deletions:
1: AATTAAAGGTTTATACCTTC...>- (4882 strain(s) in DB)
29829: TGCTATCCCCATGTGATTTT...>T (405 strain(s) in DB)

hCoV-19/Netherlands/ZuidHolland_22/2020 (EPI_ISL_414564) (0.91)
hCoV-19/Netherlands/Rotterdam_1364740/2020 (EPI_ISL_413584) (0.91)
hCoV-19/Netherlands/NA_64/2020 (EPI_ISL_422825) (0.91)
hCoV-19/Netherlands/NA_186/2020 (EPI_ISL_422721) (0.91)
hCoV-19/Netherlands/Gelderland/3/2020 (EPI_ISL_415463) (0.91)
hCoV-19/Netherlands/Utrecht_5/2020 (EPI_ISL_414439) (0.91)
hCoV-19/Netherlands/NA_284/2020 (EPI_ISL_422593) (0.91)
hCoV-19/Netherlands/NA_36/2020 (EPI_ISL_422797) (0.91)
hCov-19/Netherlands/NA/7/2020 (EPI_ISL_415496) (0.91)
hCov-19/Netherlands/NoordBrabant/45/2020 (EPI_ISL_415502) (0.91)
hCoV-19/Netherlands/Utrecht_21/2020 (EPI_ISL_422898) (0.91)
hCov-19/Netherlands/NA/2/2020 (EPI_ISL_415476)EPI_ISL_4145522020-03-10 SNP:
241: C>T (7669 strain(s) in DB)
3037: C>T (7693 strain(s) in DB)
14408: C>T (7704 strain(s) in DB)
18029: C>T (9 strain(s) in DB)
23403: A>G (7732 strain(s) in DB)
28881: G>A (2045 strain(s) in DB)
28882: G>A (2040 strain(s) in DB)
28883: G>C (2036 strain(s) in DB)

Deletions:
1: AATTAAAGGTTTATACCTTC...>- (4882 strain(s) in DB)
29829: TGCTATCCCCATGTGATTTT...>T (405 strain(s) in DB)

hCoV-19/Netherlands/Tilburg_1364286/2020 (EPI_ISL_413587) (0.9)
hCoV-19/Netherlands/Nootdorp_1364222/2020 (EPI_ISL_413579) (0.9)
hCoV-19/Netherlands/NA_37/2020 (EPI_ISL_422798) (0.82)
hCoV-19/Netherlands/ZuidHolland/29/2020 (EPI_ISL_415533) (0.82)
hCoV-19/Netherlands/NA_272/2020 (EPI_ISL_422583) (0.82)
hCoV-19/Netherlands/NA_265/2020 (EPI_ISL_422576) (0.82)
hCoV-19/Netherlands/ZuidHolland/25/2020 (EPI_ISL_415529) (0.82)
hCov-19/Netherlands/NoordBrabant/67/2020 (EPI_ISL_415523) (0.82)
hCoV-19/Netherlands/NA_62/2020 (EPI_ISL_422823) (0.82)
hCov-19/Netherlands/NoordBrabant/58/2020 (EPI_ISL_415514) (0.82)
hCoV-19/Netherlands/Utrecht_13/2020 (EPI_ISL_414552) (0.82)
hCoV-19/Netherlands/NA_20/2020EPI_ISL_4154772020-03-12
hCov-19/Netherlands/NA/21/2020 (EPI_ISL_415478)EPI_ISL_4232422020-03-08 SNP:
210: G>T (7 strain(s) in DB)
2480: A>G (278 strain(s) in DB)
2558: C>T (299 strain(s) in DB)
11083: G>T (1220 strain(s) in DB)
14805: C>T (875 strain(s) in DB)
26144: G>T (818 strain(s) in DB)

Deletions:
1: AATTAAAGGTTTATACCTTC...>- (4882 strain(s) in DB)
29829: TGCTATCCCCATGTGATTTT...>T (405 strain(s) in DB)

hCoV-19/Australia/VIC187/2020 (MT451089) (0.88)
hCoV-19/Australia/VIC186/2020 (MT451088) (0.88)
hCoV-19/Australia/VIC88/2020 (MT450998) (0.67)
hCoV-19/Australia/QLDID929/2020 (EPI_ISL_420878) (0.67)
hCoV-19/Portugal/IGC00009/2020 (EPI_ISL_419386) (0.67)
hCoV-19/England/CAMB-75FDC/2020 (EPI_ISL_438480) (0.67)
hCoV-19/Wales/PHWC-25B6E/2020 (EPI_ISL_422063) (0.67)
hCoV-19/Australia/NSW58/2020 (EPI_ISL_417410) (0.67)
hCoV-19/Australia/VIC87/2020 (MT450997) (0.67)
hCoV-19/Netherlands/NA_120/2020 (EPI_ISL_422667) (0.64)
hCoV-19/England/201360210/2020 (EPI_ISL_423242) (0.63)
hCov-19/Netherlands/NA/22/2020 (EPI_ISL_415479)EPI_ISL_4155072020-03-08 SNP:
514: T>C (127 strain(s) in DB)
9314: G>T (1 strain(s) in DB)

Deletions:
1: AATTAAAGGTTTATACCTTC...>- (4882 strain(s) in DB)
1604: AATG>A (288 strain(s) in DB)
29829: TGCTATCCCCATGTGATTTT...>T (405 strain(s) in DB)

hCoV-19/Netherlands/NoordBrabant_77/2020 (EPI_ISL_422873) (0.8)
hCoV-19/Netherlands/Naarden_1364774/2020 (EPI_ISL_413577) (0.8)
hCoV-19/Netherlands/NA_227/2020 (EPI_ISL_422762) (0.8)
hCoV-19/Netherlands/NA_226/2020 (EPI_ISL_422761) (0.8)
hCoV-19/Netherlands/NA_207/2020 (EPI_ISL_422742) (0.8)
hCoV-19/Netherlands/NA_195/2020 (EPI_ISL_422730) (0.8)
hCoV-19/Netherlands/Rotterdam_1364040/2020 (EPI_ISL_413583) (0.8)
hCoV-19/Netherlands/NA_185/2020 (EPI_ISL_422720) (0.8)
hCov-19/Netherlands/NA/32/2020 (EPI_ISL_415489) (0.8)
hCoV-19/Netherlands/NoordBrabant_95/2020 (EPI_ISL_422889) (0.8)
hCov-19/Netherlands/NoordBrabant/51/2020 (EPI_ISL_415507) (0.8)
hCov-19/Netherlands/NA/23/2020 (EPI_ISL_415480)EPI_ISL_4229262020-03-09 SNP:
241: C>T (7669 strain(s) in DB)
3037: C>T (7693 strain(s) in DB)
4255: G>T (50 strain(s) in DB)
5284: C>T (15 strain(s) in DB)
14408: C>T (7704 strain(s) in DB)
16456: T>G (10 strain(s) in DB)
20051: C>T (4 strain(s) in DB)
23403: A>G (7732 strain(s) in DB)
24117: C>T (3 strain(s) in DB)

Deletions:
1: AATTAAAGGTTTATACCTTC...>- (4882 strain(s) in DB)
29829: TGCTATCCCCATGTGATTTT...>T (405 strain(s) in DB)

hCoV-19/Netherlands/ZuidHolland_9/2020 (EPI_ISL_414445) (1)
hCoV-19/Netherlands/NA_256/2020 (EPI_ISL_422790) (0.92)
hCoV-19/Netherlands/Gelderland_7/2020 (EPI_ISL_422643) (0.58)
hCoV-19/USA/NY-PV09309/2020 (MT371017) (0.57)
hCoV-19/Netherlands/Utrecht_11/2020 (EPI_ISL_414443) (0.55)
hCoV-19/Netherlands/Zeewolde_1365080/2020 (EPI_ISL_413591) (0.55)
hCoV-19/Netherlands/Gelderland_6/2020 (EPI_ISL_422642) (0.55)
hCoV-19/Netherlands/Blaricum_1364780/2020 (EPI_ISL_413566) (0.55)
hCoV-19/Netherlands/NA_61/2020 (EPI_ISL_422822) (0.54)
hCoV-19/Netherlands/NA_160/2020 (EPI_ISL_422695) (0.5)
hCoV-19/Netherlands/ZuidHolland_58/2020 (EPI_ISL_422926) (0.5)
hCov-19/Netherlands/NA/24/2020 (EPI_ISL_415481)EPI_ISL_4154812020-03-08 SNP:
241: C>T (7669 strain(s) in DB)
1059: C>T (2820 strain(s) in DB)
3037: C>T (7693 strain(s) in DB)
6255: C>T (15 strain(s) in DB)
14408: C>T (7704 strain(s) in DB)
23403: A>G (7732 strain(s) in DB)
25563: G>T (3418 strain(s) in DB)

Deletions:
1: AATTAAAGGTTTATACCTTC...>- (4882 strain(s) in DB)
29829: TGCTATCCCCATGTGATTTT...>T (405 strain(s) in DB)

hCov-19/Netherlands/NA/25/2020 (EPI_ISL_415482)EPI_ISL_4155142020-03-09 SNP:
241: C>T (7669 strain(s) in DB)
3037: C>T (7693 strain(s) in DB)
14408: C>T (7704 strain(s) in DB)
23403: A>G (7732 strain(s) in DB)
25855: G>T (7 strain(s) in DB)
27046: C>T (266 strain(s) in DB)
28881: G>A (2045 strain(s) in DB)
28882: G>A (2040 strain(s) in DB)
28883: G>C (2036 strain(s) in DB)

Deletions:
1: AATTAAAGGTTTATACCTTC...>- (4882 strain(s) in DB)
29829: TGCTATCCCCATGTGATTTT...>T (405 strain(s) in DB)

hCoV-19/Netherlands/NA_272/2020 (EPI_ISL_422583) (0.91)
hCoV-19/Netherlands/ZuidHolland/25/2020 (EPI_ISL_415529) (0.91)
hCoV-19/Netherlands/NA_130/2020 (EPI_ISL_422674) (0.91)
hCoV-19/Netherlands/Utrecht_13/2020 (EPI_ISL_414552) (0.91)
hCov-19/Netherlands/NA/7/2020 (EPI_ISL_415496) (0.91)
hCov-19/Netherlands/NoordBrabant/45/2020 (EPI_ISL_415502) (0.91)
hCoV-19/Netherlands/NA_265/2020 (EPI_ISL_422576) (0.91)
hCoV-19/Netherlands/NA_64/2020 (EPI_ISL_422825) (0.91)
hCoV-19/Netherlands/NA_231/2020 (EPI_ISL_422766) (0.91)
hCoV-19/Netherlands/Rotterdam_1364740/2020 (EPI_ISL_413584) (0.91)
hCov-19/Netherlands/NoordBrabant/58/2020 (EPI_ISL_415514) (0.91)
hCov-19/Netherlands/NA/26/2020 (EPI_ISL_415483)EPI_ISL_4228982020-03-09 SNP:
241: C>T (7669 strain(s) in DB)
3037: C>T (7693 strain(s) in DB)
10741: C>T (13 strain(s) in DB)
14408: C>T (7704 strain(s) in DB)
23403: A>G (7732 strain(s) in DB)
27046: C>T (266 strain(s) in DB)
28344: C>A (21 strain(s) in DB)
28881: G>A (2045 strain(s) in DB)
28882: G>A (2040 strain(s) in DB)
28883: G>C (2036 strain(s) in DB)

Deletions:
1: AATTAAAGGTTTATACCTTC...>- (4882 strain(s) in DB)
29829: TGCTATCCCCATGTGATTTT...>T (405 strain(s) in DB)

hCov-19/Netherlands/NA/11/2020 (EPI_ISL_415467) (1)
hCov-19/Netherlands/NA/9/2020 (EPI_ISL_415498) (0.92)
hCoV-19/Netherlands/NoordBrabant_3/2020 (EPI_ISL_414429) (0.92)
hCoV-19/Scotland/CVR49/2020 (EPI_ISL_425777) (0.85)
hCoV-19/Belgium/DWAEE-030954/2020 (EPI_ISL_418983) (0.85)
hCoV-19/Netherlands/NA_37/2020 (EPI_ISL_422798) (0.83)
hCov-19/Netherlands/NoordBrabant/67/2020 (EPI_ISL_415523) (0.83)
hCov-19/Netherlands/NoordBrabant/58/2020 (EPI_ISL_415514) (0.83)
hCov-19/Netherlands/NoordBrabant/45/2020 (EPI_ISL_415502) (0.83)
hCoV-19/Netherlands/Gelderland/3/2020 (EPI_ISL_415463) (0.83)
hCoV-19/Netherlands/Utrecht_21/2020 (EPI_ISL_422898) (0.83)
hCoV-19/Netherlands/NA_27/2020EPI_ISL_4154842020-03-13
hCov-19/Netherlands/NA/28/2020 (EPI_ISL_415485)EPI_ISL_4154852020-03-12 SNP:
241: C>T (7669 strain(s) in DB)
1457: C>T (14 strain(s) in DB)
1594: C>T (34 strain(s) in DB)
3037: C>T (7693 strain(s) in DB)
11109: C>T (21 strain(s) in DB)
14408: C>T (7704 strain(s) in DB)
23403: A>G (7732 strain(s) in DB)

Deletions:
1: AATTAAAGGTTTATACCTTC...>- (4882 strain(s) in DB)
29829: TGCTATCCCCATGTGATTTT...>T (405 strain(s) in DB)

hCov-19/Netherlands/NA/29/2020 (EPI_ISL_415486)EPI_ISL_4229102020-03-13 SNP:
11083: G>T (1220 strain(s) in DB)
13078: T>C (6 strain(s) in DB)
14653: G>T (6 strain(s) in DB)
14805: C>T (875 strain(s) in DB)
17247: T>C (334 strain(s) in DB)
26144: G>T (818 strain(s) in DB)

Deletions:
1: AATTAAAGGTTTATACCTTC...>- (4882 strain(s) in DB)
29829: TGCTATCCCCATGTGATTTT...>T (405 strain(s) in DB)

hCoV-19/Netherlands/NA_74/2020 (EPI_ISL_422834) (0.75)
hCoV-19/Netherlands/NA_129/2020 (EPI_ISL_422673) (0.75)
hCoV-19/Netherlands/NA_55/2020 (EPI_ISL_422816) (0.75)
hCoV-19/Netherlands/NA_201/2020 (EPI_ISL_422736) (0.75)
hCoV-19/Netherlands/NA_230/2020 (EPI_ISL_422765) (0.75)
hCoV-19/Netherlands/NA_57/2020 (EPI_ISL_422818) (0.75)
hCoV-19/Netherlands/NA_60/2020 (EPI_ISL_422821) (0.75)
hCoV-19/Netherlands/NA_144/2020 (EPI_ISL_422684) (0.75)
hCoV-19/Netherlands/NA_48/2020 (EPI_ISL_422809) (0.75)
hCov-19/Netherlands/NA/34/2020 (EPI_ISL_415491) (0.75)
hCoV-19/Netherlands/ZuidHolland_38/2020 (EPI_ISL_422910) (0.67)
hCov-19/Netherlands/NA/30/2020 (EPI_ISL_415487)EPI_ISL_4227292020-03-13 SNP:
241: C>T (7669 strain(s) in DB)
1059: C>T (2820 strain(s) in DB)
3037: C>T (7693 strain(s) in DB)
14408: C>T (7704 strain(s) in DB)
23403: A>G (7732 strain(s) in DB)
25414: T>C (4 strain(s) in DB)
25563: G>T (3418 strain(s) in DB)

Deletions:
1: AATTAAAGGTTTATACCTTC...>- (4882 strain(s) in DB)
29829: TGCTATCCCCATGTGATTTT...>T (405 strain(s) in DB)

hCoV-19/Netherlands/ZuidHolland_39/2020 (EPI_ISL_422911) (0.89)
hCoV-19/Netherlands/NA_136/2020 (EPI_ISL_422680) (0.89)
hCoV-19/Netherlands/NA_229/2020 (EPI_ISL_422764) (0.89)
hCoV-19/Netherlands/NoordHolland_4/2020 (EPI_ISL_422895) (0.89)
hCoV-19/Netherlands/NA_220/2020 (EPI_ISL_422755) (0.89)
hCoV-19/Netherlands/NA_203/2020 (EPI_ISL_422738) (0.89)
hCoV-19/Netherlands/ZuidHolland_79/2020 (EPI_ISL_422947) (0.8)
hCoV-19/Netherlands/NA_161/2020 (EPI_ISL_422696) (0.8)
hCoV-19/Netherlands/NA_103/2020 (EPI_ISL_422652) (0.8)
hCov-19/Netherlands/NA/24/2020 (EPI_ISL_415481) (0.8)
hCoV-19/Netherlands/NA_194/2020 (EPI_ISL_422729) (0.8)
hCov-19/Netherlands/NA/31/2020 (EPI_ISL_415488)EPI_ISL_4226922020-03-13 SNP:
241: C>T (7669 strain(s) in DB)
3037: C>T (7693 strain(s) in DB)
14408: C>T (7704 strain(s) in DB)
23403: A>G (7732 strain(s) in DB)
24862: A>G (98 strain(s) in DB)
27870: G>T (4 strain(s) in DB)
29477: G>T (5 strain(s) in DB)

Deletions:
1: AATTAAAGGTTTATACCTTC...>- (4882 strain(s) in DB)
29829: TGCTATCCCCATGTGATTTT...>T (405 strain(s) in DB)

hCoV-19/Netherlands/NoordBrabant_74/2020 (EPI_ISL_422870) (0.78)
hCoV-19/Netherlands/NoordBrabant_105/2020 (EPI_ISL_422864) (0.78)
hCoV-19/Netherlands/NoordBrabant_81/2020 (EPI_ISL_422876) (0.78)
hCov-19/Netherlands/NoordBrabant/62/2020 (EPI_ISL_415518) (0.78)
hCov-19/Netherlands/NoordBrabant/64/2020 (EPI_ISL_415520) (0.78)
hCoV-19/Netherlands/NoordBrabant_96/2020 (EPI_ISL_422890) (0.78)
hCoV-19/Netherlands/NoordBrabant_98/2020 (EPI_ISL_422892) (0.78)
hCoV-19/Netherlands/NA_187/2020 (EPI_ISL_422722) (0.78)
hCoV-19/Netherlands/NoordBrabant_104/2020 (EPI_ISL_422863) (0.78)
hCoV-19/Netherlands/NA_114/2020 (EPI_ISL_422662) (0.78)
hCoV-19/Netherlands/NA_157/2020 (EPI_ISL_422692) (0.78)
hCov-19/Netherlands/NA/32/2020 (EPI_ISL_415489)EPI_ISL_4154892020-03-13 SNP:
514: T>C (127 strain(s) in DB)

Deletions:
1: AATTAAAGGTTTATACCTTC...>- (4882 strain(s) in DB)
1604: AATG>A (288 strain(s) in DB)
29829: TGCTATCCCCATGTGATTTT...>T (405 strain(s) in DB)

hCoV-19/Netherlands/NA_33/2020EPI_ISL_4154902020-03-07
hCov-19/Netherlands/NA/34/2020 (EPI_ISL_415491)EPI_ISL_4154912020-03-07 SNP:
11083: G>T (1220 strain(s) in DB)
14805: C>T (875 strain(s) in DB)
17247: T>C (334 strain(s) in DB)
26144: G>T (818 strain(s) in DB)

Deletions:
1: AATTAAAGGTTTATACCTTC...>- (4882 strain(s) in DB)
29829: TGCTATCCCCATGTGATTTT...>T (405 strain(s) in DB)

hCov-19/Netherlands/NA/35/2020 (EPI_ISL_415492)EPI_ISL_4228162020-03-10 SNP:
1570: T>C (17 strain(s) in DB)
11083: G>T (1220 strain(s) in DB)
14408: C>T (7704 strain(s) in DB)
14805: C>T (875 strain(s) in DB)
17247: T>C (334 strain(s) in DB)
21462: T>C (3 strain(s) in DB)
26144: G>T (818 strain(s) in DB)

Deletions:
1: AATTAAAGGTTTATACCTTC...>- (4882 strain(s) in DB)
29829: TGCTATCCCCATGTGATTTT...>T (405 strain(s) in DB)

hCoV-19/Netherlands/NA_43/2020 (EPI_ISL_422804) (0.89)
hCov-19/Netherlands/NoordBrabant/56/2020 (EPI_ISL_415512) (0.89)
hCoV-19/Netherlands/NA_46/2020 (EPI_ISL_422807) (0.78)
hCoV-19/Netherlands/ZuidHolland_38/2020 (EPI_ISL_422910) (0.78)
hCoV-19/Netherlands/NA_294/2020 (EPI_ISL_422603) (0.7)
hCoV-19/Netherlands/NA_295/2020 (EPI_ISL_422604) (0.7)
hCoV-19/Netherlands/NA_298/2020 (EPI_ISL_422607) (0.7)
hCov-19/Netherlands/NA/34/2020 (EPI_ISL_415491) (0.67)
hCoV-19/Netherlands/NA_144/2020 (EPI_ISL_422684) (0.67)
hCoV-19/Netherlands/NA_48/2020 (EPI_ISL_422809) (0.67)
hCoV-19/Netherlands/NA_55/2020 (EPI_ISL_422816) (0.67)
hCoV-19/Netherlands/NA_4/2020EPI_ISL_4154932020
hCoV-19/Netherlands/NA_5/2020EPI_ISL_4154942020
hCov-19/Netherlands/NA/6/2020 (EPI_ISL_415495)MT4509412020-03-10 SNP:
1440: G>A (174 strain(s) in DB)
2891: G>A (171 strain(s) in DB)
16075: G>T (5 strain(s) in DB)
29383: G>T (2 strain(s) in DB)

Deletions:
1: AATTAAAGGTTTATACCTTC...>- (4882 strain(s) in DB)
29829: TGCTATCCCCATGTGATTTT...>T (405 strain(s) in DB)

hCoV-19/Netherlands/Limburg/7/2020 (EPI_ISL_415464) (0.67)
hCoV-19/Netherlands/NA_166/2020 (EPI_ISL_422701) (0.67)
hCoV-19/Netherlands/ZuidHolland/27/2020 (EPI_ISL_415531) (0.5)
hCoV-19/Netherlands/Gelderland_11/2020 (EPI_ISL_422639) (0.5)
hCoV-19/Wales/PHWC-23D6A/2020 (EPI_ISL_418110) (0.43)
hCoV-19/Greece/149/2020 (EPI_ISL_434471) (0.43)
hCoV-19/Wales/PHWC-24A62/2020 (EPI_ISL_419474) (0.43)
hCoV-19/Australia/VIC193/2020 (MT451095) (0.43)
hCoV-19/Wales/PHWC-24419/2020 (EPI_ISL_419409) (0.43)
hCoV-19/Portugal/PT0054/2020 (EPI_ISL_421457) (0.43)
hCoV-19/Australia/VIC26/2020 (MT450941) (0.43)
hCov-19/Netherlands/NA/7/2020 (EPI_ISL_415496)EPI_ISL_4226742020-03-09 SNP:
241: C>T (7669 strain(s) in DB)
3037: C>T (7693 strain(s) in DB)
14408: C>T (7704 strain(s) in DB)
23403: A>G (7732 strain(s) in DB)
27046: C>T (266 strain(s) in DB)
28881: G>A (2045 strain(s) in DB)
28882: G>A (2040 strain(s) in DB)
28883: G>C (2036 strain(s) in DB)

Deletions:
1: AATTAAAGGTTTATACCTTC...>- (4882 strain(s) in DB)
29829: TGCTATCCCCATGTGATTTT...>T (405 strain(s) in DB)

hCoV-19/Netherlands/Utrecht_13/2020 (EPI_ISL_414552) (1)
hCoV-19/Netherlands/NA_51/2020 (EPI_ISL_422812) (1)
hCoV-19/Netherlands/NA_111/2020 (EPI_ISL_422659) (1)
hCoV-19/Netherlands/Rotterdam_1364740/2020 (EPI_ISL_413584) (1)
hCoV-19/Netherlands/NA_284/2020 (EPI_ISL_422593) (1)
hCoV-19/Netherlands/NA_272/2020 (EPI_ISL_422583) (1)
hCoV-19/Netherlands/NA_265/2020 (EPI_ISL_422576) (1)
hCov-19/Netherlands/NoordBrabant/45/2020 (EPI_ISL_415502) (1)
hCov-19/Netherlands/NoordBrabant/67/2020 (EPI_ISL_415523) (1)
hCoV-19/Netherlands/ZuidHolland/25/2020 (EPI_ISL_415529) (1)
hCoV-19/Netherlands/NA_130/2020 (EPI_ISL_422674) (1)
hCov-19/Netherlands/NA/8/2020 (EPI_ISL_415497)EPI_ISL_4225932020-03-09 SNP:
241: C>T (7669 strain(s) in DB)
3037: C>T (7693 strain(s) in DB)
14408: C>T (7704 strain(s) in DB)
22277: C>A (12 strain(s) in DB)
23403: A>G (7732 strain(s) in DB)
27046: C>T (266 strain(s) in DB)
28881: G>A (2045 strain(s) in DB)
28882: G>A (2040 strain(s) in DB)
28883: G>C (2036 strain(s) in DB)
29290: G>T (6 strain(s) in DB)

Deletions:
1: AATTAAAGGTTTATACCTTC...>- (4882 strain(s) in DB)
29829: TGCTATCCCCATGTGATTTT...>T (405 strain(s) in DB)

hCoV-19/Netherlands/Utrecht_15/2020 (EPI_ISL_414554) (0.92)
hCov-19/Netherlands/NA/12/2020 (EPI_ISL_415468) (0.92)
hCov-19/Netherlands/NoordBrabant/55/2020 (EPI_ISL_415511) (0.92)
hCoV-19/Netherlands/ZuidHolland/26/2020 (EPI_ISL_415530) (0.92)
hCoV-19/Netherlands/NA_272/2020 (EPI_ISL_422583) (0.83)
hCoV-19/Netherlands/NA_130/2020 (EPI_ISL_422674) (0.83)
hCoV-19/Netherlands/NA_111/2020 (EPI_ISL_422659) (0.83)
hCoV-19/Netherlands/Utrecht_21/2020 (EPI_ISL_422898) (0.83)
hCoV-19/Netherlands/ZuidHolland/25/2020 (EPI_ISL_415529) (0.83)
hCoV-19/Netherlands/Rotterdam_1364740/2020 (EPI_ISL_413584) (0.83)
hCoV-19/Netherlands/NA_284/2020 (EPI_ISL_422593) (0.83)
hCov-19/Netherlands/NA/9/2020 (EPI_ISL_415498)EPI_ISL_4155292020-03-09 SNP:
241: C>T (7669 strain(s) in DB)
3037: C>T (7693 strain(s) in DB)
14408: C>T (7704 strain(s) in DB)
23403: A>G (7732 strain(s) in DB)
27046: C>T (266 strain(s) in DB)
28344: C>A (21 strain(s) in DB)
28881: G>A (2045 strain(s) in DB)
28882: G>A (2040 strain(s) in DB)
28883: G>C (2036 strain(s) in DB)

Deletions:
1: AATTAAAGGTTTATACCTTC...>- (4882 strain(s) in DB)
29829: TGCTATCCCCATGTGATTTT...>T (405 strain(s) in DB)

hCoV-19/Netherlands/NoordBrabant_3/2020 (EPI_ISL_414429) (1)
hCov-19/Netherlands/NA/26/2020 (EPI_ISL_415483) (0.92)
hCov-19/Netherlands/NA/11/2020 (EPI_ISL_415467) (0.92)
hCoV-19/Netherlands/NoordHolland_1/2020 (EPI_ISL_414433) (0.91)
hCoV-19/Netherlands/Utrecht_13/2020 (EPI_ISL_414552) (0.91)
hCoV-19/Netherlands/NA_111/2020 (EPI_ISL_422659) (0.91)
hCoV-19/Netherlands/ZuidHolland/29/2020 (EPI_ISL_415533) (0.91)
hCoV-19/Netherlands/NA_284/2020 (EPI_ISL_422593) (0.91)
hCoV-19/Netherlands/NA_272/2020 (EPI_ISL_422583) (0.91)
hCoV-19/Netherlands/NA_265/2020 (EPI_ISL_422576) (0.91)
hCoV-19/Netherlands/ZuidHolland/25/2020 (EPI_ISL_415529) (0.91)
hCov-19/Netherlands/NoordBrabant/41/2020 (EPI_ISL_415499)EPI_ISL_4154992020 SNP:
241: C>T (7669 strain(s) in DB)
1594: C>T (34 strain(s) in DB)
3037: C>T (7693 strain(s) in DB)
11109: C>T (21 strain(s) in DB)
14408: C>T (7704 strain(s) in DB)
23403: A>G (7732 strain(s) in DB)

Deletions:
1: AATTAAAGGTTTATACCTTC...>- (4882 strain(s) in DB)
29829: TGCTATCCCCATGTGATTTT...>T (405 strain(s) in DB)

hCov-19/Netherlands/NoordBrabant/42/2020 (EPI_ISL_415500)EPI_ISL_4228432020-03-10 SNP:
514: T>C (127 strain(s) in DB)
17410: C>T (64 strain(s) in DB)
27754: G>T (2 strain(s) in DB)

Deletions:
1: AATTAAAGGTTTATACCTTC...>- (4882 strain(s) in DB)
1604: AATG>A (288 strain(s) in DB)
29829: TGCTATCCCCATGTGATTTT...>T (405 strain(s) in DB)

hCoV-19/Netherlands/NA_77/2020 (EPI_ISL_422837) (0.83)
hCoV-19/Netherlands/NoordHolland_31/2020 (EPI_ISL_422894) (0.83)
hCoV-19/Netherlands/NA_154/2020 (EPI_ISL_422689) (0.83)
hCoV-19/Netherlands/Gelderland_5/2020 (EPI_ISL_422641) (0.83)
hCoV-19/Netherlands/NA_193/2020 (EPI_ISL_422728) (0.83)
hCoV-19/Netherlands/NA_40/2020 (EPI_ISL_422801) (0.83)
hCoV-19/Netherlands/NA_44/2020 (EPI_ISL_422805) (0.83)
hCoV-19/Netherlands/NA_50/2020 (EPI_ISL_422811) (0.83)
hCoV-19/Netherlands/NA_75/2020 (EPI_ISL_422835) (0.83)
hCoV-19/Netherlands/NA_80/2020 (EPI_ISL_422840) (0.83)
hCoV-19/Netherlands/NA_83/2020 (EPI_ISL_422843) (0.83)
hCov-19/Netherlands/NoordBrabant/44/2020 (EPI_ISL_415501)EPI_ISL_4155012020-03-11 SNP:
514: T>C (127 strain(s) in DB)
17410: C>T (64 strain(s) in DB)

Deletions:
1: AATTAAAGGTTTATACCTTC...>- (4882 strain(s) in DB)
1604: AATG>A (288 strain(s) in DB)
29829: TGCTATCCCCATGTGATTTT...>T (405 strain(s) in DB)

hCov-19/Netherlands/NoordBrabant/45/2020 (EPI_ISL_415502)EPI_ISL_4155022020-03-09 SNP:
241: C>T (7669 strain(s) in DB)
3037: C>T (7693 strain(s) in DB)
14408: C>T (7704 strain(s) in DB)
23403: A>G (7732 strain(s) in DB)
27046: C>T (266 strain(s) in DB)
28881: G>A (2045 strain(s) in DB)
28882: G>A (2040 strain(s) in DB)
28883: G>C (2036 strain(s) in DB)

Deletions:
1: AATTAAAGGTTTATACCTTC...>- (4882 strain(s) in DB)
29829: TGCTATCCCCATGTGATTTT...>T (405 strain(s) in DB)

hCov-19/Netherlands/NoordBrabant/46/2020 (EPI_ISL_415503)EPI_ISL_4251852020-03-11 SNP:
8782: C>T (1672 strain(s) in DB)
9477: T>A (113 strain(s) in DB)
10523: G>A (8 strain(s) in DB)
14805: C>T (875 strain(s) in DB)
18662: G>T (1 strain(s) in DB)
25273: G>C (6 strain(s) in DB)
25979: G>T (113 strain(s) in DB)
28144: T>C (1654 strain(s) in DB)
28657: C>T (132 strain(s) in DB)
28863: C>T (116 strain(s) in DB)

Deletions:
1: AATTAAAGGTTTATACCTTC...>- (4882 strain(s) in DB)
29829: TGCTATCCCCATGTGATTTT...>T (405 strain(s) in DB)

hCoV-19/Netherlands/NA_42/2020 (EPI_ISL_422803) (0.75)
hCoV-19/Netherlands/NoordBrabant_76/2020 (EPI_ISL_422872) (0.75)
hCoV-19/Netherlands/Limburg_9/2020 (EPI_ISL_422648) (0.75)
hCoV-19/Spain/Valencia35/2020 (EPI_ISL_420120) (0.62)
hCoV-19/Spain/Valencia93/2020 (EPI_ISL_425217) (0.62)
hCoV-19/Spain/Valencia12/2020 (EPI_ISL_419676) (0.62)
hCoV-19/Spain/Valencia39/2020 (EPI_ISL_420124) (0.62)
hCoV-19/Spain/Valencia38/2020 (EPI_ISL_420123) (0.62)
hCoV-19/Poland/Wro-02/2020 (EPI_ISL_437625) (0.62)
hCoV-19/Spain/Valencia55/2020 (EPI_ISL_425179) (0.62)
hCoV-19/Spain/Valencia61/2020 (EPI_ISL_425185) (0.62)
hCoV-19/Netherlands/NoordBrabant_47/2020EPI_ISL_4155042020-03-09
hCov-19/Netherlands/NoordBrabant/48/2020 (EPI_ISL_415505)EPI_ISL_4155072020-03-11 SNP:
514: T>C (127 strain(s) in DB)
3541: T>C (10 strain(s) in DB)

Deletions:
1: AATTAAAGGTTTATACCTTC...>- (4882 strain(s) in DB)
1604: AATG>A (288 strain(s) in DB)
29829: TGCTATCCCCATGTGATTTT...>T (405 strain(s) in DB)

hCoV-19/Netherlands/NoordBrabant_77/2020 (EPI_ISL_422873) (0.8)
hCoV-19/Netherlands/Naarden_1364774/2020 (EPI_ISL_413577) (0.8)
hCoV-19/Netherlands/NA_227/2020 (EPI_ISL_422762) (0.8)
hCoV-19/Netherlands/NA_226/2020 (EPI_ISL_422761) (0.8)
hCoV-19/Netherlands/NA_207/2020 (EPI_ISL_422742) (0.8)
hCoV-19/Netherlands/NA_195/2020 (EPI_ISL_422730) (0.8)
hCoV-19/Netherlands/Rotterdam_1364040/2020 (EPI_ISL_413583) (0.8)
hCoV-19/Netherlands/NA_185/2020 (EPI_ISL_422720) (0.8)
hCov-19/Netherlands/NA/32/2020 (EPI_ISL_415489) (0.8)
hCoV-19/Netherlands/NoordBrabant_95/2020 (EPI_ISL_422889) (0.8)
hCov-19/Netherlands/NoordBrabant/51/2020 (EPI_ISL_415507) (0.8)
hCov-19/Netherlands/NoordBrabant/49/2020 (EPI_ISL_415506)EPI_ISL_4228402020-03-11 SNP:
514: T>C (127 strain(s) in DB)
17410: C>T (64 strain(s) in DB)

Deletions:
1: AATTAAAGGTTTATACCTTC...>- (4882 strain(s) in DB)
1604: AATG>A (288 strain(s) in DB)
12619: TTCA>T (2 strain(s) in DB)
29829: TGCTATCCCCATGTGATTTT...>T (405 strain(s) in DB)

hCov-19/Netherlands/NoordBrabant/52/2020 (EPI_ISL_415508) (1)
hCoV-19/Netherlands/NA_77/2020 (EPI_ISL_422837) (0.83)
hCoV-19/Netherlands/NoordHolland_31/2020 (EPI_ISL_422894) (0.83)
hCoV-19/Netherlands/NA_154/2020 (EPI_ISL_422689) (0.83)
hCoV-19/Netherlands/Gelderland_5/2020 (EPI_ISL_422641) (0.83)
hCoV-19/Netherlands/NA_193/2020 (EPI_ISL_422728) (0.83)
hCoV-19/Netherlands/NA_40/2020 (EPI_ISL_422801) (0.83)
hCoV-19/Netherlands/NA_44/2020 (EPI_ISL_422805) (0.83)
hCoV-19/Netherlands/NA_50/2020 (EPI_ISL_422811) (0.83)
hCoV-19/Netherlands/NA_75/2020 (EPI_ISL_422835) (0.83)
hCoV-19/Netherlands/NA_80/2020 (EPI_ISL_422840) (0.83)
hCov-19/Netherlands/NoordBrabant/51/2020 (EPI_ISL_415507)EPI_ISL_4155072020 SNP:
514: T>C (127 strain(s) in DB)

Deletions:
1: AATTAAAGGTTTATACCTTC...>- (4882 strain(s) in DB)
1604: AATG>A (288 strain(s) in DB)
29829: TGCTATCCCCATGTGATTTT...>T (405 strain(s) in DB)

hCov-19/Netherlands/NoordBrabant/52/2020 (EPI_ISL_415508)EPI_ISL_4228402020-03-09 SNP:
514: T>C (127 strain(s) in DB)
17410: C>T (64 strain(s) in DB)

Deletions:
1: AATTAAAGGTTTATACCTTC...>- (4882 strain(s) in DB)
1604: AATG>A (288 strain(s) in DB)
12619: TTCA>T (2 strain(s) in DB)
29829: TGCTATCCCCATGTGATTTT...>T (405 strain(s) in DB)

hCov-19/Netherlands/NoordBrabant/49/2020 (EPI_ISL_415506) (1)
hCoV-19/Netherlands/NA_77/2020 (EPI_ISL_422837) (0.83)
hCoV-19/Netherlands/NoordHolland_31/2020 (EPI_ISL_422894) (0.83)
hCoV-19/Netherlands/NA_154/2020 (EPI_ISL_422689) (0.83)
hCoV-19/Netherlands/Gelderland_5/2020 (EPI_ISL_422641) (0.83)
hCoV-19/Netherlands/NA_193/2020 (EPI_ISL_422728) (0.83)
hCoV-19/Netherlands/NA_40/2020 (EPI_ISL_422801) (0.83)
hCoV-19/Netherlands/NA_44/2020 (EPI_ISL_422805) (0.83)
hCoV-19/Netherlands/NA_50/2020 (EPI_ISL_422811) (0.83)
hCoV-19/Netherlands/NA_75/2020 (EPI_ISL_422835) (0.83)
hCoV-19/Netherlands/NA_80/2020 (EPI_ISL_422840) (0.83)
hCov-19/Netherlands/NoordBrabant/53/2020 (EPI_ISL_415509)EPI_ISL_4228432020 SNP:
514: T>C (127 strain(s) in DB)
2323: G>T (8 strain(s) in DB)
17410: C>T (64 strain(s) in DB)

Deletions:
1: AATTAAAGGTTTATACCTTC...>- (4882 strain(s) in DB)
1604: AATG>A (288 strain(s) in DB)
29829: TGCTATCCCCATGTGATTTT...>T (405 strain(s) in DB)

hCoV-19/Netherlands/NA_77/2020 (EPI_ISL_422837) (0.83)
hCoV-19/Netherlands/NoordHolland_31/2020 (EPI_ISL_422894) (0.83)
hCoV-19/Netherlands/NA_154/2020 (EPI_ISL_422689) (0.83)
hCoV-19/Netherlands/Gelderland_5/2020 (EPI_ISL_422641) (0.83)
hCoV-19/Netherlands/NA_193/2020 (EPI_ISL_422728) (0.83)
hCoV-19/Netherlands/NA_40/2020 (EPI_ISL_422801) (0.83)
hCoV-19/Netherlands/NA_44/2020 (EPI_ISL_422805) (0.83)
hCoV-19/Netherlands/NA_50/2020 (EPI_ISL_422811) (0.83)
hCoV-19/Netherlands/NA_75/2020 (EPI_ISL_422835) (0.83)
hCoV-19/Netherlands/NA_80/2020 (EPI_ISL_422840) (0.83)
hCoV-19/Netherlands/NA_83/2020 (EPI_ISL_422843) (0.83)
hCov-19/Netherlands/NoordBrabant/54/2020 (EPI_ISL_415510)EPI_ISL_4227302020-03-09 SNP:
514: T>C (127 strain(s) in DB)
1018: G>A (7 strain(s) in DB)
16762: C>T (14 strain(s) in DB)

Deletions:
1: AATTAAAGGTTTATACCTTC...>- (4882 strain(s) in DB)
517: TATG>T (15 strain(s) in DB)
1604: AATG>A (288 strain(s) in DB)
29829: TGCTATCCCCATGTGATTTT...>T (405 strain(s) in DB)

hCoV-19/Netherlands/NA_97/2020 (EPI_ISL_422857) (0.71)
hCoV-19/Netherlands/Hardinxveld_Giessendam_1364806/2020 (EPI_ISL_413573) (0.71)
hCoV-19/Netherlands/NA_88/2020 (EPI_ISL_422848) (0.71)
hCoV-19/Netherlands/NA_155/2020 (EPI_ISL_422690) (0.71)
hCov-19/Netherlands/NoordBrabant/63/2020 (EPI_ISL_415519) (0.63)
hCoV-19/Netherlands/NA_135/2020 (EPI_ISL_422679) (0.63)
hCov-19/Netherlands/NoordBrabant/61/2020 (EPI_ISL_415517) (0.63)
hCoV-19/Netherlands/Naarden_1364774/2020 (EPI_ISL_413577) (0.57)
hCov-19/Netherlands/NA/32/2020 (EPI_ISL_415489) (0.57)
hCoV-19/Netherlands/NA_185/2020 (EPI_ISL_422720) (0.57)
hCoV-19/Netherlands/NA_195/2020 (EPI_ISL_422730) (0.57)
hCov-19/Netherlands/NoordBrabant/55/2020 (EPI_ISL_415511)EPI_ISL_4144232020-03-09 SNP:
241: C>T (7669 strain(s) in DB)
3037: C>T (7693 strain(s) in DB)
14408: C>T (7704 strain(s) in DB)
22277: C>A (12 strain(s) in DB)
23403: A>G (7732 strain(s) in DB)
27046: C>T (266 strain(s) in DB)
28881: G>A (2045 strain(s) in DB)
28882: G>A (2040 strain(s) in DB)
28883: G>C (2036 strain(s) in DB)

Deletions:
1: AATTAAAGGTTTATACCTTC...>- (4882 strain(s) in DB)
29829: TGCTATCCCCATGTGATTTT...>T (405 strain(s) in DB)

hCoV-19/Netherlands/ZuidHolland/26/2020 (EPI_ISL_415530) (1)
hCoV-19/Netherlands/Utrecht_15/2020 (EPI_ISL_414554) (1)
hCov-19/Netherlands/NA/12/2020 (EPI_ISL_415468) (1)
hCov-19/Netherlands/NA/8/2020 (EPI_ISL_415497) (0.92)
hCov-19/Netherlands/NoordBrabant/58/2020 (EPI_ISL_415514) (0.91)
hCoV-19/Netherlands/NA_130/2020 (EPI_ISL_422674) (0.91)
hCoV-19/Netherlands/ZuidHolland_22/2020 (EPI_ISL_414564) (0.91)
hCov-19/Netherlands/NoordBrabant/45/2020 (EPI_ISL_415502) (0.91)
hCoV-19/Netherlands/NA_111/2020 (EPI_ISL_422659) (0.91)
hCoV-19/Netherlands/Utrecht_13/2020 (EPI_ISL_414552) (0.91)
hCoV-19/Netherlands/Gelderland_1/2020 (EPI_ISL_414423) (0.91)
hCov-19/Netherlands/NoordBrabant/56/2020 (EPI_ISL_415512)EPI_ISL_4227652020-03-09 SNP:
1570: T>C (17 strain(s) in DB)
11083: G>T (1220 strain(s) in DB)
14805: C>T (875 strain(s) in DB)
17247: T>C (334 strain(s) in DB)
21462: T>C (3 strain(s) in DB)
26144: G>T (818 strain(s) in DB)

Deletions:
1: AATTAAAGGTTTATACCTTC...>- (4882 strain(s) in DB)
29829: TGCTATCCCCATGTGATTTT...>T (405 strain(s) in DB)

hCoV-19/Netherlands/NA_43/2020 (EPI_ISL_422804) (1)
hCov-19/Netherlands/NA/35/2020 (EPI_ISL_415492) (0.89)
hCoV-19/Netherlands/ZuidHolland_38/2020 (EPI_ISL_422910) (0.88)
hCoV-19/Netherlands/NA_46/2020 (EPI_ISL_422807) (0.88)
hCoV-19/Netherlands/NA_295/2020 (EPI_ISL_422604) (0.78)
hCoV-19/Netherlands/NA_294/2020 (EPI_ISL_422603) (0.78)
hCoV-19/Netherlands/NA_298/2020 (EPI_ISL_422607) (0.78)
hCoV-19/Netherlands/NA_201/2020 (EPI_ISL_422736) (0.75)
hCoV-19/Netherlands/NA_129/2020 (EPI_ISL_422673) (0.75)
hCoV-19/Netherlands/NA_55/2020 (EPI_ISL_422816) (0.75)
hCoV-19/Netherlands/NA_230/2020 (EPI_ISL_422765) (0.75)
hCoV-19/Netherlands/NoordBrabant_57/2020EPI_ISL_4155132020-03-11
hCov-19/Netherlands/NoordBrabant/58/2020 (EPI_ISL_415514)EPI_ISL_4155142020-03-11 SNP:
241: C>T (7669 strain(s) in DB)
3037: C>T (7693 strain(s) in DB)
14408: C>T (7704 strain(s) in DB)
23403: A>G (7732 strain(s) in DB)
27046: C>T (266 strain(s) in DB)
28881: G>A (2045 strain(s) in DB)
28882: G>A (2040 strain(s) in DB)
28883: G>C (2036 strain(s) in DB)

Deletions:
1: AATTAAAGGTTTATACCTTC...>- (4882 strain(s) in DB)
29829: TGCTATCCCCATGTGATTTT...>T (405 strain(s) in DB)

hCov-19/Netherlands/NoordBrabant/59/2020 (EPI_ISL_415515)EPI_ISL_4155152020-03-11 SNP:
241: C>T (7669 strain(s) in DB)
1059: C>T (2820 strain(s) in DB)
3037: C>T (7693 strain(s) in DB)
14408: C>T (7704 strain(s) in DB)
23403: A>G (7732 strain(s) in DB)

Deletions:
1: AATTAAAGGTTTATACCTTC...>- (4882 strain(s) in DB)
29829: TGCTATCCCCATGTGATTTT...>T (405 strain(s) in DB)

hCov-19/Netherlands/NoordBrabant/60/2020 (EPI_ISL_415516)EPI_ISL_4227612020-03-11 SNP:
6163: T>A (3 strain(s) in DB)
12923: C>A (7 strain(s) in DB)
13430: C>T (5 strain(s) in DB)
19366: C>T (14 strain(s) in DB)
28110: T>C (3 strain(s) in DB)

Deletions:
1: AATTAAAGGTTTATACCTTC...>- (4882 strain(s) in DB)
1604: AATG>A (288 strain(s) in DB)
29829: TGCTATCCCCATGTGATTTT...>T (405 strain(s) in DB)

hCoV-19/Latvia/0002/2020 (EPI_ISL_421654) (0.67)
hCoV-19/Austria/CeMM0119/2020 (EPI_ISL_437976) (0.45)
hCoV-19/Netherlands/Utrecht_1364066/2020 (EPI_ISL_413590) (0.38)
hCoV-19/Netherlands/Oisterwijk_1364072/2020 (EPI_ISL_413580) (0.38)
hCoV-19/Netherlands/NA_195/2020 (EPI_ISL_422730) (0.33)
hCoV-19/Netherlands/Rotterdam_1364040/2020 (EPI_ISL_413583) (0.33)
hCoV-19/Netherlands/NoordBrabant_95/2020 (EPI_ISL_422889) (0.33)
hCoV-19/Netherlands/NA_207/2020 (EPI_ISL_422742) (0.33)
hCoV-19/Netherlands/NoordBrabant_77/2020 (EPI_ISL_422873) (0.33)
hCoV-19/Netherlands/Utrecht_12/2020 (EPI_ISL_414551) (0.33)
hCoV-19/Netherlands/NA_226/2020 (EPI_ISL_422761) (0.33)
hCov-19/Netherlands/NoordBrabant/61/2020 (EPI_ISL_415517)EPI_ISL_4135832020 SNP:
514: T>C (127 strain(s) in DB)
16762: C>T (14 strain(s) in DB)
16996: C>T (2 strain(s) in DB)

Deletions:
1: AATTAAAGGTTTATACCTTC...>- (4882 strain(s) in DB)
1604: AATG>A (288 strain(s) in DB)
29829: TGCTATCCCCATGTGATTTT...>T (405 strain(s) in DB)

hCov-19/Netherlands/NoordBrabant/63/2020 (EPI_ISL_415519) (1)
hCoV-19/Netherlands/Hardinxveld_Giessendam_1364806/2020 (EPI_ISL_413573) (0.83)
hCoV-19/Netherlands/NA_88/2020 (EPI_ISL_422848) (0.83)
hCoV-19/Netherlands/NA_155/2020 (EPI_ISL_422690) (0.83)
hCoV-19/Netherlands/NA_97/2020 (EPI_ISL_422857) (0.83)
hCoV-19/Netherlands/NA_135/2020 (EPI_ISL_422679) (0.71)
hCov-19/Netherlands/NoordBrabant/51/2020 (EPI_ISL_415507) (0.67)
hCov-19/Netherlands/NA/32/2020 (EPI_ISL_415489) (0.67)
hCoV-19/Netherlands/NoordBrabant_77/2020 (EPI_ISL_422873) (0.67)
hCoV-19/Netherlands/Naarden_1364774/2020 (EPI_ISL_413577) (0.67)
hCoV-19/Netherlands/Rotterdam_1364040/2020 (EPI_ISL_413583) (0.67)
hCov-19/Netherlands/NoordBrabant/62/2020 (EPI_ISL_415518)EPI_ISL_4155182020 SNP:
241: C>T (7669 strain(s) in DB)
3037: C>T (7693 strain(s) in DB)
14408: C>T (7704 strain(s) in DB)
23403: A>G (7732 strain(s) in DB)
24862: A>G (98 strain(s) in DB)

Deletions:
1: AATTAAAGGTTTATACCTTC...>- (4882 strain(s) in DB)
29829: TGCTATCCCCATGTGATTTT...>T (405 strain(s) in DB)

hCov-19/Netherlands/NoordBrabant/63/2020 (EPI_ISL_415519)EPI_ISL_4135832020 SNP:
514: T>C (127 strain(s) in DB)
16762: C>T (14 strain(s) in DB)
16996: C>T (2 strain(s) in DB)

Deletions:
1: AATTAAAGGTTTATACCTTC...>- (4882 strain(s) in DB)
1604: AATG>A (288 strain(s) in DB)
29829: TGCTATCCCCATGTGATTTT...>T (405 strain(s) in DB)

hCov-19/Netherlands/NoordBrabant/61/2020 (EPI_ISL_415517) (1)
hCoV-19/Netherlands/Hardinxveld_Giessendam_1364806/2020 (EPI_ISL_413573) (0.83)
hCoV-19/Netherlands/NA_88/2020 (EPI_ISL_422848) (0.83)
hCoV-19/Netherlands/NA_155/2020 (EPI_ISL_422690) (0.83)
hCoV-19/Netherlands/NA_97/2020 (EPI_ISL_422857) (0.83)
hCoV-19/Netherlands/NA_135/2020 (EPI_ISL_422679) (0.71)
hCov-19/Netherlands/NoordBrabant/51/2020 (EPI_ISL_415507) (0.67)
hCov-19/Netherlands/NA/32/2020 (EPI_ISL_415489) (0.67)
hCoV-19/Netherlands/NoordBrabant_77/2020 (EPI_ISL_422873) (0.67)
hCoV-19/Netherlands/Naarden_1364774/2020 (EPI_ISL_413577) (0.67)
hCoV-19/Netherlands/Rotterdam_1364040/2020 (EPI_ISL_413583) (0.67)
hCov-19/Netherlands/NoordBrabant/64/2020 (EPI_ISL_415520)EPI_ISL_4155202020 SNP:
241: C>T (7669 strain(s) in DB)
3037: C>T (7693 strain(s) in DB)
14408: C>T (7704 strain(s) in DB)
23403: A>G (7732 strain(s) in DB)
24862: A>G (98 strain(s) in DB)

Deletions:
1: AATTAAAGGTTTATACCTTC...>- (4882 strain(s) in DB)
29829: TGCTATCCCCATGTGATTTT...>T (405 strain(s) in DB)

hCov-19/Netherlands/NoordBrabant/65/2020 (EPI_ISL_415521)EPI_ISL_4228402020 SNP:
514: T>C (127 strain(s) in DB)
6255: C>T (15 strain(s) in DB)
17410: C>T (64 strain(s) in DB)

Deletions:
1: AATTAAAGGTTTATACCTTC...>- (4882 strain(s) in DB)
1604: AATG>A (288 strain(s) in DB)
29829: TGCTATCCCCATGTGATTTT...>T (405 strain(s) in DB)

hCoV-19/Netherlands/NoordBrabant_27/2020 (EPI_ISL_414536) (1)
hCoV-19/Netherlands/NA_193/2020 (EPI_ISL_422728) (0.83)
hCoV-19/Netherlands/NA_128/2020 (EPI_ISL_422672) (0.83)
hCoV-19/Netherlands/NA_154/2020 (EPI_ISL_422689) (0.83)
hCoV-19/Netherlands/NoordBrabant_75/2020 (EPI_ISL_422871) (0.83)
hCov-19/Netherlands/NoordBrabant/68/2020 (EPI_ISL_415524) (0.83)
hCov-19/Netherlands/NoordBrabant/44/2020 (EPI_ISL_415501) (0.83)
hCoV-19/Netherlands/NoordBrabant_72/2020 (EPI_ISL_422868) (0.83)
hCoV-19/Netherlands/NA_77/2020 (EPI_ISL_422837) (0.83)
hCoV-19/Netherlands/Gelderland_5/2020 (EPI_ISL_422641) (0.83)
hCoV-19/Netherlands/NA_80/2020 (EPI_ISL_422840) (0.83)
hCoV-19/Netherlands/NoordBrabant_66/2020EPI_ISL_4155222020
hCov-19/Netherlands/NoordBrabant/67/2020 (EPI_ISL_415523)EPI_ISL_4155232020 SNP:
241: C>T (7669 strain(s) in DB)
3037: C>T (7693 strain(s) in DB)
14408: C>T (7704 strain(s) in DB)
23403: A>G (7732 strain(s) in DB)
27046: C>T (266 strain(s) in DB)
28881: G>A (2045 strain(s) in DB)
28882: G>A (2040 strain(s) in DB)
28883: G>C (2036 strain(s) in DB)

Deletions:
1: AATTAAAGGTTTATACCTTC...>- (4882 strain(s) in DB)
29829: TGCTATCCCCATGTGATTTT...>T (405 strain(s) in DB)

hCov-19/Netherlands/NoordBrabant/68/2020 (EPI_ISL_415524)EPI_ISL_4155242020-03-12 SNP:
514: T>C (127 strain(s) in DB)
17410: C>T (64 strain(s) in DB)

Deletions:
1: AATTAAAGGTTTATACCTTC...>- (4882 strain(s) in DB)
1604: AATG>A (288 strain(s) in DB)
29829: TGCTATCCCCATGTGATTTT...>T (405 strain(s) in DB)

hCoV-19/Netherlands/NoordHolland/3/2020 (EPI_ISL_415525)EPI_ISL_4229112020-03-12 SNP:
241: C>T (7669 strain(s) in DB)
1059: C>T (2820 strain(s) in DB)
3037: C>T (7693 strain(s) in DB)
6825: A>C (10 strain(s) in DB)
13358: C>T (1 strain(s) in DB)
14408: C>T (7704 strain(s) in DB)
23403: A>G (7732 strain(s) in DB)

Deletions:
1: AATTAAAGGTTTATACCTTC...>- (4882 strain(s) in DB)
29829: TGCTATCCCCATGTGATTTT...>T (405 strain(s) in DB)

hCov-19/Netherlands/NA/1/2020 (EPI_ISL_415465) (0.78)
hCov-19/Netherlands/NoordBrabant/59/2020 (EPI_ISL_415515) (0.78)
hCov-19/Netherlands/Flevoland/1/2020 (EPI_ISL_415460) (0.78)
hCov-19/Netherlands/NA/10/2020 (EPI_ISL_415466) (0.78)
hCov-19/Netherlands/NA/13/2020 (EPI_ISL_415469) (0.78)
hCoV-19/Netherlands/ZuidHolland/30/2020 (EPI_ISL_415534) (0.7)
hCoV-19/Netherlands/NA_220/2020 (EPI_ISL_422755) (0.7)
hCoV-19/Netherlands/NA_229/2020 (EPI_ISL_422764) (0.7)
hCoV-19/Netherlands/NA_136/2020 (EPI_ISL_422680) (0.7)
hCoV-19/Netherlands/NoordHolland_4/2020 (EPI_ISL_422895) (0.7)
hCoV-19/Netherlands/ZuidHolland_39/2020 (EPI_ISL_422911) (0.7)
hCoV-19/Netherlands/Utrecht/17/2020 (EPI_ISL_415526)EPI_ISL_4155262020-03-10 SNP:
8782: C>T (1672 strain(s) in DB)
16381: G>A (27 strain(s) in DB)
28144: T>C (1654 strain(s) in DB)
28878: G>A (75 strain(s) in DB)
29742: G>A (236 strain(s) in DB)

Deletions:
1: AATTAAAGGTTTATACCTTC...>- (4882 strain(s) in DB)
29829: TGCTATCCCCATGTGATTTT...>T (405 strain(s) in DB)

hCoV-19/Netherlands/Utrecht/18/2020 (EPI_ISL_415527)EPI_ISL_4154912020-03-12 SNP:
11083: G>T (1220 strain(s) in DB)
12820: A>G (4 strain(s) in DB)
13119: C>T (6 strain(s) in DB)
14805: C>T (875 strain(s) in DB)
17247: T>C (334 strain(s) in DB)
26144: G>T (818 strain(s) in DB)

Deletions:
1: AATTAAAGGTTTATACCTTC...>- (4882 strain(s) in DB)
29829: TGCTATCCCCATGTGATTTT...>T (405 strain(s) in DB)

hCoV-19/Netherlands/ZuidHolland_33/2020 (EPI_ISL_422905) (1)
hCoV-19/Netherlands/NoordBrabant_73/2020 (EPI_ISL_422869) (1)
hCoV-19/Netherlands/NA_47/2020 (EPI_ISL_422808) (0.88)
hCoV-19/Netherlands/NA_60/2020 (EPI_ISL_422821) (0.75)
hCoV-19/Netherlands/NA_144/2020 (EPI_ISL_422684) (0.75)
hCoV-19/Netherlands/NA_230/2020 (EPI_ISL_422765) (0.75)
hCoV-19/Netherlands/NA_57/2020 (EPI_ISL_422818) (0.75)
hCoV-19/Netherlands/NA_74/2020 (EPI_ISL_422834) (0.75)
hCoV-19/Netherlands/NA_129/2020 (EPI_ISL_422673) (0.75)
hCoV-19/Netherlands/NA_201/2020 (EPI_ISL_422736) (0.75)
hCov-19/Netherlands/NA/34/2020 (EPI_ISL_415491) (0.75)
hCoV-19/Netherlands/Utrecht_19/2020EPI_ISL_4155282020-03-12
hCoV-19/Netherlands/ZuidHolland/25/2020 (EPI_ISL_415529)EPI_ISL_4155292020-03-09 SNP:
241: C>T (7669 strain(s) in DB)
3037: C>T (7693 strain(s) in DB)
14408: C>T (7704 strain(s) in DB)
23403: A>G (7732 strain(s) in DB)
27046: C>T (266 strain(s) in DB)
28881: G>A (2045 strain(s) in DB)
28882: G>A (2040 strain(s) in DB)
28883: G>C (2036 strain(s) in DB)

Deletions:
1: AATTAAAGGTTTATACCTTC...>- (4882 strain(s) in DB)
29829: TGCTATCCCCATGTGATTTT...>T (405 strain(s) in DB)

hCoV-19/Netherlands/ZuidHolland/26/2020 (EPI_ISL_415530)EPI_ISL_4145522020-03-09 SNP:
241: C>T (7669 strain(s) in DB)
3037: C>T (7693 strain(s) in DB)
14408: C>T (7704 strain(s) in DB)
22277: C>A (12 strain(s) in DB)
23403: A>G (7732 strain(s) in DB)
27046: C>T (266 strain(s) in DB)
28881: G>A (2045 strain(s) in DB)
28882: G>A (2040 strain(s) in DB)
28883: G>C (2036 strain(s) in DB)

Deletions:
1: AATTAAAGGTTTATACCTTC...>- (4882 strain(s) in DB)
29829: TGCTATCCCCATGTGATTTT...>T (405 strain(s) in DB)

hCov-19/Netherlands/NoordBrabant/55/2020 (EPI_ISL_415511) (1)
hCov-19/Netherlands/NA/12/2020 (EPI_ISL_415468) (1)
hCoV-19/Netherlands/Utrecht_15/2020 (EPI_ISL_414554) (1)
hCov-19/Netherlands/NA/8/2020 (EPI_ISL_415497) (0.92)
hCoV-19/Netherlands/Utrecht_21/2020 (EPI_ISL_422898) (0.91)
hCoV-19/Netherlands/NA_130/2020 (EPI_ISL_422674) (0.91)
hCoV-19/Netherlands/ZuidHolland_22/2020 (EPI_ISL_414564) (0.91)
hCov-19/Netherlands/NoordBrabant/45/2020 (EPI_ISL_415502) (0.91)
hCoV-19/Netherlands/NA_111/2020 (EPI_ISL_422659) (0.91)
hCoV-19/Netherlands/Gelderland_1/2020 (EPI_ISL_414423) (0.91)
hCoV-19/Netherlands/Utrecht_13/2020 (EPI_ISL_414552) (0.91)
hCoV-19/Netherlands/ZuidHolland/27/2020 (EPI_ISL_415531)EPI_ISL_4291152020-03-09 SNP:
1440: G>A (174 strain(s) in DB)
2891: G>A (171 strain(s) in DB)
7011: C>T (38 strain(s) in DB)
23996: C>T (1 strain(s) in DB)

Deletions:
1: AATTAAAGGTTTATACCTTC...>- (4882 strain(s) in DB)
29829: TGCTATCCCCATGTGATTTT...>T (405 strain(s) in DB)

hCoV-19/Netherlands/NA_166/2020 (EPI_ISL_422701) (0.67)
hCoV-19/Australia/VIC26/2020 (MT450941) (0.67)
hCoV-19/Wales/PHWC-29B79/2020 (EPI_ISL_432253) (0.67)
hCoV-19/Australia/VIC193/2020 (MT451095) (0.67)
hCoV-19/Netherlands/Limburg/7/2020 (EPI_ISL_415464) (0.67)
hCoV-19/Australia/NSW62/2020 (EPI_ISL_417412) (0.57)
hCoV-19/Canada/ON_PHL3670/2020 (EPI_ISL_418328) (0.5)
hCoV-19/Denmark/ALAB-SSI258/2020 (EPI_ISL_429420) (0.5)
hCoV-19/Denmark/ALAB-SSI157/2020 (EPI_ISL_429373) (0.5)
hCoV-19/Denmark/ALAB-HH21/2020 (EPI_ISL_429279) (0.5)
hCoV-19/Sweden/20-08142/2020 (EPI_ISL_429115) (0.5)
hCoV-19/Netherlands/ZuidHolland/28/2020 (EPI_ISL_415532)EPI_ISL_4225762020-03-09 SNP:
241: C>T (7669 strain(s) in DB)
3037: C>T (7693 strain(s) in DB)
14408: C>T (7704 strain(s) in DB)
23403: A>G (7732 strain(s) in DB)
25187: T>C (1 strain(s) in DB)
28300: G>T (6 strain(s) in DB)
28881: G>A (2045 strain(s) in DB)
28882: G>A (2040 strain(s) in DB)
28883: G>C (2036 strain(s) in DB)

Deletions:
1: AATTAAAGGTTTATACCTTC...>- (4882 strain(s) in DB)
29829: TGCTATCCCCATGTGATTTT...>T (405 strain(s) in DB)

hCoV-19/Netherlands/Tilburg_1364286/2020 (EPI_ISL_413587) (0.82)
hCoV-19/Netherlands/Nootdorp_1364222/2020 (EPI_ISL_413579) (0.82)
hCov-19/Netherlands/NoordBrabant/45/2020 (EPI_ISL_415502) (0.75)
hCov-19/Netherlands/NoordBrabant/58/2020 (EPI_ISL_415514) (0.75)
hCov-19/Netherlands/NA/2/2020 (EPI_ISL_415476) (0.75)
hCoV-19/Netherlands/NA_152/2020 (EPI_ISL_422687) (0.75)
hCoV-19/Netherlands/Gelderland/3/2020 (EPI_ISL_415463) (0.75)
hCoV-19/Netherlands/NA_130/2020 (EPI_ISL_422674) (0.75)
hCoV-19/Netherlands/Utrecht_21/2020 (EPI_ISL_422898) (0.75)
hCoV-19/Netherlands/NA_111/2020 (EPI_ISL_422659) (0.75)
hCoV-19/Netherlands/NA_265/2020 (EPI_ISL_422576) (0.75)
hCoV-19/Netherlands/ZuidHolland/29/2020 (EPI_ISL_415533)EPI_ISL_4155332020-03-09 SNP:
241: C>T (7669 strain(s) in DB)
3037: C>T (7693 strain(s) in DB)
14408: C>T (7704 strain(s) in DB)
23403: A>G (7732 strain(s) in DB)
27046: C>T (266 strain(s) in DB)
28881: G>A (2045 strain(s) in DB)
28882: G>A (2040 strain(s) in DB)
28883: G>C (2036 strain(s) in DB)

Deletions:
1: AATTAAAGGTTTATACCTTC...>- (4882 strain(s) in DB)
29829: TGCTATCCCCATGTGATTTT...>T (405 strain(s) in DB)

hCoV-19/Netherlands/ZuidHolland/30/2020 (EPI_ISL_415534)EPI_ISL_4227552020-03-11 SNP:
241: C>T (7669 strain(s) in DB)
1059: C>T (2820 strain(s) in DB)
3037: C>T (7693 strain(s) in DB)
14408: C>T (7704 strain(s) in DB)
23403: A>G (7732 strain(s) in DB)

Deletions:
1: AATTAAAGGTTTATACCTTC...>- (4882 strain(s) in DB)
21990: TTTA>T (12 strain(s) in DB)
29829: TGCTATCCCCATGTGATTTT...>T (405 strain(s) in DB)

hCov-19/Netherlands/NoordBrabant/59/2020 (EPI_ISL_415515) (0.88)
hCov-19/Netherlands/NA/13/2020 (EPI_ISL_415469) (0.88)
hCov-19/Netherlands/Flevoland/1/2020 (EPI_ISL_415460) (0.88)
hCov-19/Netherlands/NA/10/2020 (EPI_ISL_415466) (0.88)
hCov-19/Netherlands/NA/1/2020 (EPI_ISL_415465) (0.88)
hCoV-19/Netherlands/NA_136/2020 (EPI_ISL_422680) (0.78)
hCoV-19/Netherlands/NA_203/2020 (EPI_ISL_422738) (0.78)
hCoV-19/Netherlands/NA_229/2020 (EPI_ISL_422764) (0.78)
hCoV-19/Netherlands/ZuidHolland_39/2020 (EPI_ISL_422911) (0.78)
hCoV-19/Netherlands/NoordHolland_4/2020 (EPI_ISL_422895) (0.78)
hCoV-19/Netherlands/NA_220/2020 (EPI_ISL_422755) (0.78)
hCoV-19/Netherlands/ZuidHolland/31/2020 (EPI_ISL_415535)EPI_ISL_4155352020-03-12 SNP:
241: C>T (7669 strain(s) in DB)
658: T>C (23 strain(s) in DB)
3037: C>T (7693 strain(s) in DB)
14408: C>T (7704 strain(s) in DB)
23403: A>G (7732 strain(s) in DB)
24862: A>G (98 strain(s) in DB)
28629: C>T (18 strain(s) in DB)

Deletions:
1: AATTAAAGGTTTATACCTTC...>- (4882 strain(s) in DB)
29829: TGCTATCCCCATGTGATTTT...>T (405 strain(s) in DB)

hCoV-19/Wales/PHW12/2020EPI_ISL_4155362020-03-10
hCoV-19/Wales/PHW13/2020EPI_ISL_4155372020-03-08
hCoV-19/Wales/PHW38/2020EPI_ISL_4155382020-03-12
hCoV-19/USA/UPHL-01/2020 (EPI_ISL_415539)MT6328032020-03-13 SNP:
11083: G>T (1220 strain(s) in DB)
18060: C>T (1069 strain(s) in DB)
26326: C>T (6 strain(s) in DB)

hCoV-19/USA/OR_2656/2020 (EPI_ISL_419558) (0.4)
hCoV-19/USA/UPHL-02/2020 (EPI_ISL_415540) (0.33)
hCoV-19/USA/WA-S546/2020 (MT633004) (0.29)
hCoV-19/USA/WA-S73/2020 (MT627229) (0.29)
hCoV-19/USA/WA-S542/2020 (MT632947) (0.29)
Chongqing/IVDC-CQ-001/2020 (NMDC60013076-01) (0.25)
2019-nCoV/USA-CruiseA-25/2020 (MT184912) (0.25)
hCoV-19/USA/WA-S193/2020 (MT632538) (0.25)
hCoV-19/Italy/SPL1/2020 (0.25)
hCoV-19/USA/WA-S519/2020 (MT632798) (0.22)
hCoV-19/USA/WA-S383/2020 (MT632803) (0.22)
hCoV-19/USA/UPHL-02/2020 (EPI_ISL_415540)MT1597222020-03-13 SNP:
11083: G>T (1220 strain(s) in DB)
23635: C>T (21 strain(s) in DB)
23755: G>T (8 strain(s) in DB)
26326: C>T (6 strain(s) in DB)

Insertions:
16551: C>CT (2 strain(s) in DB)

hCoV-19/USA/UPHL-01/2020 (EPI_ISL_415539) (0.33)
hCoV-19/USA/OR_2656/2020 (EPI_ISL_419558) (0.29)
2019-nCoV/USA-CruiseA-25/2020 (MT184912) (0.17)
hCoV-19/Luxembourg/LNS2614631/2020 (EPI_ISL_419578) (0.17)
hCoV-19/Italy/SPL1/2020 (0.17)
Chongqing/IVDC-CQ-001/2020 (NMDC60013076-01) (0.17)
hCoV-19/Japan/DP0133/2020 (LC570974) (0.14)
hCoV-19/England/SHEF-BFE9D/2020 (EPI_ISL_418302) (0.14)
hCoV-19/Japan/DP0568/2020 (LC571008) (0.14)
BetaCoV/Singapore/3/2020 (EPI_ISL_407988) (0.14)
hCoV-19/USA/CruiseA-6/2020 (MT159722) (0.14)
nCoV-19/USA/UPHL-03/2020 (EPI_ISL_415541)MT6273182020-03-13 SNP:
8782: C>T (1672 strain(s) in DB)
17747: C>T (1036 strain(s) in DB)
17858: A>G (1049 strain(s) in DB)
18060: C>T (1069 strain(s) in DB)
28144: T>C (1654 strain(s) in DB)

hCoV-19/USA/WA-S92/2020 (MT627261) (1)
hCoV-19/USA/WA-S416/2020 (MT633033) (1)
hCoV-19/USA/WA-S422/2020 (MT632975) (1)
hCoV-19/USA/WA-S506/2020 (MT632976) (1)
hCoV-19/USA/WA-S440/2020 (MT633035) (1)
hCoV-19/USA/WA-S411/2020 (MT632978) (1)
hCoV-19/USA/WA-S36/2020 (MT627317) (1)
hCoV-19/USA/WA-S430/2020 (MT633034) (1)
hCoV-19/USA/WA-S493/2020 (MT632981) (1)
hCoV-19/USA/WA-S528/2020 (MT632983) (1)
hCoV-19/USA/WA-S99/2020 (MT627318) (1)
hCoV-19/USA/UPHL-04/2020 (EPI_ISL_415542)EPI_ISL_4155422020-03-13 SNP:
8782: C>T (1672 strain(s) in DB)
17747: C>T (1036 strain(s) in DB)
17858: A>G (1049 strain(s) in DB)
18060: C>T (1069 strain(s) in DB)
28144: T>C (1654 strain(s) in DB)

hCoV-19/USA/UPHL-05/2020 (EPI_ISL_415543)MT4512482020-03-13 SNP:
241: C>T (7669 strain(s) in DB)
379: C>A (86 strain(s) in DB)
1059: C>T (2820 strain(s) in DB)
3037: C>T (7693 strain(s) in DB)
14408: C>T (7704 strain(s) in DB)
23403: A>G (7732 strain(s) in DB)
25563: G>T (3418 strain(s) in DB)

hCoV-19/USA/UPHL-06/2020 (EPI_ISL_415544) (1)
hCoV-19/USA/WA-S220/2020 (MT632516) (0.88)
hCoV-19/USA/WA-S179/2020 (MT632505) (0.88)
hCoV-19/USA/WA-S204/2020 (MT632528) (0.88)
hCoV-19/USA/WA-S217/2020 (MT632529) (0.88)
hCoV-19/USA/CA-SR0182/2020 (EPI_ISL_437595) (0.88)
hCoV-19/USA/WA-S209/2020 (MT632532) (0.88)
hCoV-19/USA/WA-S521/2020 (MT632855) (0.88)
hCoV-19/USA/WA-S199/2020 (MT632523) (0.88)
hCoV-19/USA/WA-S225/2020 (MT632521) (0.88)
hCoV-19/Australia/VIC357/2020 (MT451248) (0.88)
hCoV-19/USA/UPHL-06/2020 (EPI_ISL_415544)EPI_ISL_4155442020-03-13 SNP:
241: C>T (7669 strain(s) in DB)
379: C>A (86 strain(s) in DB)
1059: C>T (2820 strain(s) in DB)
3037: C>T (7693 strain(s) in DB)
14408: C>T (7704 strain(s) in DB)
23403: A>G (7732 strain(s) in DB)
25563: G>T (3418 strain(s) in DB)

hCoV-19/Canada/BC_69243/2020EPI_ISL_4155772020-02-20
hCoV-19/Canada/BC_13297/2020EPI_ISL_4155782020-02-27
hCoV-19/Canada/BC_25211/2020EPI_ISL_4155792020-03-02
hCoV-19/Canada/BC_17397/2020EPI_ISL_4155802020-02-28
hCoV-19/Canada/BC_02421/2020 (EPI_ISL_415581)EPI_ISL_4155812020-03-01 SNP:
1397: G>A (164 strain(s) in DB)
11083: G>T (1220 strain(s) in DB)
19484: C>T (18 strain(s) in DB)
28688: T>C (152 strain(s) in DB)
29742: G>T (236 strain(s) in DB)

hCoV-19/Canada/BC_35720/2020EPI_ISL_4155822020-03-04
hCoV-19/Canada/BC_40860/2020 (EPI_ISL_415583)EPI_ISL_4155832020-03-03
hCoV-19/Canada/BC_41851/2020 (EPI_ISL_415584)MT6326162020-03-02 SNP:
8782: C>T (1672 strain(s) in DB)
17858: A>G (1049 strain(s) in DB)
18060: C>T (1069 strain(s) in DB)
28144: T>C (1654 strain(s) in DB)
29736: G>T (13 strain(s) in DB)

hCoV-19/Canada/BC_4122951/2020 (EPI_ISL_418826) (1)
hCoV-19/Canada/BC_3968175/2020 (EPI_ISL_418821) (0.8)
hCoV-19/Canada/BC_4118226/2020 (EPI_ISL_418825) (0.8)
hCoV-19/Canada/BC_4540462/2020 (EPI_ISL_418829) (0.8)
hCoV-19/Canada/BC_7277381/2020 (EPI_ISL_418843) (0.8)
hCoV-19/Canada/BC_8159203/2020 (EPI_ISL_418848) (0.8)
hCoV-19/Canada/BC_8718874/2020 (EPI_ISL_418852) (0.8)
hCoV-19/Canada/BC_8894200/2020 (EPI_ISL_418853) (0.8)
hCoV-19/Canada/BC_3972884/2020 (EPI_ISL_418822) (0.8)
hCoV-19/Canada/BC_8897642/2020 (EPI_ISL_418855) (0.8)
hCoV-19/USA/WA-S241/2020 (MT632616) (0.67)
hCoV-19/Canada/BC_65034/2020EPI_ISL_4155852020-03-04
hCoV-19/Canada/BC_64686/2020EPI_ISL_4155862020-03-05
hCoV-19/Canada/BC_66353/2020EPI_ISL_4155872020-03-04
hCoV-19/Canada/BC_83109/2020EPI_ISL_4155882020-03-05
hCoV-19/Canada/BC_83163/2020EPI_ISL_4155892020-03-05
hCoV-19/Canada/BC_78548/2020EPI_ISL_4155902020-03-05
hCoV-19/USA/WA-UW45/2020EPI_ISL_4156102020-03-08
hCoV-19/USA/WA-UW53/2020EPI_ISL_4156182020-03-09
hCoV-19/USA/WA-UW58/2020EPI_ISL_4156232020-03-09
hCoV-19/Scotland/CVR06/2020EPI_ISL_4156282020-03-07
hCoV-19/Scotland/EDB004/2020 (EPI_ISL_415629)EPI_ISL_4156292020-03-04 SNP:
241: C>T (7669 strain(s) in DB)
3037: C>T (7693 strain(s) in DB)
14408: C>T (7704 strain(s) in DB)
23403: A>G (7732 strain(s) in DB)

hCoV-19/Scotland/CVR07/2020 (EPI_ISL_415630)EPI_ISL_4207282020-03-09 SNP:
2480: A>G (278 strain(s) in DB)
2558: C>T (299 strain(s) in DB)
2918: C>T (2 strain(s) in DB)
5340: C>T (3 strain(s) in DB)
11083: G>T (1220 strain(s) in DB)
14805: C>T (875 strain(s) in DB)
26144: G>T (818 strain(s) in DB)

hCoV-19/England/CAMB-76D3B/2020 (EPI_ISL_425424) (0.71)
hCoV-19/England/20132106104/2020 (EPI_ISL_423841) (0.71)
hCoV-19/England/20122119302/2020 (EPI_ISL_418680) (0.71)
hCoV-19/England/20129033804/2020 (EPI_ISL_424024) (0.71)
hCoV-19/England/20132082504/2020 (EPI_ISL_423817) (0.71)
hCoV-19/England/201360210/2020 (EPI_ISL_423242) (0.71)
hCoV-19/Ireland/22901/2020 (EPI_ISL_418582) (0.71)
hCoV-19/England/20134024104/2020 (EPI_ISL_423126) (0.71)
hCoV-19/England/CAMB-73A0A/2020 (EPI_ISL_425266) (0.71)
hCoV-19/England/NOTT-10E098/2020 (EPI_ISL_425492) (0.71)
hCoV-19/England/20139059504/2020 (EPI_ISL_420728) (0.71)
hCoV-19/Scotland/CVR10/2020 (EPI_ISL_415631)EPI_ISL_4185832020-03-10 SNP:
1515: A>G (47 strain(s) in DB)
11083: G>T (1220 strain(s) in DB)
14805: C>T (875 strain(s) in DB)
17247: T>C (334 strain(s) in DB)
21625: A>G (2 strain(s) in DB)
26144: G>T (818 strain(s) in DB)

hCoV-19/England/SHEF-C0628/2020 (EPI_ISL_420237) (0.71)
hCoV-19/England/NOTT-10F413/2020 (EPI_ISL_433002) (0.71)
hCoV-19/Iceland/246/2020 (0.71)
hCoV-19/USA/WA-S149/2020 (MT632547) (0.71)
hCoV-19/England/SHEF-BFCEE/2020 (EPI_ISL_416733) (0.71)
hCoV-19/England/20109094006/2020 (EPI_ISL_417289) (0.71)
hCoV-19/USA/TX-HMH074/2020 (EPI_ISL_434783) (0.67)
hCoV-19/USA/NY-NYUMC36/2020 (EPI_ISL_419697) (0.67)
hCoV-19/England/CAMB-74438/2020 (EPI_ISL_425290) (0.67)
hCoV-19/England/200990006/2020 (EPI_ISL_414011) (0.67)
hCoV-19/Ireland/24042/2020 (EPI_ISL_418583) (0.67)
hCoV-19/Scotland/EDB005/2020EPI_ISL_4156322020-03-07
hCoV-19/Scotland/EDB006/2020EPI_ISL_4156332020-03-09
hCoV-19/Scotland/EDB007/2020EPI_ISL_4156342020-03-06
hCoV-19/Scotland/EDB008/2020EPI_ISL_4156352020-03-09
hCoV-19/Scotland/EDB009/2020EPI_ISL_4156362020-03-06
hCoV-19/Scotland/EDB011/2020EPI_ISL_4156372020-03-04
hCoV-19/Scotland/EDB012/2020EPI_ISL_4156382020-03-07
hCoV-19/Scotland/EDB013/2020EPI_ISL_4156392020-03-10
hCoV-19/Scotland/EDB003/2020 (EPI_ISL_415640)EPI_ISL_4348222020-03-08 SNP:
241: C>T (7669 strain(s) in DB)
3037: C>T (7693 strain(s) in DB)
14408: C>T (7704 strain(s) in DB)
23403: A>G (7732 strain(s) in DB)
23575: C>T (28 strain(s) in DB)
23587: G>C (17 strain(s) in DB)

hCoV-19/England/201360499/2020 (EPI_ISL_421781) (1)
hCoV-19/Denmark/ALAB-HH29/2020 (EPI_ISL_429287) (1)
hCoV-19/Finland/14M14/2020 (EPI_ISL_418403) (0.86)
hCoV-19/Finland/14M13/2020 (EPI_ISL_418402) (0.75)
hCoV-19/Scotland/CVR51/2020 (EPI_ISL_425779) (0.75)
hCoV-19/Scotland/CVR79/2020 (EPI_ISL_425809) (0.75)
hCoV-19/DK/ALAB-SSI-245/2020 (EPI_ISL_437660) (0.67)
hCoV-19/Scotland/EDB024/2020 (EPI_ISL_425830) (0.67)
hCoV-19/England/LOND-D3DF0/2020 (EPI_ISL_441036) (0.67)
hCoV-19/USA/NY-NYUMC4/2020 (EPI_ISL_416832) (0.67)
hCoV-19/USA/TX-HMH122/2020 (EPI_ISL_434822) (0.67)
hCoV-19/Georgia/Tb-54/2020 (EPI_ISL_415641)EPI_ISL_4156412020-02-27 SNP:
915: A>G (3 strain(s) in DB)
11083: G>T (1220 strain(s) in DB)
26144: G>T (818 strain(s) in DB)

Deletions:
1: AATTAAAGGTTTATACCTTC...>- (4882 strain(s) in DB)
29872: AAAAAAAAAAAAAAAAAAAA...>A (168 strain(s) in DB)

hCoV-19/Georgia/Tb-477/2020 (EPI_ISL_415642)EPI_ISL_4276182020-03-10 SNP:
241: C>T (7669 strain(s) in DB)
3037: C>T (7693 strain(s) in DB)
14408: C>T (7704 strain(s) in DB)
23403: A>G (7732 strain(s) in DB)
29866: A>G (422 strain(s) in DB)
29867: T>C (123 strain(s) in DB)
29868: G>T (177 strain(s) in DB)
29869: A>G (89 strain(s) in DB)
29871: A>C (158 strain(s) in DB)
29872: A>T (168 strain(s) in DB)
29874: A>T (87 strain(s) in DB)
29876: A>T (51 strain(s) in DB)
29877: A>G (104 strain(s) in DB)
29878: A>G (46 strain(s) in DB)

Deletions:
1: AATTAAAGGTTTATACCTTC...>- (4882 strain(s) in DB)

Indels:
29881: AAAAAAAAAAAAAAAAAAAA...>G (31 strain(s) in DB)

hCoV-19/France/IDF1980/2020 (EPI_ISL_414633) (0.45)
hCoV-19/Belgium/SS-031047/2020 (EPI_ISL_418793) (0.41)
hCoV-19/Belgium/NKR-030645/2020 (EPI_ISL_418795) (0.41)
hCoV-19/USA/NY-WCMP12E01P/2020 (EPI_ISL_427606) (0.41)
hCoV-19/USA/NY-WCMP10D11P/2020 (EPI_ISL_427568) (0.39)
hCoV-19/USA/NY-WCMP10C11P/2020 (EPI_ISL_427565) (0.39)
hCoV-19/Guangzhou/GZMU0037/2020 (CNA0013941) (0.39)
hCoV-19/USA/NY-WCMP10G11P/2020 (EPI_ISL_427579) (0.39)
hCoV-19/USA/NY-WCMP11C04P/2020 (EPI_ISL_427589) (0.39)
hCoV-19/USA/NY-WCMP11E05P/2020 (EPI_ISL_427593) (0.39)
hCoV-19/USA/NY-WCMP12H01P/2020 (EPI_ISL_427618) (0.39)
hCoV-19/Georgia/Tb-468/2020 (EPI_ISL_415643)EPI_ISL_4414202020-03-10 SNP:
915: A>G (3 strain(s) in DB)
10319: C>T (52 strain(s) in DB)
11083: G>T (1220 strain(s) in DB)
26144: G>T (818 strain(s) in DB)

Deletions:
1: AATTAAAGGTTTATACCTTC...>- (4882 strain(s) in DB)
29870: CAAAAAAAAAAAAAAAAAAA...>C (353 strain(s) in DB)

hCoV-19/Georgia/Tb-54/2020 (EPI_ISL_415641) (0.57)
hCoV-19/Norway/1493/2020 (EPI_ISL_417488) (0.57)
nCoV-19/Georgia/Tb-537/2020 (EPI_ISL_416480) (0.5)
hCoV-19/Northern Ireland/NIRE-FB3B4/2020 (EPI_ISL_441416) (0.44)
hCoV-19/Australia/QLDID929/2020 (EPI_ISL_420878) (0.44)
hCoV-19/Belgium/BJ-0325181/2020 (EPI_ISL_420438) (0.43)
SARS-CoV-2/human/ITA/INMI1/2020 (MT077125) (0.43)
hCoV-19/Spain/Valencia124/2020 (EPI_ISL_436219) (0.43)
hCoV-19/Spain/Valencia115/2020 (EPI_ISL_436210) (0.43)
BetaCoV/Italy/INMI1-cs/2020 (EPI_ISL_410546) (0.43)
hCoV-19/Northern Ireland/NIRE-FB40C/2020 (EPI_ISL_441420) (0.4)
hCoV-19/Georgia/Tb-82/2020EPI_ISL_4156442020-02-28
hCoV-19/Denmark/SSI-101/2020 (EPI_ISL_415646)EPI_ISL_4262962020-03-03 SNP:
3: T>C (52 strain(s) in DB)
4: A>G (66 strain(s) in DB)
7: G>A (27 strain(s) in DB)
11: T>G (34 strain(s) in DB)
18: T>G (140 strain(s) in DB)
19: C>G (27 strain(s) in DB)
20: C>G (20 strain(s) in DB)
21: C>A (26 strain(s) in DB)
241: C>T (7669 strain(s) in DB)
3037: C>T (7693 strain(s) in DB)
14408: C>T (7704 strain(s) in DB)
23403: A>G (7732 strain(s) in DB)
23575: C>T (28 strain(s) in DB)
23587: G>C (17 strain(s) in DB)

Deletions:
29862: GAGAATGACAAAAAAAAAAA...>G (145 strain(s) in DB)

Indels:
1: A>A... (4882 strain(s) in DB)
12: A>GTTGGTTTGT (48 strain(s) in DB)

hCoV-19/USA/UNKNOWN-UW-4089/2020 (MT461618) (0.59)
hCoV-19/USA/WA-UW-4021/2020 (MT461607) (0.52)
hCoV-19/USA/WA-UW-4041/2020 (MT461611) (0.5)
hCoV-19/USA/ID-UW-4308/2020 (MT461628) (0.5)
hCoV-19/USA/ID-UW-4254/2020 (MT461625) (0.44)
hCoV-19/USA/WA-UW-4114/2020 (MT461620) (0.42)
hCoV-19/USA/WA-UW-4024/2020 (MT461608) (0.4)
hCoV-19/USA/UNKNOWN-UW-3982/2020 (MT461603) (0.39)
hCoV-19/Scotland/CVR51/2020 (EPI_ISL_425779) (0.39)
hCoV-19/Scotland/CVR79/2020 (EPI_ISL_425809) (0.39)
hCoV-19/USA/NY-Wadsworth-16080-01/2020 (EPI_ISL_426296) (0.37)
hCoV-19/Denmark/SSI-102/2020EPI_ISL_4156472020-03-03
hCoV-19/Denmark/SSI-104/2020 (EPI_ISL_415648)MT3457992020-03-03 SNP:
241: C>T (7669 strain(s) in DB)
1059: C>T (2820 strain(s) in DB)
1302: C>T (74 strain(s) in DB)
3037: C>T (7693 strain(s) in DB)
14408: C>T (7704 strain(s) in DB)
18656: C>T (8 strain(s) in DB)
23403: A>G (7732 strain(s) in DB)
25563: G>T (3418 strain(s) in DB)
29858: T>G (26 strain(s) in DB)
29861: G>A (62 strain(s) in DB)
29864: G>A (204 strain(s) in DB)

Deletions:
1: AATTAAAGGTTTATACCTTC...>- (4882 strain(s) in DB)
29865: AATGACAAAAAAAAAAAAAA...>A (74 strain(s) in DB)

hCoV-19/USA/MN-MDH-390/2020 (EPI_ISL_437368) (0.62)
hCoV-19/USA/MN-MDH-564/2020 (EPI_ISL_437380) (0.62)
hCoV-19/USA/WA-UW140/2020 (MT252756) (0.62)
hCoV-19/USA/MN-MDH-435/2020 (EPI_ISL_437372) (0.62)
hCoV-19/USA/MN-MDH-398/2020 (EPI_ISL_437369) (0.57)
hCoV-19/Australia/VIC261/2020 (MT451157) (0.57)
SARS-CoV-2/human/USAWA-UW410/2020 (MT293175) (0.57)
hCoV-19/USA/WA-UW-2119/2020 (MT345809) (0.57)
hCoV-19/USA/WA-UW-2108/2020 (MT345811) (0.57)
hCoV-19/USA/VA-DCLS-0152/2020 (MT482132) (0.57)
hCoV-19/USA/WA-UW-2169/2020 (MT345799) (0.57)
hCoV-19/France/HF2039/2020 (EPI_ISL_415649)EPI_ISL_4156502020-03-05 SNP:
241: C>T (7669 strain(s) in DB)
1059: C>T (2820 strain(s) in DB)
1666: T>C (4 strain(s) in DB)
3037: C>T (7693 strain(s) in DB)
14408: C>T (7704 strain(s) in DB)
23403: A>G (7732 strain(s) in DB)
23520: C>T (3 strain(s) in DB)
25563: G>T (3418 strain(s) in DB)

Deletions:
29882: AAAAAAAAAAAAAAAAAAAA...>A (514 strain(s) in DB)

hCoV-19/USA/NY_1922/2020 (EPI_ISL_424906) (0.78)
hCov-19/USA/NY_2929/2020 (MT304486) (0.78)
hCoV-19/France/B2346/2020 (EPI_ISL_416510) (0.78)
hCoV-19/France/HF2381/2020 (EPI_ISL_418226) (0.78)
hCoV-19/USA/OH_0023/2020 (EPI_ISL_424880) (0.78)
SARS-CoV-2/human/USA/OH_0023/2020 (MT325598) (0.78)
SARS-CoV-2/human/USA/RI_0702/2020 (MT325605) (0.78)
SARS-CoV-2/human/USA/NY_1922/2020 (MT325627) (0.78)
hCoV-19/USA/RI_0702/2020 (EPI_ISL_424887) (0.78)
SARS-CoV-2/human/USA/PA_2887/2020 (MT344959) (0.7)
hCoV-19/France/IDF2075/2020 (EPI_ISL_415650) (0.7)
hCoV-19/France/IDF2075/2020 (EPI_ISL_415650)EPI_ISL_4156502020-03-02 SNP:
241: C>T (7669 strain(s) in DB)
1059: C>T (2820 strain(s) in DB)
3037: C>T (7693 strain(s) in DB)
14408: C>T (7704 strain(s) in DB)
23403: A>G (7732 strain(s) in DB)
25563: G>T (3418 strain(s) in DB)
28857: G>A (15 strain(s) in DB)

Deletions:
29882: AAAAAAAAAAAAAAAAAAAA...>A (514 strain(s) in DB)

hCoV-19/France/BFC2094/2020 (EPI_ISL_415651)EPI_ISL_4334992020-03-05 SNP:
241: C>T (7669 strain(s) in DB)
3037: C>T (7693 strain(s) in DB)
3728: G>T (1 strain(s) in DB)
14408: C>T (7704 strain(s) in DB)
15324: C>T (278 strain(s) in DB)
23403: A>G (7732 strain(s) in DB)

Deletions:
29882: AAAAAAAAAAAAAAAAAAAA...>A (514 strain(s) in DB)

hCoV-19/France/HF2196/2020 (EPI_ISL_416493) (0.86)
hCoV-19/France/BFC2147/2020 (EPI_ISL_415652) (0.75)
SARS-CoV-2/human/USA/IA_6401/2020 (MT325619) (0.71)
hCoV-19/Hungary/MBL-003/2020 (EPI_ISL_435421) (0.71)
SARS-CoV-2/human/USA/IA_6396/2020 (MT325617) (0.71)
SARS-CoV-2/human/USA/IA_6399/2020 (MT325620) (0.71)
SARS-CoV-2/human/USA/IA_6390/2020 (MT325621) (0.71)
hCoV-19/USA/WI-82/2020 (EPI_ISL_421341) (0.71)
hCoV-19/Belgium/ULG-10142/2020 (EPI_ISL_427385) (0.71)
hCoV-19/USA/AZ-TGEN-TG268281/2020 (EPI_ISL_426503) (0.71)
hCoV-19/Scotland/CVR1022/2020 (EPI_ISL_433499) (0.71)
hCoV-19/France/BFC2147/2020 (EPI_ISL_415652)EPI_ISL_4334992020-03-05 SNP:
241: C>T (7669 strain(s) in DB)
3037: C>T (7693 strain(s) in DB)
13051: C>T (2 strain(s) in DB)
14408: C>T (7704 strain(s) in DB)
15324: C>T (278 strain(s) in DB)
23403: A>G (7732 strain(s) in DB)

Deletions:
29882: AAAAAAAAAAAAAAAAAAAA...>A (514 strain(s) in DB)

hCoV-19/France/HF2196/2020 (EPI_ISL_416493) (0.86)
hCoV-19/France/BFC2094/2020 (EPI_ISL_415651) (0.75)
hCoV-19/USA/WI-82/2020 (EPI_ISL_421341) (0.71)
hCoV-19/USA/IA_6401/2020 (EPI_ISL_424897) (0.71)
SARS-CoV-2/human/USA/IA_6399/2020 (MT325620) (0.71)
SARS-CoV-2/human/USA/IA_6401/2020 (MT325619) (0.71)
hCoV-19/England/20146060504/2020 (EPI_ISL_423583) (0.71)
SARS-CoV-2/human/USA/IA_6396/2020 (MT325617) (0.71)
hCoV-19/USA/IA_6396/2020 (EPI_ISL_424895) (0.71)
hCoV-19/USA/IA_6390/2020 (EPI_ISL_424900) (0.71)
hCoV-19/Scotland/CVR1022/2020 (EPI_ISL_433499) (0.71)
hCoV-19/France/HF2151/2020EPI_ISL_4156532020-03-08
hCoV-19/France/HF2174/2020 (EPI_ISL_415654)EPI_ISL_4248832020-03-09 SNP:
241: C>T (7669 strain(s) in DB)
2416: C>T (203 strain(s) in DB)
3037: C>T (7693 strain(s) in DB)
12745: A>G (1 strain(s) in DB)
14408: C>T (7704 strain(s) in DB)
20234: C>T (3 strain(s) in DB)
23403: A>G (7732 strain(s) in DB)
25563: G>T (3418 strain(s) in DB)

Deletions:
29882: AAAAAAAAAAAAAAAAAAAA...>A (514 strain(s) in DB)

SARS-CoV-2/human/USA/PA_2317/2020 (MT325601) (0.78)
SARS-CoV-2/human/USA/KS_4126/2020 (MT325580) (0.78)
hCoV-19/USA/NC_0031/2020 (EPI_ISL_424873) (0.78)
hCoV-19/USA/KS_4126/2020 (EPI_ISL_424867) (0.78)
SARS-CoV-2/human/USA/PA_1881/2020 (MT325600) (0.78)
hCoV-19/USA/MA_3672/2020 (EPI_ISL_424844) (0.78)
hCoV-19/USA/MA_0020/2020 (EPI_ISL_424843) (0.78)
SARS-CoV-2/human/USA/MA_3626/2020 (MT325638) (0.78)
SARS-CoV-2/human/USA/MA_3616/2020 (MT325637) (0.78)
SARS-CoV-2/human/USA/MA_9889/2020 (MT325633) (0.78)
hCoV-19/USA/PA_2317/2020 (EPI_ISL_424883) (0.78)
hCoV-19/Wales/PHW27/2020 (EPI_ISL_415655)MT4291872020-03-12 SNP:
241: C>T (7669 strain(s) in DB)
3037: C>T (7693 strain(s) in DB)
14408: C>T (7704 strain(s) in DB)
16393: C>T (9 strain(s) in DB)
22583: G>A (1 strain(s) in DB)
23403: A>G (7732 strain(s) in DB)
27366: G>T (2 strain(s) in DB)

Deletions:
1: AATTAAAGGTTTATACCTTC...>- (4882 strain(s) in DB)
29836: CCCATGTGATTTTAATAGCT...>C (754 strain(s) in DB)

hCoV-19/Ireland/Limerick-19935/2020 (EPI_ISL_414587) (0.67)
hCoV-19/USA/MN133-MDH133/2020 (EPI_ISL_421689) (0.67)
hCoV-19/USA/WI-151/2020 (EPI_ISL_427458) (0.67)
hCoV-19/USA/MN58-MDH58/2020 (EPI_ISL_417502) (0.67)
hCoV-19/USA/MN43-MDH43/2020 (EPI_ISL_417479) (0.67)
hCoV-19/Scotland/CVR62/2020 (EPI_ISL_425790) (0.67)
hCoV-19/Scotland/CVR54/2020 (EPI_ISL_425783) (0.67)
hCoV-19/USA/WI-134/2020 (EPI_ISL_427441) (0.67)
hCoV-19/Wales/PHW1/2020 (EPI_ISL_413555) (0.67)
hCoV-19/Scotland/CVR131/2020 (EPI_ISL_425674) (0.67)
hCoV-19/USA/WI-UW-265/2020 (MT429187) (0.67)
hCoV-19/Wales/PHW33/2020EPI_ISL_4156562020-03-12
hCoV-19/Wales/PHW37/2020 (EPI_ISL_415657)EPI_ISL_4220782020-03-12 SNP:
1440: G>A (174 strain(s) in DB)
2891: G>A (171 strain(s) in DB)
28851: G>T (70 strain(s) in DB)

Deletions:
1: AATTAAAGGTTTATACCTTC...>- (4882 strain(s) in DB)
29836: CCCATGTGATTTTAATAGCT...>C (754 strain(s) in DB)

hCoV-19/Wales/PHW32/2020 (EPI_ISL_415920) (0.83)
hCoV-19/Wales/PHWC-24A62/2020 (EPI_ISL_419474) (0.8)
hCoV-19/Belgium/ULG-6743/2020 (EPI_ISL_418627) (0.8)
hCoV-19/Wales/PHWC-242C4/2020 (EPI_ISL_418163) (0.8)
hCoV-19/Wales/PHWC-24419/2020 (EPI_ISL_419409) (0.8)
hCoV-19/Wales/PHWC-23D6A/2020 (EPI_ISL_418110) (0.8)
hCoV-19/Wales/PHWC-24288/2020 (EPI_ISL_418159) (0.67)
hCoV-19/Wales/PHWC-24A35/2020 (EPI_ISL_419472) (0.67)
hCoV-19/Wales/PHWC-2573D/2020 (EPI_ISL_422066) (0.67)
hCoV-19/Wales/PHWC-26EFB/2020 (EPI_ISL_422068) (0.67)
hCoV-19/Wales/PHWC-26013/2020 (EPI_ISL_422078) (0.67)
hCoV-19/Chile/Santiago_op2d1/2020 (EPI_ISL_415658)EPI_ISL_4156582020-03-06 SNP:
8782: C>T (1672 strain(s) in DB)
9477: T>A (113 strain(s) in DB)
14805: C>T (875 strain(s) in DB)
25979: G>T (113 strain(s) in DB)
28144: T>C (1654 strain(s) in DB)
28657: C>T (132 strain(s) in DB)
28863: C>T (116 strain(s) in DB)

Deletions:
1: AATTAAAGGTTTATACCTTC...>- (4882 strain(s) in DB)
29781: GAGCTGCCTATATGGAAGAG...>G (41 strain(s) in DB)

hCoV-19/Wales/PHW28/2020EPI_ISL_4156592020-03-12
hCoV-19/Chile/Santiago_op3d1/2020 (EPI_ISL_415660)EPI_ISL_4376252020-03-07 SNP:
8782: C>T (1672 strain(s) in DB)
9477: T>A (113 strain(s) in DB)
14805: C>T (875 strain(s) in DB)
25979: G>T (113 strain(s) in DB)
28144: T>C (1654 strain(s) in DB)
28657: C>T (132 strain(s) in DB)
28863: C>T (116 strain(s) in DB)

Deletions:
1: AATTAAAGGTTTATACCTTC...>- (4882 strain(s) in DB)
29781: GAGCTGCCTATATGGAAGAG...>G (41 strain(s) in DB)

hCoV-19/Chile/Santiago_op2d1/2020 (EPI_ISL_415658) (1)
hCoV-19/Chile/Santiago_op4d1/2020 (EPI_ISL_415661) (1)
hCoV-19/USA/NY-PV09147/2020 (MT370985) (1)
hCoV-19/Spain/PaisVasco201382/2020 (EPI_ISL_418253) (0.89)
hCoV-19/Spain/CastillayLeon201372/2020 (EPI_ISL_418249) (0.89)
hCoV-19/Spain/CastillayLeon201323/2020 (EPI_ISL_418248) (0.89)
hCoV-19/Spain/Valencia56/2020 (EPI_ISL_425180) (0.8)
hCoV-19/Spain/Valencia38/2020 (EPI_ISL_420123) (0.8)
hCoV-19/Spain/Valencia93/2020 (EPI_ISL_425217) (0.8)
SARS-CoV-2/human/ESP/Valencia12/2020 (MT292571) (0.8)
hCoV-19/Poland/Wro-02/2020 (EPI_ISL_437625) (0.8)
hCoV-19/Chile/Santiago_op4d1/2020 (EPI_ISL_415661)EPI_ISL_4376252020-03-08 SNP:
8782: C>T (1672 strain(s) in DB)
9477: T>A (113 strain(s) in DB)
14805: C>T (875 strain(s) in DB)
25979: G>T (113 strain(s) in DB)
28144: T>C (1654 strain(s) in DB)
28657: C>T (132 strain(s) in DB)
28863: C>T (116 strain(s) in DB)

Deletions:
1: AATTAAAGGTTTATACCTTC...>- (4882 strain(s) in DB)
29781: GAGCTGCCTATATGGAAGAG...>G (41 strain(s) in DB)

hCoV-19/Chile/Santiago_op2d1/2020 (EPI_ISL_415658) (1)
hCoV-19/Chile/Santiago_op3d1/2020 (EPI_ISL_415660) (1)
hCoV-19/USA/NY-PV09147/2020 (MT370985) (1)
hCoV-19/Spain/PaisVasco201382/2020 (EPI_ISL_418253) (0.89)
hCoV-19/Spain/CastillayLeon201372/2020 (EPI_ISL_418249) (0.89)
hCoV-19/Spain/CastillayLeon201323/2020 (EPI_ISL_418248) (0.89)
hCoV-19/Spain/Valencia56/2020 (EPI_ISL_425180) (0.8)
hCoV-19/Spain/Valencia38/2020 (EPI_ISL_420123) (0.8)
hCoV-19/Spain/Valencia93/2020 (EPI_ISL_425217) (0.8)
SARS-CoV-2/human/ESP/Valencia12/2020 (MT292571) (0.8)
hCoV-19/Poland/Wro-02/2020 (EPI_ISL_437625) (0.8)
hCoV-19/Switzerland/GR2988/2020 (EPI_ISL_415698)MT4510602020-02-27 SNP:
241: C>T (7669 strain(s) in DB)
3037: C>T (7693 strain(s) in DB)
13176: C>T (2 strain(s) in DB)
14408: C>T (7704 strain(s) in DB)
23403: A>G (7732 strain(s) in DB)
28881: G>A (2045 strain(s) in DB)
28882: G>A (2040 strain(s) in DB)
28883: G>C (2036 strain(s) in DB)

Deletions:
1: AATTA>- (4882 strain(s) in DB)

hCoV-19/Switzerland/GR3043/2020 (EPI_ISL_415699) (1)
hCoV-19/Australia/VIC45/2020 (MT450960) (0.89)
hCoV-19/Northern Ireland/NIRE-1023D7/2020 (EPI_ISL_441410) (0.89)
hCoV-19/Australia/VIC238/2020 (MT451136) (0.89)
hCoV-19/Australia/VIC334/2020 (MT451225) (0.89)
hCoV-19/Australia/VIC219/2020 (MT451120) (0.89)
hCoV-19/Taiwan/TSGH-03/2020 (EPI_ISL_426631) (0.89)
hCoV-19/Australia/VIC190/2020 (MT451092) (0.89)
hCoV-19/Australia/VIC250/2020 (MT451147) (0.89)
hCoV-19/Australia/VIC309/2020 (MT451201) (0.89)
hCoV-19/Australia/VIC156/2020 (MT451060) (0.89)
hCoV-19/Switzerland/GR3043/2020 (EPI_ISL_415699)MT4510602020-02-27 SNP:
241: C>T (7669 strain(s) in DB)
3037: C>T (7693 strain(s) in DB)
13176: C>T (2 strain(s) in DB)
14408: C>T (7704 strain(s) in DB)
23403: A>G (7732 strain(s) in DB)
28881: G>A (2045 strain(s) in DB)
28882: G>A (2040 strain(s) in DB)
28883: G>C (2036 strain(s) in DB)

Deletions:
1: AATTAAAGGT>- (4882 strain(s) in DB)

hCoV-19/Switzerland/GR2988/2020 (EPI_ISL_415698) (1)
hCoV-19/Australia/VIC45/2020 (MT450960) (0.89)
hCoV-19/Northern Ireland/NIRE-1023D7/2020 (EPI_ISL_441410) (0.89)
hCoV-19/Australia/VIC238/2020 (MT451136) (0.89)
hCoV-19/Australia/VIC334/2020 (MT451225) (0.89)
hCoV-19/Australia/VIC219/2020 (MT451120) (0.89)
hCoV-19/Taiwan/TSGH-03/2020 (EPI_ISL_426631) (0.89)
hCoV-19/Australia/VIC190/2020 (MT451092) (0.89)
hCoV-19/Australia/VIC250/2020 (MT451147) (0.89)
hCoV-19/Australia/VIC309/2020 (MT451201) (0.89)
hCoV-19/Australia/VIC156/2020 (MT451060) (0.89)
hCoV-19/Switzerland/GE1402/2020 (EPI_ISL_415700)EPI_ISL_4157002020-02-28 SNP:
241: C>T (7669 strain(s) in DB)
3037: C>T (7693 strain(s) in DB)
14408: C>T (7704 strain(s) in DB)
23403: A>G (7732 strain(s) in DB)
28881: G>A (2045 strain(s) in DB)
28882: G>A (2040 strain(s) in DB)
28883: G>C (2036 strain(s) in DB)
29148: T>C (28 strain(s) in DB)

Deletions:
1: AATTAAAGGTTTAT>- (4882 strain(s) in DB)
29866: ATGACAAAAAAAAAAAAAAA...>A (422 strain(s) in DB)

hCoV-19/Switzerland/BS0914/2020 (EPI_ISL_415701)MT4512742020-03-02 SNP:
241: C>T (7669 strain(s) in DB)
3037: C>T (7693 strain(s) in DB)
14408: C>T (7704 strain(s) in DB)
19839: T>C (113 strain(s) in DB)
23403: A>G (7732 strain(s) in DB)
28881: G>A (2045 strain(s) in DB)
28882: G>A (2040 strain(s) in DB)
28883: G>C (2036 strain(s) in DB)

Deletions:
1: AATTA>- (4882 strain(s) in DB)

hCoV-19/Switzerland/GE0199(2020 (EPI_ISL_415455) (1)
hCoV-19/Switzerland/GE3895/2020 (EPI_ISL_413997) (1)
hCoV-19/Belgium/PC-0325147/2020 (EPI_ISL_420404) (0.9)
hCoV-19/Australia/VIC199/2020 (MT451101) (0.9)
hCoV-19/Switzerland/BE6651/2020 (EPI_ISL_415456) (0.9)
hCoV-19/Belgium/MAC-0324142/2020 (EPI_ISL_420399) (0.9)
hCoV-19/Switzerland/GE4644/2020 (EPI_ISL_429223) (0.9)
hCoV-19/Switzerland/BL0902/2020 (EPI_ISL_414021) (0.9)
hCoV-19/Switzerland/GE9586/2020 (EPI_ISL_414022) (0.9)
hCoV-19/Portugal/PT0051/2020 (EPI_ISL_421454) (0.9)
hCoV-19/Australia/VIC387/2020 (MT451274) (0.89)
hCoV-19/Switzerland/SZ1417/2020 (EPI_ISL_415702)EPI_ISL_4225932020-03-02 SNP:
241: C>T (7669 strain(s) in DB)
3037: C>T (7693 strain(s) in DB)
11083: G>T (1220 strain(s) in DB)
14408: C>T (7704 strain(s) in DB)
23403: A>G (7732 strain(s) in DB)
27046: C>T (266 strain(s) in DB)
28881: G>A (2045 strain(s) in DB)
28882: G>A (2040 strain(s) in DB)
28883: G>C (2036 strain(s) in DB)

Deletions:
1: AATTAAAGG>- (4882 strain(s) in DB)

hCoV-19/Wales/PHWC-27285/2020 (EPI_ISL_432277) (0.9)
hCoV-19/Germany/BAV-MVP0089/2020 (EPI_ISL_437283) (0.9)
hCoV-19/Australia/VIC269/2020 (MT451165) (0.82)
hCov-19/Netherlands/NoordBrabant/67/2020 (EPI_ISL_415523) (0.82)
hCoV-19/Netherlands/NA_186/2020 (EPI_ISL_422721) (0.82)
hCoV-19/Netherlands/NA_130/2020 (EPI_ISL_422674) (0.82)
hCoV-19/Netherlands/NA_111/2020 (EPI_ISL_422659) (0.82)
hCoV-19/Wales/PHWC-2772C/2020 (EPI_ISL_432287) (0.82)
hCoV-19/Germany/BAV-MVP0088/2020 (EPI_ISL_437282) (0.82)
hCoV-19/Portugal/PT0001b/2020 (EPI_ISL_417986) (0.82)
hCoV-19/Netherlands/NA_284/2020 (EPI_ISL_422593) (0.82)
hCoV-19/Switzerland/TI2045/2020 (EPI_ISL_415703)MT4510182020-03-01 SNP:
241: C>T (7669 strain(s) in DB)
3037: C>T (7693 strain(s) in DB)
12357: C>T (3 strain(s) in DB)
14408: C>T (7704 strain(s) in DB)
23403: A>G (7732 strain(s) in DB)
28881: G>A (2045 strain(s) in DB)
28882: G>A (2040 strain(s) in DB)
28883: G>C (2036 strain(s) in DB)

Deletions:
1: AATTAAAG>- (4882 strain(s) in DB)

hCoV-19/Northern Ireland/NIRE-102094/2020 (EPI_ISL_441375) (0.89)
hCoV-19/Australia/VIC250/2020 (MT451147) (0.89)
hCoV-19/Switzerland/GE8086/2020 (EPI_ISL_429213) (0.89)
hCoV-19/Taiwan/TSGH-03/2020 (EPI_ISL_426631) (0.89)
hCoV-19/Turkey/HSGM-1428/2020 (EPI_ISL_437311) (0.89)
hCoV-19/Wales/PHWC-26E19/2020 (EPI_ISL_422044) (0.89)
hCoV-19/Australia/VIC387/2020 (MT451274) (0.89)
hCoV-19/Wales/PHWC-2649F/2020 (EPI_ISL_422032) (0.89)
hCoV-19/Northern Ireland/NIRE-1023D7/2020 (EPI_ISL_441410) (0.89)
hCoV-19/Wales/PHWC-26981/2020 (EPI_ISL_422023) (0.89)
hCoV-19/Australia/VIC109/2020 (MT451018) (0.89)
hCoV-19/Switzerland/BE2536/2020 (EPI_ISL_415704)EPI_ISL_4157042020-03-04 SNP:
241: C>T (7669 strain(s) in DB)
3037: C>T (7693 strain(s) in DB)
14408: C>T (7704 strain(s) in DB)
15324: C>T (278 strain(s) in DB)
23403: A>G (7732 strain(s) in DB)

Deletions:
1: AATTAAAGG>- (4882 strain(s) in DB)

hCoV-19/Switzerland/GE4135/2020 (EPI_ISL_415705)EPI_ISL_4157052020-03-06 SNP:
241: C>T (7669 strain(s) in DB)
3037: C>T (7693 strain(s) in DB)
14408: C>T (7704 strain(s) in DB)
15324: C>T (278 strain(s) in DB)
23403: A>G (7732 strain(s) in DB)

Deletions:
1: AATTAAAGGTTT>- (4882 strain(s) in DB)

hCoV-19/Switzerland/GE062072020 (EPI_ISL_415706)EPI_ISL_4157062020-03-06 SNP:
4: A>T (66 strain(s) in DB)
241: C>T (7669 strain(s) in DB)
3037: C>T (7693 strain(s) in DB)
14408: C>T (7704 strain(s) in DB)
15324: C>T (278 strain(s) in DB)
23403: A>G (7732 strain(s) in DB)

hCoV-19/Switzerland/GE6679/2020 (EPI_ISL_415707)EPI_ISL_4157072020-03-08 SNP:
241: C>T (7669 strain(s) in DB)
3037: C>T (7693 strain(s) in DB)
14408: C>T (7704 strain(s) in DB)
15324: C>T (278 strain(s) in DB)
23403: A>G (7732 strain(s) in DB)

Deletions:
1: AATTAAA>- (4882 strain(s) in DB)

hCoV-19/Switzerland/GE4984/2020 (EPI_ISL_415708)EPI_ISL_4157082020-03-07 SNP:
241: C>T (7669 strain(s) in DB)
3037: C>T (7693 strain(s) in DB)
13862: C>T (65 strain(s) in DB)
14408: C>T (7704 strain(s) in DB)
23403: A>G (7732 strain(s) in DB)
28836: C>T (69 strain(s) in DB)

Deletions:
1: AATTAAAGG>- (4882 strain(s) in DB)

hCoV-19/Hangzhou/ZJU-01/2020 (EPI_ISL_415709)MT4509842020-01-25 SNP:
2: T>G (55 strain(s) in DB)
6: A>T (19 strain(s) in DB)
11: T>C (34 strain(s) in DB)
13: T>G (32 strain(s) in DB)
21: C>G (26 strain(s) in DB)
23: G>T (8 strain(s) in DB)
24: G>C (9 strain(s) in DB)
11083: G>T (1220 strain(s) in DB)
23607: G>A (3 strain(s) in DB)
26144: G>T (818 strain(s) in DB)

Insertions:
7: G>GTGACTGGA (27 strain(s) in DB)
15: C>CGTGTGCT (17 strain(s) in DB)

Deletions:
25: TAAC>T (18 strain(s) in DB)

Indels:
1: A>A... (4882 strain(s) in DB)

hCoV-19/Hangzhou/ZJU-08/2020 (0.56)
hCoV-19/SaudiArabia/KAIMRC-Alghoribi/2020 (EPI_ISL_416432) (0.22)
hCoV-19/Taiwan/TSGH-09/2020 (EPI_ISL_427396) (0.21)
BetaCoV/Italy/INMI1-cs/2020 (EPI_ISL_410546) (0.2)
SARS-CoV-2/human/ITA/INMI1/2020 (MT077125) (0.2)
hCoV-19/Spain/Valencia124/2020 (EPI_ISL_436219) (0.2)
hCoV-19/Spain/Valencia115/2020 (EPI_ISL_436210) (0.2)
hCoV-19/Thailand/NIH-2492-2/2020 (EPI_ISL_434704) (0.2)
hCoV-19/Australia/VIC301/2020 (MT451193) (0.19)
hCoV-19/Australia/VIC152/2020 (MT451056) (0.19)
hCoV-19/Australia/VIC70/2020 (MT450984) (0.19)
hCoV-19/Russia/StPetersburg-3524/2020 (EPI_ISL_415710)MT4123012020-03-15 SNP:
16: C>A (17 strain(s) in DB)
241: C>T (7669 strain(s) in DB)
1967: A>G (1 strain(s) in DB)
3037: C>T (7693 strain(s) in DB)
4165: T>A (6 strain(s) in DB)
4170: C>G (1 strain(s) in DB)
4175: A>G (1 strain(s) in DB)
4992: A>C (1 strain(s) in DB)
5994: A>T (1 strain(s) in DB)
5996: C>T (1 strain(s) in DB)
5997: C>G (2 strain(s) in DB)
9165: C>A (4 strain(s) in DB)
9176: G>C (2 strain(s) in DB)
9178: T>G (1 strain(s) in DB)
9182: G>T (1 strain(s) in DB)
9191: G>A (1 strain(s) in DB)
9212: T>A (1 strain(s) in DB)
9218: A>T (1 strain(s) in DB)
9231: G>C (1 strain(s) in DB)
9242: G>C (3 strain(s) in DB)
9245: G>C (1 strain(s) in DB)
9248: G>A (1 strain(s) in DB)
9249: G>A (2 strain(s) in DB)
9267: G>T (1 strain(s) in DB)
9281: C>A (1 strain(s) in DB)
9317: T>G (1 strain(s) in DB)
9348: C>G (1 strain(s) in DB)
9369: T>A (1 strain(s) in DB)
9383: G>C (1 strain(s) in DB)
9389: G>T (1 strain(s) in DB)
9405: T>G (1 strain(s) in DB)
.....

hCoV-19/USA/ID-UW-4433/2020 (MT345886) (0.04)
hCoV-19/USA/WA-UW238/2020 (MT251974) (0.04)
hCoV-19/USA/WA-UW-1723/2020 (MT326125) (0.04)
hCoV-19/USA/WA-UW-6483/2020 (MT461642) (0.04)
hCoV-19/USA/WA-UW-3942/2020 (MT358722) (0.04)
hCoV-19/USA/OR-UW-4300/2020 (MT358661) (0.04)
hCoV-19/USA/ID-UW-4357/2020 (MT345872) (0.04)
hCoV-19/USA/WA-UW-6327/2020 (MT412324) (0.04)
hCoV-19/USA/ID-UW-6467/2020 (MT461636) (0.04)
hCoV-19/USA/ID-UW-4400/2020 (MT345880) (0.04)
hCoV-19/USA/CT-UW-4343/2020 (MT412301) (0.04)
hCoV-19/Hangzhou/ZJU-05/2020 (EPI_ISL_415711)EPI_ISL_4347042020-01-22 SNP:
3: T>G (52 strain(s) in DB)
7: G>A (27 strain(s) in DB)
8: G>T (40 strain(s) in DB)

Insertions:
9: T>T... (22 strain(s) in DB)

Indels:
1: A>AAGAGTGCTTA (4882 strain(s) in DB)

hCoV-19/Hangzhou/ZJU-02/2020 (EPI_ISL_416042) (0.71)
SARS-CoV-2/WH-09/human/2020/CHN (MT093631) (0.71)
hCoV-19/Hangzhou/ZJU-07/2020 (EPI_ISL_416425) (0.5)
hCoV-19/Saudi Arabia/KAUST-MAKKAH165/2020 (EPI_ISL_437478) (0.43)
hCoV-19/Hangzhou/ZJU-04/2020 (EPI_ISL_416046) (0.38)
hCoV-19/Hangzhou/ZJU-09/2020 (0.33)
hCoV-19/USA/WA-UW67/2020 (MT252793) (0.31)
hCoV-19/Guangzhou/GZMU0035/2020 (CNA0013940) (0.27)
hCoV-19/Taiwan/TSGH-09/2020 (EPI_ISL_427396) (0.27)
hCoV-19/Chile/Talca-1/2020 (EPI_ISL_414577) (0.27)
hCoV-19/Thailand/NIH-2492-2/2020 (EPI_ISL_434704) (0.24)
hCoV-19/Wales/PHW25/2020EPI_ISL_4159162020-03-11
hCoV-19/Wales/PHW26/2020EPI_ISL_4159182020-03-11
hCoV-19/Wales/PHW29/2020EPI_ISL_4159192020-03-11
hCoV-19/Wales/PHW32/2020 (EPI_ISL_415920)EPI_ISL_4159202020-03-12 SNP:
1440: G>A (174 strain(s) in DB)
2891: G>A (171 strain(s) in DB)
25669: C>T (34 strain(s) in DB)
28851: G>T (70 strain(s) in DB)

Deletions:
1: AATTAAAGGTTTATACCTTC...>- (4882 strain(s) in DB)
29836: CCCATGTGATTTTAATAGCT...>C (754 strain(s) in DB)

hCoV-19/Wales/PHW07/2020EPI_ISL_4159772020-03-08
hCoV-19/Wales/PHW09/2020EPI_ISL_4159782020-03-08
hCoV-19/Wales/PHW18/2020EPI_ISL_4159912020-03-09
hCoV-19/Wales/PHW35/2020 (EPI_ISL_416024)EPI_ISL_4180002020-03-11 SNP:
431: G>A (9 strain(s) in DB)
20270: C>T (35 strain(s) in DB)
28725: C>T (4 strain(s) in DB)
29683: A>T (25 strain(s) in DB)

Deletions:
1: AATTAAAGGTTTATACCTTC...>- (4882 strain(s) in DB)
29836: CCCATGTGATTTTAATAGCT...>C (754 strain(s) in DB)

hCoV-19/Wales/PHWC-25005/2020 (EPI_ISL_420929) (0.63)
hCoV-19/England/SHEF-BFD45/2020 (EPI_ISL_416739) (0.5)
hCoV-19/Wales/PHWC-25ABC/2020 (EPI_ISL_422053) (0.44)
hCoV-19/England/NOTT-10E03E/2020 (EPI_ISL_425486) (0.43)
hCoV-19/England/NOTT-10F10D/2020 (EPI_ISL_432965) (0.38)
hCoV-19/England/SHEF-C07E9/2020 (EPI_ISL_420160) (0.38)
hCoV-19/England/NOTT-10E0D4/2020 (EPI_ISL_425496) (0.38)
hCoV-19/Ireland/COR-20134/2020 (EPI_ISL_414487) (0.33)
BetaCoV/Hangzhou/HZ-1/2020 (GWHABKS00000001) (0.33)
hCoV-19/England/CAMB-71EF1/2020 (EPI_ISL_439923) (0.3)
hCoV-19/Portugal/PT0015/2020 (EPI_ISL_418000) (0.3)
hCoV-19/Peru/01/2020EPI_ISL_4160252020-03-05
hCoV-19/Wales/PHW21/2020EPI_ISL_4160262020-03-11
hCoV-19/Wales/PHW17/2020EPI_ISL_4160272020-03-09
hCoV-19/Brazil/SPBR-07/2020 (EPI_ISL_416028)EPI_ISL_4160282020-03-03 SNP:
241: C>T (7669 strain(s) in DB)
3037: C>T (7693 strain(s) in DB)
14408: C>T (7704 strain(s) in DB)
23403: A>G (7732 strain(s) in DB)
27046: C>T (266 strain(s) in DB)
28881: G>A (2045 strain(s) in DB)
28882: G>A (2040 strain(s) in DB)
28883: G>C (2036 strain(s) in DB)

Deletions:
29866: ATGACAAAAAAAAAAAAAAA...>A (422 strain(s) in DB)

hCoV-19/Brazil/SPBR-08/2020 (EPI_ISL_416029)EPI_ISL_4288822020-03-04 SNP:
241: C>T (7669 strain(s) in DB)
313: C>T (124 strain(s) in DB)
3037: C>T (7693 strain(s) in DB)
14408: C>T (7704 strain(s) in DB)
23403: A>G (7732 strain(s) in DB)
28881: G>A (2045 strain(s) in DB)
28882: G>A (2040 strain(s) in DB)
28883: G>C (2036 strain(s) in DB)

Deletions:
29866: ATGACAAAAAAAAAAAAAAA...>A (422 strain(s) in DB)

hCov-19/Israel/ISR_IT0320/2020 (MT276598) (0.9)
hCoV-19/England/CAMB-7A7A2/2020 (EPI_ISL_441255) (0.9)
hCoV-19/United Arab Emirates/L3779/2020 (EPI_ISL_435132) (0.89)
hCoV-19/England/CAMB-7B48C/2020 (EPI_ISL_433961) (0.89)
hCoV-19/England/CAMB-82200/2020 (EPI_ISL_438633) (0.89)
hCoV-19/Hungary/SRC-00186/2020 (EPI_ISL_435408) (0.89)
hCoV-19/Scotland/EDB2094/2020 (EPI_ISL_433192) (0.89)
hCoV-19/England/CAMB-7708C/2020 (EPI_ISL_425458) (0.89)
hCoV-19/England/SHEF-C01CD/2020 (EPI_ISL_420229) (0.89)
hCoV-19/Belgium/UGent-28/2020 (EPI_ISL_434347) (0.89)
hCoV-19/Russia/Vector_67609/2020 (EPI_ISL_428882) (0.89)
hCoV-19/Brazil/SPBR-09/2020 (EPI_ISL_416031)EPI_ISL_4160312020-03-04 SNP:
241: C>T (7669 strain(s) in DB)
3037: C>T (7693 strain(s) in DB)
14408: C>T (7704 strain(s) in DB)
23403: A>G (7732 strain(s) in DB)

Deletions:
29866: ATGACAAAAAAAAAAAAAAA...>A (422 strain(s) in DB)

hCoV-19/Brazil/SPBR-10/2020 (EPI_ISL_416032)EPI_ISL_4249132020-03-04 SNP:
14805: C>T (875 strain(s) in DB)
17247: T>C (334 strain(s) in DB)
26144: G>T (818 strain(s) in DB)

Deletions:
29867: TGACAAAAAAAAAAAAAAAA...>T (123 strain(s) in DB)

hCoV-19/England/20132018804/2020 (EPI_ISL_423734) (0.6)
hCoV-19/Iceland/38/2020 (0.6)
hCoV-19/USA/NY-NYUMC36/2020 (EPI_ISL_419697) (0.6)
hCoV-19/England/NOTT-10E06B/2020 (EPI_ISL_425489) (0.6)
hCoV-19/England/20139047104/2020 (EPI_ISL_420692) (0.6)
hCoV-19/Sri Lanka/COV486/2020 (MT371050) (0.6)
hCoV-19/England/20132018904/2020 (EPI_ISL_423735) (0.6)
hCoV-19/England/CAMB-74438/2020 (EPI_ISL_425290) (0.6)
hCoV-19/Belgium/UGent-9/2020 (EPI_ISL_425053) (0.6)
hCoV-19/Australia/VIC661/2020 (MT451461) (0.6)
hCoV-19/USA/MA_1355/2020 (EPI_ISL_424913) (0.6)
hCoV-19/Brazil/SPBR-11/2020 (EPI_ISL_416033)EPI_ISL_4244722020-03-03 SNP:
1440: G>A (174 strain(s) in DB)
2891: G>A (171 strain(s) in DB)

Deletions:
29866: ATGACAAAAAAAAAAAAAAA...>A (422 strain(s) in DB)

hCoV-19/Senegal/306/2020 (EPI_ISL_420069) (0.67)
hCoV-19/Germany/NRW-02.1/2020 (MT582498) (0.67)
hCoV-19/Germany/NRW-14/2020 (MT582486) (0.67)
hCoV-19/Germany/NRW-16/2020 (MT582484) (0.67)
hCoV-19/Germany/NRW-06/2020 (MT582494) (0.67)
hCoV-19/Germany/NRW-17/2020 (MT582483) (0.67)
hCoV-19/Scotland/EDB097/2020 (EPI_ISL_425887) (0.67)
hCoV-19/Belgium/Human/CS-031052/2020 (EPI_ISL_418800) (0.6)
hCoV-19/Belgium/MJP-0306100/2020 (EPI_ISL_420356) (0.6)
hCoV-19/Belgium/ULG-10028/2020 (EPI_ISL_421202) (0.5)
hCoV-19/Iceland/448/2020 (0.5)
hCoV-19/Brazil/SPBR-12/2020 (EPI_ISL_416034)EPI_ISL_4220482020-03-04 SNP:
241: C>T (7669 strain(s) in DB)
3037: C>T (7693 strain(s) in DB)
10265: G>A (16 strain(s) in DB)
11083: G>T (1220 strain(s) in DB)
14408: C>T (7704 strain(s) in DB)
23403: A>G (7732 strain(s) in DB)
28881: G>A (2045 strain(s) in DB)
28882: G>A (2040 strain(s) in DB)
28883: G>C (2036 strain(s) in DB)
29868: G>T (177 strain(s) in DB)

Deletions:
29871: AAAAAAAAAAAAAAAAAAAA...>A (158 strain(s) in DB)

hCoV-19/Wales/PHWC-29E34/2020 (EPI_ISL_432205) (0.73)
hCoV-19/USA/NY-NYUMC112/2020 (EPI_ISL_421724) (0.73)
hCoV-19/Denmark/ALAB-SSI384/2020 (EPI_ISL_429484) (0.73)
hCoV-19/Sweden/20-08149/2020 (EPI_ISL_429120) (0.67)
hCoV-19/Czech Republic/2308/2020 (EPI_ISL_434572) (0.67)
hCoV-19/Germany/BAV-MVP0089/2020 (EPI_ISL_437283) (0.67)
hCoV-19/England/CAMB-78382/2020 (EPI_ISL_433724) (0.64)
hCoV-19/England/CAMB-78847/2020 (EPI_ISL_433780) (0.64)
hCoV-19/England/CAMB-786C5/2020 (EPI_ISL_433763) (0.64)
hCoV-19/England/CAMB-7867A/2020 (EPI_ISL_433760) (0.64)
hCoV-19/Wales/PHWC-26918/2020 (EPI_ISL_422048) (0.64)
hCoV-19/Brazil/SPBR-13/2020 (EPI_ISL_416035)EPI_ISL_4160352020-03-05 SNP:
241: C>T (7669 strain(s) in DB)
313: C>T (124 strain(s) in DB)
3037: C>T (7693 strain(s) in DB)
14408: C>T (7704 strain(s) in DB)
23403: A>G (7732 strain(s) in DB)
28881: G>A (2045 strain(s) in DB)
28882: G>A (2040 strain(s) in DB)
28883: G>C (2036 strain(s) in DB)

Deletions:
29890: AAAAAAAAAAAAAA>A (27 strain(s) in DB)

hCoV-19/Brazil/SPBR-14/2020 (EPI_ISL_416036)EPI_ISL_4414102020-03-05 SNP:
241: C>T (7669 strain(s) in DB)
3037: C>T (7693 strain(s) in DB)
14408: C>T (7704 strain(s) in DB)
23403: A>G (7732 strain(s) in DB)
25088: G>T (7 strain(s) in DB)
28881: G>A (2045 strain(s) in DB)
28882: G>A (2040 strain(s) in DB)
28883: G>C (2036 strain(s) in DB)

Deletions:
1: AATTAAAGGTTTATACCT>- (4882 strain(s) in DB)
22927: GT>G (7 strain(s) in DB)
29866: ATGACAAAAAAAAAAAAAAA...>A (422 strain(s) in DB)

hCoV-19/England/CAMB-71E4C/2020 (EPI_ISL_439602) (0.82)
hCoV-19/England/CAMB-7A3EA/2020 (EPI_ISL_440566) (0.82)
hCoV-19/Scotland/CVR68/2020 (EPI_ISL_425799) (0.75)
hCoV-19/England/CAMB-7A7A2/2020 (EPI_ISL_441255) (0.75)
hCoV-19/Switzerland/GE1402/2020 (EPI_ISL_415700) (0.75)
hCoV-19/Belgium/MAC-0324142/2020 (EPI_ISL_420399) (0.75)
hCov-19/Israel/ISR_IT0320/2020 (MT276598) (0.75)
hCoV-19/Belgium/PC-0325147/2020 (EPI_ISL_420404) (0.75)
hCoV-19/Belgium/BEG-0323154/2020 (EPI_ISL_420411) (0.75)
hCoV-19/Belgium/FMC-0323159/2020 (EPI_ISL_420416) (0.75)
hCoV-19/Northern Ireland/NIRE-1023D7/2020 (EPI_ISL_441410) (0.73)
hCoV-19/Hangzhou/ZJU-02/2020 (EPI_ISL_416042)CNA00138822020-01-26 SNP:
3: T>G (52 strain(s) in DB)
7: G>A (27 strain(s) in DB)
8: G>T (40 strain(s) in DB)
8782: C>T (1672 strain(s) in DB)
28144: T>C (1654 strain(s) in DB)

Insertions:
9: T>T... (22 strain(s) in DB)

Indels:
1: A>AAGAGTGCTTA (4882 strain(s) in DB)

hCoV-19/Hangzhou/ZJU-05/2020 (EPI_ISL_415711) (0.71)
SARS-CoV-2/WH-09/human/2020/CHN (MT093631) (0.56)
hCoV-19/USA/WA-UW67/2020 (MT252793) (0.46)
hCoV-19/Hangzhou/ZJU-07/2020 (EPI_ISL_416425) (0.42)
hCoV-19/Chile/Talca-1/2020 (EPI_ISL_414577) (0.4)
hCoV-19/USA/WA-UW188/2020 (MT252702) (0.38)
hCoV-19/Guangzhou/GZMU0050/2020 (CNA0013947) (0.38)
hCoV-19/Shangrao/JX1948/2020 (EPI_ISL_421240) (0.38)
hCoV-19/China/WF0020/2020 (CNA0013880) (0.38)
hCoV-19/Nanchang/JX149/2020 (EPI_ISL_421247) (0.38)
hCoV-19/China/WF0018/2020 (CNA0013882) (0.38)
hCoV-19/Hangzhou/ZJU-03/2020 (EPI_ISL_416044)EPI_ISL_4273972020-01-25 SNP:
2: T>C (55 strain(s) in DB)
4: A>G (66 strain(s) in DB)
5: A>G (24 strain(s) in DB)
8: G>T (40 strain(s) in DB)
12: A>C (48 strain(s) in DB)
16846: G>T (6 strain(s) in DB)

Indels:
1: A>A... (4882 strain(s) in DB)
10: T>CAGACGTGTGCTCTTCCGA (31 strain(s) in DB)

Guangzhou/GZ8H0004/2020 (CNA0013700) (0.5)
hCoV-19/Hangzhou/ZJU-06/2020 (EPI_ISL_416047) (0.46)
hCoV-19/Hangzhou/ZJU-04/2020 (EPI_ISL_416046) (0.4)
hCoV-19/Hangzhou/ZJU-09/2020 (0.36)
hCoV-19/Guangzhou/GZMU0034/2020 (CNA0013939) (0.33)
hCoV-19/Guangzhou/GZMU0010/2020 (CNA0013930) (0.33)
hCoV-19/Malaysia/IMR_WC1170/2020 (EPI_ISL_430440) (0.33)
hCoV-19/Saudi Arabia/KAUST-MAKKAH165/2020 (EPI_ISL_437478) (0.3)
hCoV-19/Guangzhou/GZMU0041/2020 (CNA0013943) (0.27)
hCoV-19/Guangzhou/GZMU0050/2020 (CNA0013947) (0.27)
hCoV-19/Taiwan/TSGH-10/2020 (EPI_ISL_427397) (0.25)
hCoV-19/Hangzhou/ZJU-04/2020 (EPI_ISL_416046)EPI_ISL_4160462020-01-24 SNP:
3: T>G (52 strain(s) in DB)
4: A>G (66 strain(s) in DB)
8: G>A (40 strain(s) in DB)
10: T>C (31 strain(s) in DB)

Insertions:
6: A>A... (19 strain(s) in DB)

Indels:
1: A>A... (4882 strain(s) in DB)

hCoV-19/Hangzhou/ZJU-06/2020 (EPI_ISL_416047)CNA00139302020-02-02 SNP:
2: T>C (55 strain(s) in DB)
4: A>G (66 strain(s) in DB)
5: A>G (24 strain(s) in DB)
8: G>A (40 strain(s) in DB)
10: T>C (31 strain(s) in DB)
3885: C>A (10 strain(s) in DB)
12778: C>T (5 strain(s) in DB)
13270: T>C (4 strain(s) in DB)
29449: G>T (12 strain(s) in DB)

Insertions:
6: A>A... (19 strain(s) in DB)

Indels:
1: A>A... (4882 strain(s) in DB)

hCoV-19/Hangzhou/ZJU-03/2020 (EPI_ISL_416044) (0.46)
hCoV-19/Hangzhou/ZJU-04/2020 (EPI_ISL_416046) (0.42)
hCoV-19/Hangzhou/ZJU-09/2020 (0.38)
hCoV-19/Lishui/LS111/2020 (EPI_ISL_429852) (0.38)
hCoV-19/Lishui/LS556/2020 (EPI_ISL_429853) (0.36)
hCoV-19/Shanghai/SH0047/2020 (0.36)
Guangzhou/GZ8H0004/2020 (CNA0013700) (0.33)
hCoV-19/Guangzhou/GZMU0041/2020 (CNA0013943) (0.29)
hCoV-19/Guangzhou/GZMU0034/2020 (CNA0013939) (0.25)
hCoV-19/Malaysia/IMR_WC1170/2020 (EPI_ISL_430440) (0.25)
hCoV-19/Guangzhou/GZMU0010/2020 (CNA0013930) (0.25)
hCoV-19/Denmark/SSI-05/2020 (EPI_ISL_416140)EPI_ISL_4161402020-03-02 SNP:
241: C>T (7669 strain(s) in DB)
3037: C>T (7693 strain(s) in DB)
4002: C>T (62 strain(s) in DB)
10097: G>A (133 strain(s) in DB)
13536: C>T (82 strain(s) in DB)
14408: C>T (7704 strain(s) in DB)
23403: A>G (7732 strain(s) in DB)
23731: C>T (139 strain(s) in DB)
28881: G>A (2045 strain(s) in DB)
28882: G>A (2040 strain(s) in DB)
28883: G>C (2036 strain(s) in DB)

Deletions:
1: AATTAAAGGTTTATACCTTC...>- (4882 strain(s) in DB)
29862: GAGAATGACAAAAAAAAAAA...>G (145 strain(s) in DB)

hCoV-19/Denmark/SSI-09/2020 (EPI_ISL_416141)EPI_ISL_4221122020-03-03 SNP:
241: C>T (7669 strain(s) in DB)
3037: C>T (7693 strain(s) in DB)
14408: C>T (7704 strain(s) in DB)
23403: A>G (7732 strain(s) in DB)

Deletions:
1: AATTAAAGGTTTATACCTTC...>- (4882 strain(s) in DB)
29854: CTTCTTAGGAGAATGACAAA...>C (35 strain(s) in DB)

hCoV-19/Spain/Valencia173/2020 (EPI_ISL_436268) (0.86)
SARS-CoV-2/human/USA/MI-MDHHS-SC20171/2020 (MT439251) (0.86)
hCoV-19/Australia/VIC174/2020 (MT451077) (0.83)
hCoV-19/Wales/PHWC-29E07/2020 (EPI_ISL_432267) (0.83)
hCoV-19/Wales/PHWC-2672D/2020 (EPI_ISL_422027) (0.83)
hCoV-19/Wales/PHWC-27267/2020 (EPI_ISL_432307) (0.83)
hCoV-19/Australia/VIC198/2020 (MT451100) (0.83)
hCoV-19/Wales/PHWC-26F8F/2020 (EPI_ISL_422140) (0.83)
hCoV-19/Australia/VIC92/2020 (MT451002) (0.83)
hCoV-19/Wales/PHWC-2B04B/2020 (EPI_ISL_432271) (0.83)
hCoV-19/Wales/PHWC-26417/2020 (EPI_ISL_422112) (0.83)
hCoV-19/Denmark/SSI-01/2020 (EPI_ISL_416142)EPI_ISL_4224272020-02-26 SNP:
241: C>T (7669 strain(s) in DB)
3037: C>T (7693 strain(s) in DB)
14408: C>T (7704 strain(s) in DB)
23116: A>T (12 strain(s) in DB)
23403: A>G (7732 strain(s) in DB)
28881: G>A (2045 strain(s) in DB)
28882: G>A (2040 strain(s) in DB)
28883: G>C (2036 strain(s) in DB)

Deletions:
1: AATTAAAGGTTTATACCTTC...>- (4882 strain(s) in DB)
29868: GACAAAAAAAAAAAAAAAAA...>G (177 strain(s) in DB)

hCoV-19/Czech Republic/2308/2020 (EPI_ISL_434572) (0.9)
hCoV-19/England/CAMB-75ABD/2020 (EPI_ISL_438311) (0.82)
hCoV-19/Australia/VIC219/2020 (MT451120) (0.8)
hCoV-19/Wales/PHWC-2649F/2020 (EPI_ISL_422032) (0.8)
hCoV-19/Turkey/HSGM-1428/2020 (EPI_ISL_437311) (0.8)
hCoV-19/Northern Ireland/NIRE-102094/2020 (EPI_ISL_441375) (0.8)
hCoV-19/Northern Ireland/NIRE-101F7A/2020 (EPI_ISL_441360) (0.8)
hCoV-19/Wales/PHWC-26981/2020 (EPI_ISL_422023) (0.8)
hCoV-19/Wales/PHWC-29D55/2020 (EPI_ISL_432244) (0.8)
hCoV-19/Australia/VIC109/2020 (MT451018) (0.8)
hCoV-19/Kuwait/KU008/2020 (EPI_ISL_422427) (0.8)
hCoV-19/Denmark/SSI-02/2020 (EPI_ISL_416143)EPI_ISL_4322712020-02-28 SNP:
241: C>T (7669 strain(s) in DB)
3037: C>T (7693 strain(s) in DB)
13402: T>G (54 strain(s) in DB)
14408: C>T (7704 strain(s) in DB)
23403: A>G (7732 strain(s) in DB)

Deletions:
1: AATTAAAGGTTTATACCTTC...>- (4882 strain(s) in DB)
29867: TGACAAAAAAAAAAAAAAAA...>T (123 strain(s) in DB)

hCoV-19/Denmark/SSI-03/2020 (EPI_ISL_416144) (0.75)
hCoV-19/Australia/VIC141/2020 (MT451045) (0.71)
hCoV-19/Wales/PHWC-29E07/2020 (EPI_ISL_432267) (0.71)
hCoV-19/Wales/PHWC-27267/2020 (EPI_ISL_432307) (0.71)
hCoV-19/Australia/VIC198/2020 (MT451100) (0.71)
hCoV-19/Wales/PHWC-2672D/2020 (EPI_ISL_422027) (0.71)
hCoV-19/Australia/VIC174/2020 (MT451077) (0.71)
hCoV-19/Wales/PHWC-26417/2020 (EPI_ISL_422112) (0.71)
hCoV-19/Wales/PHWC-26F8F/2020 (EPI_ISL_422140) (0.71)
hCoV-19/Australia/VIC92/2020 (MT451002) (0.71)
hCoV-19/Wales/PHWC-2B04B/2020 (EPI_ISL_432271) (0.71)
hCoV-19/Denmark/SSI-03/2020 (EPI_ISL_416144)MT4511002020-03-01 SNP:
241: C>T (7669 strain(s) in DB)
3037: C>T (7693 strain(s) in DB)
7392: C>T (2 strain(s) in DB)
14408: C>T (7704 strain(s) in DB)
23403: A>G (7732 strain(s) in DB)

Deletions:
1: AATTAAAGGTTTATACCTTC...>- (4882 strain(s) in DB)
29867: TGACAAAAAAAAAAAAAAAA...>T (123 strain(s) in DB)

hCoV-19/Denmark/SSI-02/2020 (EPI_ISL_416143) (0.75)
hCoV-19/Wales/PHWC-29E07/2020 (EPI_ISL_432267) (0.71)
hCoV-19/Australia/VIC92/2020 (MT451002) (0.71)
hCoV-19/Wales/PHWC-26F8F/2020 (EPI_ISL_422140) (0.71)
hCoV-19/Australia/VIC141/2020 (MT451045) (0.71)
hCoV-19/Wales/PHWC-26417/2020 (EPI_ISL_422112) (0.71)
hCoV-19/Wales/PHWC-27267/2020 (EPI_ISL_432307) (0.71)
hCoV-19/Australia/VIC174/2020 (MT451077) (0.71)
hCoV-19/Wales/PHWC-2B04B/2020 (EPI_ISL_432271) (0.71)
hCoV-19/Wales/PHWC-2672D/2020 (EPI_ISL_422027) (0.71)
hCoV-19/Australia/VIC198/2020 (MT451100) (0.71)
hCoV-19/Denmark/SSI-04/2020 (EPI_ISL_416153)EPI_ISL_4204522020-03-02 SNP:
30: A>T (8 strain(s) in DB)
187: A>G (94 strain(s) in DB)
241: C>T (7669 strain(s) in DB)
3037: C>T (7693 strain(s) in DB)
13402: T>G (54 strain(s) in DB)
14408: C>T (7704 strain(s) in DB)
20891: T>G (2 strain(s) in DB)
23403: A>G (7732 strain(s) in DB)

Deletions:
1: AATTAAAGGTTTATACCTTC...>- (4882 strain(s) in DB)
29866: ATGACAAAAAAAAAAAAAAA...>A (422 strain(s) in DB)

hCoV-19/Belgium/DPG-0325123/2020 (EPI_ISL_420380) (0.64)
hCoV-19/Belgium/LV-0324133/2020 (EPI_ISL_420390) (0.64)
hCoV-19/Belgium/GMJ-0324132/2020 (EPI_ISL_420389) (0.64)
hCoV-19/Belgium/FFJ-0324124/2020 (EPI_ISL_420381) (0.64)
hCoV-19/Belgium/NML-0325127/2020 (EPI_ISL_420384) (0.64)
hCoV-19/Belgium/VDLH-030548/2020/P2 (EPI_ISL_418796) (0.6)
hCoV-19/Belgium/VDLH-030548/2020/P1 (EPI_ISL_418797) (0.6)
hCoV-19/Belgium/MC-0323129/2020 (EPI_ISL_420386) (0.58)
hCoV-19/Belgium/CF-0324119/2020 (EPI_ISL_420376) (0.58)
hCoV-19/Belgium/MS-0324134/2020 (EPI_ISL_420391) (0.58)
hCoV-19/Belgium/RDC-030961/2020 (EPI_ISL_420452) (0.58)
hCoV-19/Hong Kong/CUHK1/2020EPI_ISL_4163142020-02-07
hCoV-19/Hong Kong/CUHK2/2020EPI_ISL_4163152020-02-19
hCoV-19/Shanghai/SH0002/2020EPI_ISL_4163162020-01-25 SNP:
8782: C>T (1672 strain(s) in DB)
28144: T>C (1654 strain(s) in DB)
28878: G>A (75 strain(s) in DB)
29742: G>A (236 strain(s) in DB)

Deletions:
1: AATTAAAGGTTTATACCTTC...>- (4882 strain(s) in DB)
29866: ATGACAAAAAAAAAAAAAAA...>A (422 strain(s) in DB)

hCoV-19/Shanghai/SH0003/2020EPI_ISL_4163172020-01-25 SNP:
37: C>T (206 strain(s) in DB)
8782: C>T (1672 strain(s) in DB)
28144: T>C (1654 strain(s) in DB)
28878: G>A (75 strain(s) in DB)
29742: G>A (236 strain(s) in DB)

Deletions:
1: AATTAAAGGTTTATACCTTC...>- (4882 strain(s) in DB)
29866: ATGACAAAAAAAAAAAAAAA...>A (422 strain(s) in DB)

hCoV-19/Shanghai/SH0004/2020EPI_ISL_4163182020-01-28 SNP:
8782: C>T (1672 strain(s) in DB)
23347: C>T (7 strain(s) in DB)
28144: T>C (1654 strain(s) in DB)
29095: C>T (58 strain(s) in DB)

Deletions:
1: AATTAAAGGTTTATACCTTC...>- (4882 strain(s) in DB)
29866: ATGACAAAAAAAAAAAAAAA...>A (422 strain(s) in DB)

hCoV-19/Shanghai/SH0005/2020EPI_ISL_4163192020-01-28 SNP:
8782: C>T (1672 strain(s) in DB)
28144: T>C (1654 strain(s) in DB)
29095: C>T (58 strain(s) in DB)

Deletions:
1: AATTAAAGGTTTATACCTTC...>- (4882 strain(s) in DB)
29866: ATGACAAAAAAAAAAAAAAA...>A (422 strain(s) in DB)

hCoV-19/Shanghai/SH0007/2020EPI_ISL_4163932020-01-28 SNP:
22695: A>G (1 strain(s) in DB)
24370: C>T (14 strain(s) in DB)
27554: T>C (2 strain(s) in DB)

Deletions:
1: AATTAAAGGTTTATACCTTC...>- (4882 strain(s) in DB)
29866: ATGACAAAAAAAAAAAAAAA...>A (422 strain(s) in DB)

hCoV-19/Shanghai/SH0119/2020 (0.4)
hCoV-19/Shanghai/SH0073/2020 (0.4)
hCoV-19/Hangzhou/HZCDC0135/2020 (EPI_ISL_421225) (0.4)
hCoV-19/Hangzhou/HZCDC0119/2020 (EPI_ISL_421226) (0.4)
hCoV-19/Hangzhou/HZCDC0091L/2020 (EPI_ISL_421227) (0.4)
hCoV-19/Hangzhou/HZCDC0090L/2020 (EPI_ISL_421229) (0.4)
hCoV-19/Hangzhou/HZCDC0049L/2020 (EPI_ISL_421231) (0.4)
hCoV-19/Hangzhou/HZCDC0048L/2020 (EPI_ISL_421232) (0.4)
hCoV-19/Hangzhou/HZCDC0048/2020 (EPI_ISL_421233) (0.4)
BetaCoV/Hangzhou/HZCDC0001/2020 (EPI_ISL_407313) (0.4)
hCoV-19/Shanghai/SH0101/2020 (0.33)
hCoV-19/Shanghai/SH0008/2020LC5709902020-01-28 SNP:
203: C>T (7 strain(s) in DB)
14889: C>T (11 strain(s) in DB)
21707: C>T (27 strain(s) in DB)
26533: C>T (15 strain(s) in DB)

Deletions:
1: AATTAAAGGTTTATACCTTC...>- (4882 strain(s) in DB)
29866: ATGACAAAAAAAAAAAAAAA...>A (422 strain(s) in DB)

hCoV-19/Hangzhou/HZCDC0135/2020 (EPI_ISL_421225) (0.33)
BetaCoV/Hangzhou/HZCDC0001/2020 (EPI_ISL_407313) (0.33)
hCoV-19/Shanghai/SH0073/2020 (0.33)
hCoV-19/Shanghai/SH0119/2020 (0.33)
hCoV-19/Hangzhou/HZCDC0048/2020 (EPI_ISL_421233) (0.33)
hCoV-19/Hangzhou/HZCDC0048L/2020 (EPI_ISL_421232) (0.33)
hCoV-19/Hangzhou/HZCDC0049L/2020 (EPI_ISL_421231) (0.33)
hCoV-19/Hangzhou/HZCDC0090L/2020 (EPI_ISL_421229) (0.33)
hCoV-19/Hangzhou/HZCDC0091L/2020 (EPI_ISL_421227) (0.33)
hCoV-19/Hangzhou/HZCDC0119/2020 (EPI_ISL_421226) (0.33)
hCoV-19/Japan/DP0294/2020 (LC570990) (0.29)
hCoV-19/Shanghai/SH0009/2020EPI_ISL_4163222020-01-29 SNP:
8782: C>T (1672 strain(s) in DB)
17372: C>T (2 strain(s) in DB)
28144: T>C (1654 strain(s) in DB)

Deletions:
1: AATTAAAGGTTTATACCTTC...>- (4882 strain(s) in DB)
29866: ATGACAAAAAAAAAAAAAAA...>A (422 strain(s) in DB)

hCoV-19/Shanghai/SH0010/2020EPI_ISL_4163232020-01-29 SNP:
3176: C>T (5 strain(s) in DB)
8782: C>T (1672 strain(s) in DB)
21855: C>T (7 strain(s) in DB)
28144: T>C (1654 strain(s) in DB)

Deletions:
1: AATTAAAGGTTTATACCTTC...>- (4882 strain(s) in DB)
29866: ATGACAAAAAAAAAAAAAAA...>A (422 strain(s) in DB)

hCoV-19/Shanghai/SH0011/2020EPI_ISL_4212262020-01-29 SNP:
12896: C>T (3 strain(s) in DB)
17373: C>T (23 strain(s) in DB)

Deletions:
1: AATTAAAGGTTTATACCTTC...>- (4882 strain(s) in DB)
29866: ATGACAAAAAAAAAAAAAAA...>A (422 strain(s) in DB)

BetaCoV/Hangzhou/HZCDC0001/2020 (EPI_ISL_407313) (0.5)
hCoV-19/Hangzhou/HZCDC0135/2020 (EPI_ISL_421225) (0.5)
hCoV-19/Shanghai/SH0073/2020 (0.5)
hCoV-19/Hangzhou/HZCDC0048/2020 (EPI_ISL_421233) (0.5)
hCoV-19/Hangzhou/HZCDC0048L/2020 (EPI_ISL_421232) (0.5)
hCoV-19/Shanghai/SH0119/2020 (0.5)
hCoV-19/Hangzhou/HZCDC0049L/2020 (EPI_ISL_421231) (0.5)
hCoV-19/Hangzhou/HZCDC0090L/2020 (EPI_ISL_421229) (0.5)
hCoV-19/Hangzhou/HZCDC0091L/2020 (EPI_ISL_421227) (0.5)
hCoV-19/Shanghai/SH0109/2020 (0.5)
hCoV-19/Hangzhou/HZCDC0119/2020 (EPI_ISL_421226) (0.5)
hCoV-19/Shanghai/SH0012/2020EPI_ISL_4163762020-02-02 SNP:
21853: G>A (5 strain(s) in DB)
26144: G>T (818 strain(s) in DB)

Deletions:
1: AATTAAAGGTTTATACCTTC...>- (4882 strain(s) in DB)
29866: ATGACAAAAAAAAAAAAAAA...>A (422 strain(s) in DB)

hCoV-19/Hangzhou/HZCDC0025/2020 (EPI_ISL_421234) (0.6)
SARS-CoV-2/human/THA/SI200893-NT/2020 (MT447154) (0.6)
hCoV-19/Hangzhou/HZCDC0048/2020 (EPI_ISL_421233) (0.5)
hCoV-19/Hangzhou/HZCDC0119/2020 (EPI_ISL_421226) (0.5)
hCoV-19/Hangzhou/HZCDC0090L/2020 (EPI_ISL_421229) (0.5)
hCoV-19/Hangzhou/HZCDC0091L/2020 (EPI_ISL_421227) (0.5)
hCoV-19/Shanghai/SH0119/2020 (0.5)
hCoV-19/Guangdong/20SF602/2020 (NMDC60013127-01) (0.5)
hCoV-19/Guangdong/20SF1136/2020 (NMDC60013105-01) (0.5)
hCoV-19/Belgium/DVG-0325146/2020 (EPI_ISL_420403) (0.5)
hCoV-19/Shanghai/SH0073/2020 (0.5)
hCoV-19/Shanghai/SH0013/2020EPI_ISL_4163262020-01-30 SNP:
8782: C>T (1672 strain(s) in DB)
28144: T>C (1654 strain(s) in DB)

Deletions:
1: AATTAAAGGTTTATACCTTC...>- (4882 strain(s) in DB)
29866: ATGACAAAAAAAAAAAAAAA...>A (422 strain(s) in DB)

hCoV-19/Shanghai/SH0014/2020EPI_ISL_4163272020-01-28
hCoV-19/Shanghai/SH0017/2020EPI_ISL_4163282020-02-01
hCoV-19/Shanghai/SH0020/2020EPI_ISL_4163292020-02-01
hCoV-19/Shanghai/SH0021/2020EPI_ISL_4163302020-02-02 SNP:
8782: C>T (1672 strain(s) in DB)
15480: C>T (13 strain(s) in DB)
25767: G>T (6 strain(s) in DB)
28144: T>C (1654 strain(s) in DB)

Deletions:
1: AATTAAAGGTTTATACCTTC...>- (4882 strain(s) in DB)
29866: ATGACAAAAAAAAAAAAAAA...>A (422 strain(s) in DB)

hCoV-19/China/Shanghai/SH0022MT4514332020-01-30 SNP:
1397: G>A (164 strain(s) in DB)
10323: A>G (88 strain(s) in DB)
11074: C>T (49 strain(s) in DB)
11083: G>T (1220 strain(s) in DB)
28688: T>C (152 strain(s) in DB)
29742: G>T (236 strain(s) in DB)

Deletions:
1: AATTAAAGGTTTATACCTTC...>- (4882 strain(s) in DB)
29866: ATGACAAAAAAAAAAAAAAA...>A (422 strain(s) in DB)

hCoV-19/Shanghai/SH0023/2020 (1)
hCoV-19/Shanghai/SH0070/2020 (0.6)
hCoV-19/Australia/QLD09/2020 (EPI_ISL_414414) (0.6)
hCoV-19/Australia/VIC66/2020 (MT450980) (0.56)
hCoV-19/Australia/VIC97/2020 (MT451007) (0.56)
hCoV-19/Kuwait/KU17/2020 (EPI_ISL_416542) (0.56)
hCoV-19/Australia/VIC58/2020 (MT450973) (0.56)
hCoV-19/Turkey/HSGM-4598/2020 (EPI_ISL_429868) (0.55)
hCoV-19/Turkey/HSGM-11518/2020 (EPI_ISL_429872) (0.5)
hCoV-19/Canada/BC_4078583/2020 (EPI_ISL_418824) (0.5)
hCoV-19/Australia/VIC627/2020 (MT451433) (0.5)
hCoV-19/Shanghai/SH0023/2020MT4514332020-01-30 SNP:
1397: G>A (164 strain(s) in DB)
10323: A>G (88 strain(s) in DB)
11074: C>T (49 strain(s) in DB)
11083: G>T (1220 strain(s) in DB)
28688: T>C (152 strain(s) in DB)
29742: G>T (236 strain(s) in DB)

Deletions:
1: AATTAAAGGTTTATACCTTC...>- (4882 strain(s) in DB)
29866: ATGACAAAAAAAAAAAAAAA...>A (422 strain(s) in DB)

hCoV-19/China/Shanghai/SH0022 (1)
hCoV-19/Shanghai/SH0070/2020 (0.6)
hCoV-19/Australia/QLD09/2020 (EPI_ISL_414414) (0.6)
hCoV-19/Australia/VIC66/2020 (MT450980) (0.56)
hCoV-19/Australia/VIC97/2020 (MT451007) (0.56)
hCoV-19/Kuwait/KU17/2020 (EPI_ISL_416542) (0.56)
hCoV-19/Australia/VIC58/2020 (MT450973) (0.56)
hCoV-19/Turkey/HSGM-4598/2020 (EPI_ISL_429868) (0.55)
hCoV-19/Turkey/HSGM-11518/2020 (EPI_ISL_429872) (0.5)
hCoV-19/Canada/BC_4078583/2020 (EPI_ISL_418824) (0.5)
hCoV-19/Australia/VIC627/2020 (MT451433) (0.5)
hCoV-19/Shanghai/SH0024/2020EPI_ISL_4163332020-01-30 SNP:
8782: C>T (1672 strain(s) in DB)
28144: T>C (1654 strain(s) in DB)

Deletions:
1: AATTAAAGGTTTATACCTTC...>- (4882 strain(s) in DB)
29866: ATGACAAAAAAAAAAAAAAA...>A (422 strain(s) in DB)

hCoV-19/Shanghai/SH0025/2020EPI_ISL_4203622020-02-06 SNP:
241: C>T (7669 strain(s) in DB)
1555: C>A (2 strain(s) in DB)
3037: C>T (7693 strain(s) in DB)
9238: A>G (1 strain(s) in DB)
23403: A>G (7732 strain(s) in DB)

Deletions:
1: AATTAAAGGTTTATACCTTC...>- (4882 strain(s) in DB)
29866: ATGACAAAAAAAAAAAAAAA...>A (422 strain(s) in DB)

hCoV-19/Belgium/KKN-0319184/2020 (EPI_ISL_420366) (0.71)
hCoV-19/Belgium/VDLH-030548/2020/P2 (EPI_ISL_418796) (0.63)
hCoV-19/Belgium/UM-0318103/2020 (EPI_ISL_420359) (0.63)
hCoV-19/Belgium/VDLH-030548/2020/P1 (EPI_ISL_418797) (0.63)
hCoV-19/Belgium/DJMG-0325156/2020 (EPI_ISL_420413) (0.56)
hCoV-19/Belgium/GM-0323139/2020 (EPI_ISL_420396) (0.56)
hCoV-19/Scotland/CVR72/2020 (EPI_ISL_425803) (0.56)
hCoV-19/Belgium/DA-030691/2020 (EPI_ISL_420347) (0.56)
hCoV-19/Belgium/OT-0319109/2020 (EPI_ISL_420365) (0.56)
hCoV-19/Belgium/DCS-030796/2020 (EPI_ISL_420352) (0.56)
hCoV-19/Belgium/DA-0319106/2020 (EPI_ISL_420362) (0.56)
hCoV-19/Shanghai/SH0026/2020EPI_ISL_4163302020-02-02 SNP:
207: C>T (5 strain(s) in DB)
946: T>C (5 strain(s) in DB)
6363: C>T (15 strain(s) in DB)
8782: C>T (1672 strain(s) in DB)
11430: A>G (4 strain(s) in DB)
28144: T>C (1654 strain(s) in DB)

Deletions:
1: AATTAAAGGTTTATACCTTC...>- (4882 strain(s) in DB)
29866: ATGACAAAAAAAAAAAAAAA...>A (422 strain(s) in DB)

hCoV-19/China/WF0012/2020 (CNA0013886) (0.67)
hCoV-19/China/WF0026/2020 (CNA0013877) (0.67)
hCoV-19/China/WF0028/2020 (CNA0013876) (0.55)
hCoV-19/Shanghai/SH0043/2020 (0.5)
hCoV-19/Shanghai/SH0024/2020 (0.5)
hCoV-19/Shanghai/SH0013/2020 (0.5)
hCoV-19/Shanghai/SH0074/2020 (0.44)
hCoV-19/Shanghai/SH0115/2020 (0.44)
hCoV-19/Shanghai/SH0005/2020 (0.44)
hCoV-19/Shanghai/SH0009/2020 (0.44)
hCoV-19/Shanghai/SH0021/2020 (0.4)
hCoV-19/Shanghai/SH0027/2020EPI_ISL_4163932020-02-01 SNP:
49: T>A (1 strain(s) in DB)
14676: C>T (9 strain(s) in DB)
28826: C>T (19 strain(s) in DB)

Deletions:
1: AATTAAAGGTTTATACCTTC...>- (4882 strain(s) in DB)
29866: ATGACAAAAAAAAAAAAAAA...>A (422 strain(s) in DB)

BetaCoV/Hangzhou/HZCDC0001/2020 (EPI_ISL_407313) (0.4)
hCoV-19/Shanghai/SH0073/2020 (0.4)
hCoV-19/Hangzhou/HZCDC0135/2020 (EPI_ISL_421225) (0.4)
hCoV-19/Hangzhou/HZCDC0119/2020 (EPI_ISL_421226) (0.4)
hCoV-19/Hangzhou/HZCDC0091L/2020 (EPI_ISL_421227) (0.4)
hCoV-19/Hangzhou/HZCDC0090L/2020 (EPI_ISL_421229) (0.4)
hCoV-19/Hangzhou/HZCDC0049L/2020 (EPI_ISL_421231) (0.4)
hCoV-19/Hangzhou/HZCDC0048L/2020 (EPI_ISL_421232) (0.4)
hCoV-19/Hangzhou/HZCDC0048/2020 (EPI_ISL_421233) (0.4)
hCoV-19/Shanghai/SH0119/2020 (0.4)
hCoV-19/Shanghai/SH0101/2020 (0.33)
hCoV-19/Shanghai/SH0028/2020EPI_ISL_4163372020-02-04 SNP:
14823: A>T (1 strain(s) in DB)

Deletions:
1: AATTAAAGGTTTATACCTTC...>- (4882 strain(s) in DB)
29866: ATGACAAAAAAAAAAAAAAA...>A (422 strain(s) in DB)

hCoV-19/Shanghai/SH0029/2020EPI_ISL_4261832020-02-01 SNP:
8782: C>T (1672 strain(s) in DB)
24034: C>T (180 strain(s) in DB)
26729: T>C (163 strain(s) in DB)
28077: G>C (188 strain(s) in DB)
28144: T>C (1654 strain(s) in DB)

Deletions:
1: AATTAAAGGTTTATACCTTC...>- (4882 strain(s) in DB)
29866: ATGACAAAAAAAAAAAAAAA...>A (422 strain(s) in DB)

hCoV-19/Shanghai/SH0032/2020 (1)
hCoV-19/Shanghai/SH0079/2020 (1)
hCoV-19/Shanghai/SH0128/2020 (0.88)
hCoV-19/Guangdong/20SF115/2020 (NMDC60013106-01) (0.75)
hCoV-19/Shanghai/SH0013/2020 (0.57)
hCoV-19/Shanghai/SH0043/2020 (0.57)
hCoV-19/Shanghai/SH0024/2020 (0.57)
Sichuan/IVDC-SC-001/2020 (NMDC60013079-01) (0.56)
BetaCoV/HongKong/VM20001061/2020 (MT644268) (0.55)
hCoV-19/Korea/KCDC2012/2020 (EPI_ISL_426182) (0.55)
hCoV-19/Korea/KCDC2013/2020 (EPI_ISL_426183) (0.55)
hCoV-19/Shanghai/SH0030/2020EPI_ISL_4163162020-02-03 SNP:
4655: C>T (8 strain(s) in DB)
8782: C>T (1672 strain(s) in DB)
9890: G>T (1 strain(s) in DB)
20527: G>T (1 strain(s) in DB)
28144: T>C (1654 strain(s) in DB)

Deletions:
1: AATTAAAGGTTTATACCTTC...>- (4882 strain(s) in DB)
29866: ATGACAAAAAAAAAAAAAAA...>A (422 strain(s) in DB)

hCoV-19/Shanghai/SH0013/2020 (0.57)
hCoV-19/Shanghai/SH0024/2020 (0.57)
hCoV-19/Shanghai/SH0043/2020 (0.57)
hCoV-19/Shanghai/SH0074/2020 (0.5)
hCoV-19/Shanghai/SH0009/2020 (0.5)
hCoV-19/Shanghai/SH0005/2020 (0.5)
hCoV-19/Shanghai/SH0115/2020 (0.5)
hCoV-19/Shanghai/SH0021/2020 (0.44)
hCoV-19/Shanghai/SH0069/2020 (0.44)
hCoV-19/Shanghai/SH0010/2020 (0.44)
hCoV-19/Shanghai/SH0002/2020 (0.44)
hCoV-19/Shanghai/SH0031/2020EPI_ISL_4163932020-02-02 SNP:
3768: C>T (9 strain(s) in DB)
16474: A>G (4 strain(s) in DB)

Deletions:
1: AATTAAAGGTTTATACCTTC...>- (4882 strain(s) in DB)
29866: ATGACAAAAAAAAAAAAAAA...>A (422 strain(s) in DB)

hCoV-19/Hangzhou/HZCDC0048L/2020 (EPI_ISL_421232) (0.5)
hCoV-19/Shanghai/SH0119/2020 (0.5)
hCoV-19/Hangzhou/HZCDC0135/2020 (EPI_ISL_421225) (0.5)
hCoV-19/Hangzhou/HZCDC0119/2020 (EPI_ISL_421226) (0.5)
hCoV-19/Hangzhou/HZCDC0091L/2020 (EPI_ISL_421227) (0.5)
hCoV-19/Shanghai/SH0073/2020 (0.5)
hCoV-19/Hangzhou/HZCDC0090L/2020 (EPI_ISL_421229) (0.5)
hCoV-19/Hangzhou/HZCDC0049L/2020 (EPI_ISL_421231) (0.5)
hCoV-19/Hangzhou/HZCDC0048/2020 (EPI_ISL_421233) (0.5)
BetaCoV/Hangzhou/HZCDC0001/2020 (EPI_ISL_407313) (0.5)
hCoV-19/Shanghai/SH0101/2020 (0.4)
hCoV-19/Shanghai/SH0032/2020EPI_ISL_4261832020-02-01 SNP:
8782: C>T (1672 strain(s) in DB)
24034: C>T (180 strain(s) in DB)
26729: T>C (163 strain(s) in DB)
28077: G>C (188 strain(s) in DB)
28144: T>C (1654 strain(s) in DB)

Deletions:
1: AATTAAAGGTTTATACCTTC...>- (4882 strain(s) in DB)
29866: ATGACAAAAAAAAAAAAAAA...>A (422 strain(s) in DB)

hCoV-19/Shanghai/SH0029/2020 (1)
hCoV-19/Shanghai/SH0079/2020 (1)
hCoV-19/Shanghai/SH0128/2020 (0.88)
hCoV-19/Guangdong/20SF115/2020 (NMDC60013106-01) (0.75)
hCoV-19/Shanghai/SH0013/2020 (0.57)
hCoV-19/Shanghai/SH0043/2020 (0.57)
hCoV-19/Shanghai/SH0024/2020 (0.57)
Sichuan/IVDC-SC-001/2020 (NMDC60013079-01) (0.56)
BetaCoV/HongKong/VM20001061/2020 (MT644268) (0.55)
hCoV-19/Korea/KCDC2012/2020 (EPI_ISL_426182) (0.55)
hCoV-19/Korea/KCDC2013/2020 (EPI_ISL_426183) (0.55)
hCoV-19/Shanghai/SH0033/2020EPI_ISL_4212262020-02-04 SNP:
871: A>G (1 strain(s) in DB)
3027: A>G (1 strain(s) in DB)
3787: C>T (17 strain(s) in DB)
11083: G>T (1220 strain(s) in DB)

Deletions:
1: AATTAAAGGTTTATACCTTC...>- (4882 strain(s) in DB)
29866: ATGACAAAAAAAAAAAAAAA...>A (422 strain(s) in DB)

hCoV-19/Japan/DP0294/2020 (LC570990) (0.5)
hCoV-19/Hangzhou/HZCDC0012/2020 (EPI_ISL_421236) (0.43)
hCoV-19/Hangzhou/HZCDC0013/2020 (EPI_ISL_421235) (0.43)
hCoV-19/Japan/DP0236/2020 (LC570983) (0.38)
hCoV-19/Shanghai/SH0119/2020 (0.33)
hCoV-19/Hangzhou/HZCDC0048/2020 (EPI_ISL_421233) (0.33)
hCoV-19/Hangzhou/HZCDC0048L/2020 (EPI_ISL_421232) (0.33)
hCoV-19/Hangzhou/HZCDC0049L/2020 (EPI_ISL_421231) (0.33)
hCoV-19/Hangzhou/HZCDC0090L/2020 (EPI_ISL_421229) (0.33)
hCoV-19/Hangzhou/HZCDC0091L/2020 (EPI_ISL_421227) (0.33)
hCoV-19/Hangzhou/HZCDC0119/2020 (EPI_ISL_421226) (0.33)
hCoV-19/Shanghai/SH0034/2020EPI_ISL_4163432020-02-04
hCoV-19/Shanghai/SH0035/2020EPI_ISL_4163442020-01-30
hCoV-19/Shanghai/SH0036/2020EPI_ISL_4163452020-02-04
hCoV-19/Shanghai/SH0037/2020EPI_ISL_4163462020-01-30
hCoV-19/Shanghai/SH0038/2020EPI_ISL_4163472020-02-06
hCoV-19/Shanghai/SH0039/2020EPI_ISL_4163482020-02-06
hCoV-19/Shanghai/SH0040/2020EPI_ISL_4163492020-01-30
hCoV-19/Shanghai/SH0041/2020EPI_ISL_4163502020-01-29
hCoV-19/Shanghai/SH0042/2020EPI_ISL_4163512020-02-06
hCoV-19/Shanghai/SH0043/2020EPI_ISL_4163522020-01-30 SNP:
8782: C>T (1672 strain(s) in DB)
28144: T>C (1654 strain(s) in DB)

Deletions:
1: AATTAAAGGTTTATACCTTC...>- (4882 strain(s) in DB)
29866: ATGACAAAAAAAAAAAAAAA...>A (422 strain(s) in DB)

hCoV-19/Shanghai/SH0044/2020EPI_ISL_4163532020-02-04 SNP:
2293: G>T (8 strain(s) in DB)

Deletions:
1: AATTAAAGGTTTATACCTTC...>- (4882 strain(s) in DB)
29866: ATGACAAAAAAAAAAAAAAA...>A (422 strain(s) in DB)

hCoV-19/Shanghai/SH0045/2020EPI_ISL_4163542020-02-04
hCoV-19/Shanghai/SH0047/2020EPI_ISL_4212272020-02-04 SNP:
3885: C>A (10 strain(s) in DB)
12778: C>T (5 strain(s) in DB)
13270: T>C (4 strain(s) in DB)
23670: A>G (3 strain(s) in DB)
28340: T>C (3 strain(s) in DB)
29449: G>T (12 strain(s) in DB)

Deletions:
1: AATTAAAGGTTTATACCTTC...>- (4882 strain(s) in DB)
29866: ATGACAAAAAAAAAAAAAAA...>A (422 strain(s) in DB)

hCoV-19/Lishui/LS111/2020 (EPI_ISL_429852) (0.5)
hCoV-19/Lishui/LS556/2020 (EPI_ISL_429853) (0.45)
hCoV-19/Shanghai/SH0094/2020 (0.4)
hCoV-19/Hangzhou/ZJU-06/2020 (EPI_ISL_416047) (0.36)
hCoV-19/Hangzhou/HZCDC0048/2020 (EPI_ISL_421233) (0.25)
BetaCoV/Hangzhou/HZCDC0001/2020 (EPI_ISL_407313) (0.25)
hCoV-19/Shanghai/SH0073/2020 (0.25)
hCoV-19/Hangzhou/HZCDC0135/2020 (EPI_ISL_421225) (0.25)
hCoV-19/Hangzhou/HZCDC0119/2020 (EPI_ISL_421226) (0.25)
hCoV-19/Hangzhou/HZCDC0090L/2020 (EPI_ISL_421229) (0.25)
hCoV-19/Hangzhou/HZCDC0091L/2020 (EPI_ISL_421227) (0.25)
hCoV-19/Shanghai/SH0048/2020EPI_ISL_4163562020-02-01
hCoV-19/Shanghai/SH0049/2020EPI_ISL_4163572020-02-01
hCoV-19/Shanghai/SH0050/2020EPI_ISL_4163582020-02-05
hCoV-19/Shanghai/SH0051/2020EPI_ISL_4163592020-02-06
hCoV-19/Shanghai/SH0052/2020EPI_ISL_4163602020-02-01
hCoV-19/Shanghai/SH0053/2020EPI_ISL_4212322020-02-01 SNP:
15324: C>T (278 strain(s) in DB)
20383: G>T (2 strain(s) in DB)
29303: C>T (15 strain(s) in DB)

Deletions:
1: AATTAAAGGTTTATACCTTC...>- (4882 strain(s) in DB)
29866: ATGACAAAAAAAAAAAAAAA...>A (422 strain(s) in DB)

hCoV-19/Shanghai/SH0055/2020 (0.8)
hCoV-19/Shanghai/SH0088/2020 (0.67)
BetaCoV/Guangzhou/20SF206/2020 (NMDC60013012-01) (0.5)
Guangzhou/GZ8H0016/2020 (CNA0013708) (0.43)
hCoV-19/Hangzhou/HZCDC0135/2020 (EPI_ISL_421225) (0.4)
BetaCoV/Hangzhou/HZCDC0001/2020 (EPI_ISL_407313) (0.4)
hCoV-19/Shanghai/SH0073/2020 (0.4)
hCoV-19/Guangdong/GD2020246-P0028/2020 (0.4)
hCoV-19/Shanghai/SH0119/2020 (0.4)
hCoV-19/Hangzhou/HZCDC0048/2020 (EPI_ISL_421233) (0.4)
hCoV-19/Hangzhou/HZCDC0048L/2020 (EPI_ISL_421232) (0.4)
hCoV-19/Shanghai/SH0054/2020EPI_ISL_4163622020-02-02 SNP:
28845: G>T (7 strain(s) in DB)

Deletions:
1: AATTAAAGGTTTATACCTTC...>- (4882 strain(s) in DB)
29866: ATGACAAAAAAAAAAAAAAA...>A (422 strain(s) in DB)

hCoV-19/Shanghai/SH0055/2020EPI_ISL_4212332020-02-08 SNP:
15324: C>T (278 strain(s) in DB)
29303: C>T (15 strain(s) in DB)

Deletions:
1: AATTAAAGGTTTATACCTTC...>- (4882 strain(s) in DB)
29866: ATGACAAAAAAAAAAAAAAA...>A (422 strain(s) in DB)

hCoV-19/Shanghai/SH0088/2020 (0.8)
hCoV-19/Shanghai/SH0053/2020 (0.8)
BetaCoV/Guangzhou/20SF206/2020 (NMDC60013012-01) (0.6)
Guangzhou/GZ8H0016/2020 (CNA0013708) (0.5)
hCoV-19/Hangzhou/HZCDC0135/2020 (EPI_ISL_421225) (0.5)
hCoV-19/Hangzhou/HZCDC0119/2020 (EPI_ISL_421226) (0.5)
hCoV-19/Hangzhou/HZCDC0091L/2020 (EPI_ISL_421227) (0.5)
hCoV-19/Hangzhou/HZCDC0090L/2020 (EPI_ISL_421229) (0.5)
hCoV-19/Hangzhou/HZCDC0049L/2020 (EPI_ISL_421231) (0.5)
hCoV-19/Hangzhou/HZCDC0048L/2020 (EPI_ISL_421232) (0.5)
hCoV-19/Hangzhou/HZCDC0048/2020 (EPI_ISL_421233) (0.5)
hCoV-19/Shanghai/SH0056/2020EPI_ISL_4163642020-02-08
hCoV-19/Shanghai/SH0058/2020EPI_ISL_4212292020-01-30 SNP:
4463: T>C (1 strain(s) in DB)
4596: C>T (1 strain(s) in DB)
5084: A>G (8 strain(s) in DB)
7144: T>A (1 strain(s) in DB)
8800: T>C (1 strain(s) in DB)
28854: C>T (241 strain(s) in DB)

Deletions:
1: AATTAAAGGTTTATACCTTC...>- (4882 strain(s) in DB)
29866: ATGACAAAAAAAAAAAAAAA...>A (422 strain(s) in DB)

hCoV-19/Guangdong/20SF1153/2020 (NMDC60013108-01) (0.33)
hCoV-19/Canada/ON-VIDO-01/2020 (EPI_ISL_425177) (0.33)
BetaCoV/Canada/ON-PHL2445/2020 (EPI_ISL_413014) (0.33)
hCoV-19/Canada/ON_PHL4181/2020 (EPI_ISL_418327) (0.33)
hCoV-19/Hangzhou/HZCDC0049L/2020 (EPI_ISL_421231) (0.25)
hCoV-19/Shanghai/SH0073/2020 (0.25)
hCoV-19/Hangzhou/HZCDC0048/2020 (EPI_ISL_421233) (0.25)
BetaCoV/Hangzhou/HZCDC0001/2020 (EPI_ISL_407313) (0.25)
hCoV-19/Hangzhou/HZCDC0048L/2020 (EPI_ISL_421232) (0.25)
hCoV-19/Hangzhou/HZCDC0091L/2020 (EPI_ISL_421227) (0.25)
hCoV-19/Hangzhou/HZCDC0090L/2020 (EPI_ISL_421229) (0.25)
hCoV-19/Shanghai/SH0059/2020NMDC60013006-012020-01-30 SNP:
285: G>T (3 strain(s) in DB)
8782: C>T (1672 strain(s) in DB)
23986: T>C (2 strain(s) in DB)
25947: G>T (22 strain(s) in DB)
28144: T>C (1654 strain(s) in DB)
29095: C>T (58 strain(s) in DB)

Deletions:
1: AATTAAAGGTTTATACCTTC...>- (4882 strain(s) in DB)
29866: ATGACAAAAAAAAAAAAAAA...>A (422 strain(s) in DB)

hCoV-19/Shanghai/SH0005/2020 (0.63)
hCoV-19/Shanghai/SH0074/2020 (0.63)
hCoV-19/Shanghai/SH0004/2020 (0.56)
hCoV-19/Shanghai/SH0043/2020 (0.5)
hCoV-19/Shanghai/SH0024/2020 (0.5)
hCoV-19/Shanghai/SH0013/2020 (0.5)
hCoV-19/Shanghai/SH0009/2020 (0.44)
2019-nCoV_HKU-SZ-002a_2020 (0.44)
hCoV-19/Shanghai/SH0115/2020 (0.44)
BetaCoV/Guangdong/20SF012/2020 (NMDC60013005-01) (0.44)
BetaCoV/Guangdong/20SF013/2020 (NMDC60013006-01) (0.44)
hCoV-19/Shanghai/SH0060/2020EPI_ISL_4203782020-02-01 SNP:
9437: A>T (1 strain(s) in DB)
12473: C>T (10 strain(s) in DB)
25047: C>T (5 strain(s) in DB)
27669: A>T (24 strain(s) in DB)

Deletions:
1: AATTAAAGGTTTATACCTTC...>- (4882 strain(s) in DB)
29866: ATGACAAAAAAAAAAAAAAA...>A (422 strain(s) in DB)

hCoV-19/Hangzhou/HZCDC0048/2020 (EPI_ISL_421233) (0.33)
hCoV-19/Hangzhou/HZCDC0135/2020 (EPI_ISL_421225) (0.33)
BetaCoV/Hangzhou/HZCDC0001/2020 (EPI_ISL_407313) (0.33)
hCoV-19/Shanghai/SH0073/2020 (0.33)
hCoV-19/Hangzhou/HZCDC0049L/2020 (EPI_ISL_421231) (0.33)
hCoV-19/Hangzhou/HZCDC0090L/2020 (EPI_ISL_421229) (0.33)
hCoV-19/Hangzhou/HZCDC0091L/2020 (EPI_ISL_421227) (0.33)
hCoV-19/Shanghai/SH0119/2020 (0.33)
hCoV-19/Hangzhou/HZCDC0119/2020 (EPI_ISL_421226) (0.33)
hCoV-19/Hangzhou/HZCDC0048L/2020 (EPI_ISL_421232) (0.33)
hCoV-19/Belgium/MSE-0324121/2020 (EPI_ISL_420378) (0.33)
hCoV-19/Shanghai/SH0065/2020EPI_ISL_4163682020-02-05
hCoV-19/Shanghai/SH0066/2020EPI_ISL_4163692020-02-05
hCoV-19/Shanghai/SH0067/2020EPI_ISL_4164042020-02-01 SNP:
9442: C>T (10 strain(s) in DB)
25209: T>C (2 strain(s) in DB)

Deletions:
1: AATTAAAGGTTTATACCTTC...>- (4882 strain(s) in DB)
29866: ATGACAAAAAAAAAAAAAAA...>A (422 strain(s) in DB)

hCoV-19/Shanghai/SH0076/2020 (1)
BetaCoV/Hangzhou/HZCDC0001/2020 (EPI_ISL_407313) (0.5)
hCoV-19/Hangzhou/HZCDC0091L/2020 (EPI_ISL_421227) (0.5)
hCoV-19/Shanghai/SH0073/2020 (0.5)
hCoV-19/Hangzhou/HZCDC0048/2020 (EPI_ISL_421233) (0.5)
hCoV-19/Hangzhou/HZCDC0048L/2020 (EPI_ISL_421232) (0.5)
hCoV-19/Hangzhou/HZCDC0090L/2020 (EPI_ISL_421229) (0.5)
hCoV-19/Hangzhou/HZCDC0049L/2020 (EPI_ISL_421231) (0.5)
hCoV-19/Hangzhou/HZCDC0119/2020 (EPI_ISL_421226) (0.5)
hCoV-19/Hangzhou/HZCDC0135/2020 (EPI_ISL_421225) (0.5)
hCoV-19/Shanghai/SH0119/2020 (0.5)
hCoV-19/Shanghai/SH0068/2020EPI_ISL_4163712020-02-05
hCoV-19/Shanghai/SH0069/2020NMDC60013134-012020-02-01 SNP:
4550: A>G (1 strain(s) in DB)
8782: C>T (1672 strain(s) in DB)
9477: T>A (113 strain(s) in DB)
28144: T>C (1654 strain(s) in DB)

Deletions:
1: AATTAAAGGTTTATACCTTC...>- (4882 strain(s) in DB)
29866: ATGACAAAAAAAAAAAAAAA...>A (422 strain(s) in DB)

hCoV-19/Shanghai/SH0024/2020 (0.67)
hCoV-19/Shanghai/SH0043/2020 (0.67)
hCoV-19/Shanghai/SH0013/2020 (0.67)
hCoV-19/Shanghai/SH0074/2020 (0.57)
hCoV-19/Shanghai/SH0115/2020 (0.57)
hCoV-19/Shanghai/SH0005/2020 (0.57)
hCoV-19/Shanghai/SH0009/2020 (0.57)
hCoV-19/USA/NY-PV09156/2020 (MT370954) (0.57)
hCoV-19/Shanghai/SH0021/2020 (0.5)
hCoV-19/Shanghai/SH0002/2020 (0.5)
hCoV-19/Guangdong/20SF685/2020 (NMDC60013134-01) (0.5)
hCoV-19/Shanghai/SH0070/2020EPI_ISL_4183222020-02-07 SNP:
1397: G>A (164 strain(s) in DB)
1805: G>A (1 strain(s) in DB)
11083: G>T (1220 strain(s) in DB)
28688: T>C (152 strain(s) in DB)
29670: C>T (3 strain(s) in DB)
29742: G>T (236 strain(s) in DB)

Deletions:
1: AATTAAAGGTTTATACCTTC...>- (4882 strain(s) in DB)
29866: ATGACAAAAAAAAAAAAAAA...>A (422 strain(s) in DB)

hCoV-19/Shanghai/SH0023/2020 (0.6)
hCoV-19/China/Shanghai/SH0022 (0.6)
hCoV-19/Australia/VIC97/2020 (MT451007) (0.56)
hCoV-19/Australia/VIC58/2020 (MT450973) (0.56)
hCoV-19/Kuwait/KU17/2020 (EPI_ISL_416542) (0.56)
hCoV-19/Australia/VIC66/2020 (MT450980) (0.56)
hCoV-19/Turkey/HSGM-11518/2020 (EPI_ISL_429872) (0.5)
hCoV-19/United Arab Emirates/L2409/2020 (EPI_ISL_435131) (0.5)
hCoV-19/Shanghai/SH0126/2020 (0.5)
BetaCoV/Australia/NSW07/2020 (EPI_ISL_413214) (0.5)
hCoV-19/Canada/ON_PHL3917/2020 (EPI_ISL_418322) (0.5)
hCoV-19/Shanghai/SH0071/2020EPI_ISL_4163742020-02-07
hCoV-19/Shanghai/SH0072/2020EPI_ISL_4163752020-02-01
hCoV-19/Shanghai/SH0073/2020EPI_ISL_4163372020-02-05 Deletions:
1: AATTAAAGGTTTATACCTTC...>- (4882 strain(s) in DB)
29866: ATGACAAAAAAAAAAAAAAA...>A (422 strain(s) in DB)

hCoV-19/Shanghai/SH0119/2020 (1)
hCoV-19/Hangzhou/HZCDC0135/2020 (EPI_ISL_421225) (1)
hCoV-19/Hangzhou/HZCDC0119/2020 (EPI_ISL_421226) (1)
hCoV-19/Hangzhou/HZCDC0091L/2020 (EPI_ISL_421227) (1)
hCoV-19/Hangzhou/HZCDC0090L/2020 (EPI_ISL_421229) (1)
hCoV-19/Hangzhou/HZCDC0049L/2020 (EPI_ISL_421231) (1)
hCoV-19/Hangzhou/HZCDC0048L/2020 (EPI_ISL_421232) (1)
hCoV-19/Hangzhou/HZCDC0048/2020 (EPI_ISL_421233) (1)
BetaCoV/Hangzhou/HZCDC0001/2020 (EPI_ISL_407313) (1)
hCoV-19/Shanghai/SH0101/2020 (0.67)
hCoV-19/Shanghai/SH0028/2020 (0.67)
hCoV-19/Shanghai/SH0074/2020EPI_ISL_4163772020-02-07 SNP:
8782: C>T (1672 strain(s) in DB)
28144: T>C (1654 strain(s) in DB)
29095: C>T (58 strain(s) in DB)

Deletions:
1: AATTAAAGGTTTATACCTTC...>- (4882 strain(s) in DB)
29866: ATGACAAAAAAAAAAAAAAA...>A (422 strain(s) in DB)

hCoV-19/Shanghai/SH0075/2020EPI_ISL_4163782020-01-30
hCoV-19/Shanghai/SH0076/2020EPI_ISL_4212262020-02-01 SNP:
9442: C>T (10 strain(s) in DB)
25209: T>C (2 strain(s) in DB)

Deletions:
1: AATTAAAGGTTTATACCTTC...>- (4882 strain(s) in DB)
29866: ATGACAAAAAAAAAAAAAAA...>A (422 strain(s) in DB)

hCoV-19/Shanghai/SH0067/2020 (1)
BetaCoV/Hangzhou/HZCDC0001/2020 (EPI_ISL_407313) (0.5)
hCoV-19/Hangzhou/HZCDC0091L/2020 (EPI_ISL_421227) (0.5)
hCoV-19/Shanghai/SH0119/2020 (0.5)
hCoV-19/Hangzhou/HZCDC0048/2020 (EPI_ISL_421233) (0.5)
hCoV-19/Hangzhou/HZCDC0048L/2020 (EPI_ISL_421232) (0.5)
hCoV-19/Hangzhou/HZCDC0049L/2020 (EPI_ISL_421231) (0.5)
hCoV-19/Hangzhou/HZCDC0090L/2020 (EPI_ISL_421229) (0.5)
hCoV-19/Shanghai/SH0073/2020 (0.5)
hCoV-19/Hangzhou/HZCDC0135/2020 (EPI_ISL_421225) (0.5)
hCoV-19/Hangzhou/HZCDC0119/2020 (EPI_ISL_421226) (0.5)
hCoV-19/Shanghai/SH0077/2020EPI_ISL_4212292020-02-09 SNP:
2293: G>T (8 strain(s) in DB)

Deletions:
1: AATTAAAGGTTTATACCTTC...>- (4882 strain(s) in DB)
29866: ATGACAAAAAAAAAAAAAAA...>A (422 strain(s) in DB)

hCoV-19/Shanghai/SH0044/2020 (1)
hCoV-19/Shanghai/SH0101/2020 (1)
hCoV-19/Shanghai/SH0102/2020 (1)
hCoV-19/Hangzhou/HZCDC0048L/2020 (EPI_ISL_421232) (0.67)
hCoV-19/Hangzhou/HZCDC0048/2020 (EPI_ISL_421233) (0.67)
hCoV-19/Shanghai/SH0119/2020 (0.67)
hCoV-19/Shanghai/SH0073/2020 (0.67)
hCoV-19/Hangzhou/HZCDC0135/2020 (EPI_ISL_421225) (0.67)
hCoV-19/Hangzhou/HZCDC0119/2020 (EPI_ISL_421226) (0.67)
hCoV-19/Hangzhou/HZCDC0091L/2020 (EPI_ISL_421227) (0.67)
hCoV-19/Hangzhou/HZCDC0090L/2020 (EPI_ISL_421229) (0.67)
hCoV-19/Shanghai/SH0079/2020EPI_ISL_4261822020-02-01 SNP:
8782: C>T (1672 strain(s) in DB)
24034: C>T (180 strain(s) in DB)
26729: T>C (163 strain(s) in DB)
28077: G>C (188 strain(s) in DB)
28144: T>C (1654 strain(s) in DB)

Deletions:
1: AATTAAAGGTTTATACCTTC...>- (4882 strain(s) in DB)
29866: ATGACAAAAAAAAAAAAAAA...>A (422 strain(s) in DB)

hCoV-19/Shanghai/SH0029/2020 (1)
hCoV-19/Shanghai/SH0032/2020 (1)
hCoV-19/Shanghai/SH0128/2020 (0.88)
hCoV-19/Guangdong/20SF115/2020 (NMDC60013106-01) (0.75)
hCoV-19/Shanghai/SH0043/2020 (0.57)
hCoV-19/Shanghai/SH0024/2020 (0.57)
hCoV-19/Shanghai/SH0013/2020 (0.57)
Sichuan/IVDC-SC-001/2020 (NMDC60013079-01) (0.56)
BetaCoV/HongKong/VM20001061/2020 (MT644268) (0.55)
hCoV-19/Korea/KCDC2013/2020 (EPI_ISL_426183) (0.55)
hCoV-19/Korea/KCDC2012/2020 (EPI_ISL_426182) (0.55)
hCoV-19/Shanghai/SH0080/2020EPI_ISL_4298722020-02-08 SNP:
1397: G>A (164 strain(s) in DB)
2570: C>T (1 strain(s) in DB)
9333: C>T (2 strain(s) in DB)
11032: T>C (9 strain(s) in DB)
11083: G>T (1220 strain(s) in DB)
12073: C>T (15 strain(s) in DB)
17502: C>T (18 strain(s) in DB)
28688: T>C (152 strain(s) in DB)
29742: G>T (236 strain(s) in DB)

Deletions:
1: AATTAAAGGTTTATACCTTC...>- (4882 strain(s) in DB)
29866: ATGACAAAAAAAAAAAAAAA...>A (422 strain(s) in DB)

hCoV-19/Shanghai/SH0126/2020 (0.5)
hCoV-19/Shanghai/SH0125/2020 (0.47)
hCoV-19/Shanghai/SH0070/2020 (0.46)
hCoV-19/Shanghai/SH0023/2020 (0.46)
hCoV-19/China/Shanghai/SH0022 (0.46)
hCoV-19/Australia/VIC58/2020 (MT450973) (0.42)
hCoV-19/Australia/VIC97/2020 (MT451007) (0.42)
hCoV-19/Kuwait/KU17/2020 (EPI_ISL_416542) (0.42)
hCoV-19/Australia/VIC66/2020 (MT450980) (0.42)
hCoV-19/Australia/VIC30/2020 (MT450945) (0.38)
hCoV-19/Turkey/HSGM-11518/2020 (EPI_ISL_429872) (0.38)
hCoV-19/Shanghai/SH0081/2020EPI_ISL_4163832020-02-01
hCoV-19/Shanghai/SH0083/2020EPI_ISL_4163842020-02-04
hCoV-19/Shanghai/SH0085/2020EPI_ISL_4163852020-01-30
hCoV-19/Shanghai/SH0086/2020EPI_ISL_4163862020-01-31
hCoV-19/Shanghai/SH0088/2020EPI_ISL_4212312020-02-01 SNP:
15324: C>T (278 strain(s) in DB)
24405: T>G (1 strain(s) in DB)
29303: C>T (15 strain(s) in DB)

Deletions:
1: AATTAAAGGTTTATACCTTC...>- (4882 strain(s) in DB)
29866: ATGACAAAAAAAAAAAAAAA...>A (422 strain(s) in DB)

hCoV-19/Shanghai/SH0055/2020 (0.8)
hCoV-19/Shanghai/SH0053/2020 (0.67)
BetaCoV/Guangzhou/20SF206/2020 (NMDC60013012-01) (0.5)
Guangzhou/GZ8H0016/2020 (CNA0013708) (0.43)
BetaCoV/Hangzhou/HZCDC0001/2020 (EPI_ISL_407313) (0.4)
hCoV-19/Shanghai/SH0073/2020 (0.4)
hCoV-19/Hangzhou/HZCDC0135/2020 (EPI_ISL_421225) (0.4)
hCoV-19/Hangzhou/HZCDC0119/2020 (EPI_ISL_421226) (0.4)
hCoV-19/Hangzhou/HZCDC0091L/2020 (EPI_ISL_421227) (0.4)
hCoV-19/Hangzhou/HZCDC0090L/2020 (EPI_ISL_421229) (0.4)
hCoV-19/Hangzhou/HZCDC0049L/2020 (EPI_ISL_421231) (0.4)
hCoV-19/Shanghai/SH0091/2020EPI_ISL_4163882020-02-05
hCoV-19/Shanghai/SH0093/2020LC5709902020-01-21 SNP:
27754: G>T (2 strain(s) in DB)
28851: G>T (70 strain(s) in DB)

Deletions:
1: AATTAAAGGTTTATACCTTC...>- (4882 strain(s) in DB)
29866: ATGACAAAAAAAAAAAAAAA...>A (422 strain(s) in DB)

hCoV-19/Hangzhou/HZCDC0135/2020 (EPI_ISL_421225) (0.5)
hCoV-19/Hangzhou/HZCDC0048L/2020 (EPI_ISL_421232) (0.5)
hCoV-19/Shanghai/SH0073/2020 (0.5)
hCoV-19/Hangzhou/HZCDC0049L/2020 (EPI_ISL_421231) (0.5)
BetaCoV/Hangzhou/HZCDC0001/2020 (EPI_ISL_407313) (0.5)
hCoV-19/Hangzhou/HZCDC0091L/2020 (EPI_ISL_421227) (0.5)
hCoV-19/Hangzhou/HZCDC0048/2020 (EPI_ISL_421233) (0.5)
hCoV-19/Hangzhou/HZCDC0119/2020 (EPI_ISL_421226) (0.5)
hCoV-19/Hangzhou/HZCDC0090L/2020 (EPI_ISL_421229) (0.5)
hCoV-19/Shanghai/SH0119/2020 (0.5)
hCoV-19/Japan/DP0294/2020 (LC570990) (0.4)
hCoV-19/Shanghai/SH0094/2020EPI_ISL_4212262020-01-31 SNP:
3885: C>A (10 strain(s) in DB)
6513: G>T (1 strain(s) in DB)
20335: G>A (1 strain(s) in DB)
29449: G>T (12 strain(s) in DB)

Deletions:
1: AATTAAAGGTTTATACCTTC...>- (4882 strain(s) in DB)
29866: ATGACAAAAAAAAAAAAAAA...>A (422 strain(s) in DB)

hCoV-19/Shanghai/SH0047/2020 (0.4)
hCoV-19/Shanghai/SH0119/2020 (0.33)
hCoV-19/Hangzhou/HZCDC0091L/2020 (EPI_ISL_421227) (0.33)
hCoV-19/Hangzhou/HZCDC0135/2020 (EPI_ISL_421225) (0.33)
hCoV-19/Hangzhou/HZCDC0090L/2020 (EPI_ISL_421229) (0.33)
hCoV-19/Hangzhou/HZCDC0049L/2020 (EPI_ISL_421231) (0.33)
hCoV-19/Hangzhou/HZCDC0048L/2020 (EPI_ISL_421232) (0.33)
hCoV-19/Hangzhou/HZCDC0048/2020 (EPI_ISL_421233) (0.33)
hCoV-19/Shanghai/SH0073/2020 (0.33)
BetaCoV/Hangzhou/HZCDC0001/2020 (EPI_ISL_407313) (0.33)
hCoV-19/Hangzhou/HZCDC0119/2020 (EPI_ISL_421226) (0.33)
hCoV-19/Shanghai/SH0098/2020EPI_ISL_4163912020-02-02
hCoV-19/Shanghai/SH0100/2020EPI_ISL_4163922020-02-02
hCoV-19/Shanghai/SH0101/2020EPI_ISL_4163932020-02-09 SNP:
2293: G>T (8 strain(s) in DB)

Deletions:
1: AATTAAAGGTTTATACCTTC...>- (4882 strain(s) in DB)
29866: ATGACAAAAAAAAAAAAAAA...>A (422 strain(s) in DB)

hCoV-19/Shanghai/SH0102/2020EPI_ISL_4212252020-02-14 SNP:
2293: G>T (8 strain(s) in DB)

Deletions:
1: AATTAAAGGTTTATACCTTC...>- (4882 strain(s) in DB)
29866: ATGACAAAAAAAAAAAAAAA...>A (422 strain(s) in DB)

hCoV-19/Shanghai/SH0077/2020 (1)
hCoV-19/Shanghai/SH0044/2020 (1)
hCoV-19/Shanghai/SH0101/2020 (1)
hCoV-19/Hangzhou/HZCDC0090L/2020 (EPI_ISL_421229) (0.67)
hCoV-19/Shanghai/SH0073/2020 (0.67)
hCoV-19/Hangzhou/HZCDC0048/2020 (EPI_ISL_421233) (0.67)
BetaCoV/Hangzhou/HZCDC0001/2020 (EPI_ISL_407313) (0.67)
hCoV-19/Hangzhou/HZCDC0049L/2020 (EPI_ISL_421231) (0.67)
hCoV-19/Hangzhou/HZCDC0048L/2020 (EPI_ISL_421232) (0.67)
hCoV-19/Hangzhou/HZCDC0091L/2020 (EPI_ISL_421227) (0.67)
hCoV-19/Hangzhou/HZCDC0135/2020 (EPI_ISL_421225) (0.67)
hCoV-19/Shanghai/SH0104/2020EPI_ISL_4163952020-02-09
hCoV-19/Shanghai/SH0106/2020EPI_ISL_4163962020-02-10
hCoV-19/Shanghai/SH0107/2020EPI_ISL_4073132020-02-02 SNP:
61: G>T (4 strain(s) in DB)
20692: C>T (6 strain(s) in DB)
23533: C>T (8 strain(s) in DB)
26326: C>T (6 strain(s) in DB)
28233: G>A (10 strain(s) in DB)

Deletions:
1: AATTAAAGGTTTATACCTTC...>- (4882 strain(s) in DB)
29866: ATGACAAAAAAAAAAAAAAA...>A (422 strain(s) in DB)

hCoV-19/Shanghai/SH0114/2020 (0.5)
hCoV-19/Shanghai/SH0119/2020 (0.29)
hCoV-19/Hangzhou/HZCDC0135/2020 (EPI_ISL_421225) (0.29)
hCoV-19/Hangzhou/HZCDC0048/2020 (EPI_ISL_421233) (0.29)
hCoV-19/Hangzhou/HZCDC0048L/2020 (EPI_ISL_421232) (0.29)
hCoV-19/Hangzhou/HZCDC0049L/2020 (EPI_ISL_421231) (0.29)
hCoV-19/Hangzhou/HZCDC0090L/2020 (EPI_ISL_421229) (0.29)
hCoV-19/Shanghai/SH0073/2020 (0.29)
hCoV-19/Hangzhou/HZCDC0119/2020 (EPI_ISL_421226) (0.29)
hCoV-19/Hangzhou/HZCDC0091L/2020 (EPI_ISL_421227) (0.29)
BetaCoV/Hangzhou/HZCDC0001/2020 (EPI_ISL_407313) (0.29)
hCoV-19/Shanghai/SH0109/2020EPI_ISL_4073132020-02-02 SNP:
5239: C>T (10 strain(s) in DB)
17373: C>T (23 strain(s) in DB)
28830: C>A (4 strain(s) in DB)

Deletions:
1: AATTAAAGGTTTATACCTTC...>- (4882 strain(s) in DB)
29866: ATGACAAAAAAAAAAAAAAA...>A (422 strain(s) in DB)

hCoV-19/Shanghai/SH0011/2020 (0.5)
hCoV-19/Shanghai/SH0119/2020 (0.4)
hCoV-19/Shanghai/SH0073/2020 (0.4)
hCoV-19/Hangzhou/HZCDC0049L/2020 (EPI_ISL_421231) (0.4)
hCoV-19/Hangzhou/HZCDC0048L/2020 (EPI_ISL_421232) (0.4)
hCoV-19/Hangzhou/HZCDC0048/2020 (EPI_ISL_421233) (0.4)
hCoV-19/Hangzhou/HZCDC0119/2020 (EPI_ISL_421226) (0.4)
hCoV-19/Hangzhou/HZCDC0135/2020 (EPI_ISL_421225) (0.4)
hCoV-19/Hangzhou/HZCDC0091L/2020 (EPI_ISL_421227) (0.4)
hCoV-19/Hangzhou/HZCDC0090L/2020 (EPI_ISL_421229) (0.4)
BetaCoV/Hangzhou/HZCDC0001/2020 (EPI_ISL_407313) (0.4)
hCoV-19/Shanghai/SH0110/2020EPI_ISL_4163622020-02-13 SNP:
7239: C>T (2 strain(s) in DB)
8916: T>G (1 strain(s) in DB)
16887: C>T (42 strain(s) in DB)

Deletions:
1: AATTAAAGGTTTATACCTTC...>- (4882 strain(s) in DB)
29866: ATGACAAAAAAAAAAAAAAA...>A (422 strain(s) in DB)

hCoV-19/Hangzhou/HZCDC0090L/2020 (EPI_ISL_421229) (0.4)
hCoV-19/Hangzhou/HZCDC0091L/2020 (EPI_ISL_421227) (0.4)
BetaCoV/Hangzhou/HZCDC0001/2020 (EPI_ISL_407313) (0.4)
hCoV-19/Shanghai/SH0073/2020 (0.4)
hCoV-19/Hangzhou/HZCDC0135/2020 (EPI_ISL_421225) (0.4)
hCoV-19/Shanghai/SH0119/2020 (0.4)
hCoV-19/Hangzhou/HZCDC0048/2020 (EPI_ISL_421233) (0.4)
hCoV-19/Hangzhou/HZCDC0048L/2020 (EPI_ISL_421232) (0.4)
hCoV-19/Hangzhou/HZCDC0049L/2020 (EPI_ISL_421231) (0.4)
hCoV-19/Hangzhou/HZCDC0119/2020 (EPI_ISL_421226) (0.4)
hCoV-19/Shanghai/SH0054/2020 (0.33)
hCoV-19/Shanghai/SH0112/2020EPI_ISL_4164002020-02-02
hCoV-19/Shanghai/SH0114/2020EPI_ISL_4164042020-02-02 SNP:
20692: C>T (6 strain(s) in DB)
25006: C>T (10 strain(s) in DB)
28233: G>A (10 strain(s) in DB)

Deletions:
1: AATTAAAGGTTTATACCTTC...>- (4882 strain(s) in DB)
29866: ATGACAAAAAAAAAAAAAAA...>A (422 strain(s) in DB)

hCoV-19/Shanghai/SH0107/2020 (0.5)
hCoV-19/Hangzhou/HZCDC0048/2020 (EPI_ISL_421233) (0.4)
hCoV-19/Hangzhou/HZCDC0049L/2020 (EPI_ISL_421231) (0.4)
hCoV-19/Hangzhou/HZCDC0048L/2020 (EPI_ISL_421232) (0.4)
hCoV-19/Hangzhou/HZCDC0090L/2020 (EPI_ISL_421229) (0.4)
hCoV-19/Hangzhou/HZCDC0091L/2020 (EPI_ISL_421227) (0.4)
hCoV-19/Hangzhou/HZCDC0119/2020 (EPI_ISL_421226) (0.4)
hCoV-19/Hangzhou/HZCDC0135/2020 (EPI_ISL_421225) (0.4)
hCoV-19/Shanghai/SH0073/2020 (0.4)
BetaCoV/Hangzhou/HZCDC0001/2020 (EPI_ISL_407313) (0.4)
hCoV-19/Shanghai/SH0119/2020 (0.4)
hCoV-19/Shanghai/SH0115/2020EPI_ISL_4164022020-02-11 SNP:
289: C>T (2 strain(s) in DB)
8782: C>T (1672 strain(s) in DB)
28144: T>C (1654 strain(s) in DB)

Deletions:
1: AATTAAAGGTTTATACCTTC...>- (4882 strain(s) in DB)
29866: ATGACAAAAAAAAAAAAAAA...>A (422 strain(s) in DB)

hCoV-19/Shanghai/SH0117/2020EPI_ISL_4164032020-02-02 SNP:
54: T>A (9 strain(s) in DB)
8782: C>T (1672 strain(s) in DB)
9370: T>G (2 strain(s) in DB)
28144: T>C (1654 strain(s) in DB)
28878: G>A (75 strain(s) in DB)
29742: G>A (236 strain(s) in DB)

Deletions:
1: AATTAAAGGTTTATACCTTC...>- (4882 strain(s) in DB)
29866: ATGACAAAAAAAAAAAAAAA...>A (422 strain(s) in DB)

hCoV-19/Shanghai/SH0119/2020EPI_ISL_4164042020-02-09 Deletions:
1: AATTAAAGGTTTATACCTTC...>- (4882 strain(s) in DB)
29866: ATGACAAAAAAAAAAAAAAA...>A (422 strain(s) in DB)

hCoV-19/Shanghai/SH0121/2020EPI_ISL_4163372020-02-02 SNP:
11962: C>T (12 strain(s) in DB)

Deletions:
1: AATTAAAGGTTTATACCTTC...>- (4882 strain(s) in DB)
29866: ATGACAAAAAAAAAAAAAAA...>A (422 strain(s) in DB)

hCoV-19/Shanghai/SH0119/2020 (0.67)
hCoV-19/Hangzhou/HZCDC0048/2020 (EPI_ISL_421233) (0.67)
hCoV-19/Hangzhou/HZCDC0119/2020 (EPI_ISL_421226) (0.67)
hCoV-19/Hangzhou/HZCDC0091L/2020 (EPI_ISL_421227) (0.67)
hCoV-19/Shanghai/SH0073/2020 (0.67)
hCoV-19/Hangzhou/HZCDC0090L/2020 (EPI_ISL_421229) (0.67)
hCoV-19/Hangzhou/HZCDC0049L/2020 (EPI_ISL_421231) (0.67)
hCoV-19/Hangzhou/HZCDC0048L/2020 (EPI_ISL_421232) (0.67)
hCoV-19/Hangzhou/HZCDC0135/2020 (EPI_ISL_421225) (0.67)
BetaCoV/Hangzhou/HZCDC0001/2020 (EPI_ISL_407313) (0.67)
hCoV-19/Shanghai/SH0028/2020 (0.5)
hCoV-19/Shanghai/SH0125/2020EPI_ISL_4132142020-02-15 SNP:
1397: G>A (164 strain(s) in DB)
5869: C>T (18 strain(s) in DB)
9474: C>T (15 strain(s) in DB)
11083: G>T (1220 strain(s) in DB)
17502: C>T (18 strain(s) in DB)
19518: G>T (12 strain(s) in DB)
25207: C>T (10 strain(s) in DB)
28688: T>C (152 strain(s) in DB)
29742: G>T (236 strain(s) in DB)

Deletions:
1: AATTAAAGGTTTATACCTTC...>- (4882 strain(s) in DB)
29866: ATGACAAAAAAAAAAAAAAA...>A (422 strain(s) in DB)

hCoV-19/Shanghai/SH0126/2020 (0.91)
hCoV-19/Shanghai/SH0080/2020 (0.47)
hCoV-19/Shanghai/SH0023/2020 (0.46)
hCoV-19/Shanghai/SH0070/2020 (0.46)
hCoV-19/China/Shanghai/SH0022 (0.46)
hCoV-19/Kuwait/KU17/2020 (EPI_ISL_416542) (0.42)
hCoV-19/Australia/VIC97/2020 (MT451007) (0.42)
hCoV-19/Australia/VIC66/2020 (MT450980) (0.42)
hCoV-19/Australia/VIC58/2020 (MT450973) (0.42)
hCoV-19/Canada/ON_PHL3917/2020 (EPI_ISL_418322) (0.38)
BetaCoV/Australia/NSW07/2020 (EPI_ISL_413214) (0.38)
hCoV-19/Shanghai/SH0126/2020EPI_ISL_4132142020-02-15 SNP:
1397: G>A (164 strain(s) in DB)
5869: C>T (18 strain(s) in DB)
11083: G>T (1220 strain(s) in DB)
17502: C>T (18 strain(s) in DB)
19518: G>T (12 strain(s) in DB)
25207: C>T (10 strain(s) in DB)
28688: T>C (152 strain(s) in DB)
29742: G>T (236 strain(s) in DB)

Deletions:
1: AATTAAAGGTTTATACCTTC...>- (4882 strain(s) in DB)
29866: ATGACAAAAAAAAAAAAAAA...>A (422 strain(s) in DB)

hCoV-19/Shanghai/SH0125/2020 (0.91)
hCoV-19/China/Shanghai/SH0022 (0.5)
hCoV-19/Shanghai/SH0023/2020 (0.5)
hCoV-19/Shanghai/SH0070/2020 (0.5)
hCoV-19/Shanghai/SH0080/2020 (0.5)
hCoV-19/Australia/VIC66/2020 (MT450980) (0.45)
hCoV-19/Australia/VIC97/2020 (MT451007) (0.45)
hCoV-19/Kuwait/KU17/2020 (EPI_ISL_416542) (0.45)
hCoV-19/Australia/VIC58/2020 (MT450973) (0.45)
hCoV-19/Australia/VIC294/2020 (MT451186) (0.42)
BetaCoV/Australia/NSW07/2020 (EPI_ISL_413214) (0.42)
hCoV-19/Shanghai/SH0127/2020EPI_ISL_4164082020-02-12
hCoV-19/Shanghai/SH0128/2020MT6442682020-02-02 SNP:
1566: A>C (1 strain(s) in DB)
8782: C>T (1672 strain(s) in DB)
24034: C>T (180 strain(s) in DB)
26729: T>C (163 strain(s) in DB)
28077: G>C (188 strain(s) in DB)
28144: T>C (1654 strain(s) in DB)

Deletions:
1: AATTAAAGGTTTATACCTTC...>- (4882 strain(s) in DB)
29866: ATGACAAAAAAAAAAAAAAA...>A (422 strain(s) in DB)

hCoV-19/Shanghai/SH0079/2020 (0.88)
hCoV-19/Shanghai/SH0032/2020 (0.88)
hCoV-19/Shanghai/SH0029/2020 (0.88)
hCoV-19/Guangdong/20SF115/2020 (NMDC60013106-01) (0.67)
hCoV-19/Shanghai/SH0013/2020 (0.5)
hCoV-19/Shanghai/SH0024/2020 (0.5)
Sichuan/IVDC-SC-001/2020 (NMDC60013079-01) (0.5)
hCoV-19/Korea/KCDC2012/2020 (EPI_ISL_426182) (0.5)
hCoV-19/Korea/KCDC2013/2020 (EPI_ISL_426183) (0.5)
hCoV-19/Shanghai/SH0043/2020 (0.5)
BetaCoV/HongKong/VM20001061/2020 (MT644268) (0.5)
hCoV-19/Hangzhou/ZJU-07/2020 (EPI_ISL_416425)EPI_ISL_4308412020-02-03 SNP:
3: T>G (52 strain(s) in DB)
7: G>A (27 strain(s) in DB)
8: G>T (40 strain(s) in DB)
1405: T>C (1 strain(s) in DB)
9802: G>T (10 strain(s) in DB)
19945: A>G (1 strain(s) in DB)
25267: C>T (6 strain(s) in DB)
27615: C>G (1 strain(s) in DB)

Insertions:
9: T>T... (22 strain(s) in DB)

Indels:
1: A>AAGAGTGCTTA (4882 strain(s) in DB)

hCoV-19/Hangzhou/ZJU-05/2020 (EPI_ISL_415711) (0.5)
SARS-CoV-2/WH-09/human/2020/CHN (MT093631) (0.42)
hCoV-19/Hangzhou/ZJU-02/2020 (EPI_ISL_416042) (0.42)
hCoV-19/Saudi Arabia/KAUST-MAKKAH165/2020 (EPI_ISL_437478) (0.25)
hCoV-19/Hangzhou/ZJU-04/2020 (EPI_ISL_416046) (0.23)
hCoV-19/USA/WA-UW67/2020 (MT252793) (0.22)
hCoV-19/Hangzhou/ZJU-09/2020 (0.21)
hCoV-19/Chile/Talca-1/2020 (EPI_ISL_414577) (0.2)
hCoV-19/Taiwan/TSGH-09/2020 (EPI_ISL_427396) (0.19)
hCoV-19/Guangzhou/GZMU0035/2020 (CNA0013940) (0.19)
hCoV-19/Thailand/NIH_2492/2020 (EPI_ISL_430841) (0.18)
hCoV-19/Hungary/mbl1/2020 (EPI_ISL_416426)EPI_ISL_4164262020-03-17 SNP:
241: C>T (7669 strain(s) in DB)
3037: C>T (7693 strain(s) in DB)
14408: C>T (7704 strain(s) in DB)
20268: A>G (601 strain(s) in DB)
23403: A>G (7732 strain(s) in DB)
25483: G>A (5 strain(s) in DB)

Deletions:
1: AATTAAAGGTTTATACCTTC...>- (4882 strain(s) in DB)
29836: CCCATGTGATTTTAATAGCT...>C (754 strain(s) in DB)

hCoV-19/Vietnam/39607/2020 (EPI_ISL_416428)EPI_ISL_4188022020-03-07 SNP:
241: C>T (7669 strain(s) in DB)
3037: C>T (7693 strain(s) in DB)
14408: C>T (7704 strain(s) in DB)
23403: A>G (7732 strain(s) in DB)
28881: G>A (2045 strain(s) in DB)
28882: G>A (2040 strain(s) in DB)
28883: G>C (2036 strain(s) in DB)

Deletions:
1: AATTAAAGGT>- (4882 strain(s) in DB)
29870: CAAAAAAAAAAAAAAAAAAA...>C (353 strain(s) in DB)

hCoV-19/Belgium/PC-0325182/2020 (EPI_ISL_420439) (1)
hCoV-19/Belgium/NIM-0324161/2020 (EPI_ISL_420418) (1)
SARS-CoV-2/human/IND/GMCTC469/2020 (MT415323) (1)
hCoV-19/Northern Ireland/NIRE-FB509/2020 (EPI_ISL_441436) (1)
hCoV-19/Northern Ireland/NIRE-FB484/2020 (EPI_ISL_441428) (1)
hCoV-19/Belgium/NMA-0324169/2020 (EPI_ISL_420426) (1)
hCoV-19/Belgium/ML-0324164/2020 (EPI_ISL_420421) (1)
hCoV-19/Australia/VIC135/2020 (MT451039) (0.9)
hCoV-19/Belgium/UMF-03025/2020 (EPI_ISL_416472) (0.9)
hCoV-19/Northern Ireland/NIRE-FB42A/2020 (EPI_ISL_441422) (0.9)
hCoV-19/Australia/QLDID924/2020 (EPI_ISL_418802) (0.9)
hCoV-19/Vietnam/CM99/2020 (EPI_ISL_416429)EPI_ISL_4249032020-02-11 SNP:
8782: C>T (1672 strain(s) in DB)
9259: A>G (6 strain(s) in DB)
21142: G>T (1 strain(s) in DB)
24034: C>T (180 strain(s) in DB)
26729: T>C (163 strain(s) in DB)
28077: G>C (188 strain(s) in DB)
28144: T>C (1654 strain(s) in DB)

Deletions:
29871: AAAAAAAAAAAAAAAAAAAA...>A (158 strain(s) in DB)

Sichuan/IVDC-SC-001/2020 (NMDC60013079-01) (0.5)
hCoV-19/Shanghai/SH0029/2020 (0.5)
hCoV-19/Shanghai/SH0032/2020 (0.5)
hCoV-19/Shanghai/SH0079/2020 (0.5)
hCoV-19/Guangdong/20SF115/2020 (NMDC60013106-01) (0.5)
2019-nCoV/USA-CA1/2020 (MN994467) (0.45)
BetaCoV/USA/IL2/2020 (MT044257) (0.45)
SARS-CoV-2/human/HKG/HKU-001a/2020 (MT230904) (0.45)
hCoV-19/Shanghai/SH0128/2020 (0.45)
2019-nCoV/USA-IL1/2020 (MN988713) (0.42)
hCoV-19/USA/SC_3570/2020 (EPI_ISL_424903) (0.38)
hCoV-19/Vietnam/CM295/2020 (EPI_ISL_416430)EPI_ISL_4224272020-03-06 SNP:
241: C>T (7669 strain(s) in DB)
3037: C>T (7693 strain(s) in DB)
14408: C>T (7704 strain(s) in DB)
23403: A>G (7732 strain(s) in DB)
28881: G>A (2045 strain(s) in DB)
28882: G>A (2040 strain(s) in DB)
28883: G>C (2036 strain(s) in DB)

Deletions:
1: AATTAAAGGTTTAT>- (4882 strain(s) in DB)
29874: AAAAAAAAAAAAAAAAAAAA...>A (87 strain(s) in DB)

hCoV-19/Australia/VIC190/2020 (MT451092) (0.89)
hCoV-19/Wales/PHWC-29D55/2020 (EPI_ISL_432244) (0.89)
hCoV-19/Wales/PHWC-26E19/2020 (EPI_ISL_422044) (0.89)
hCoV-19/Taiwan/TSGH-03/2020 (EPI_ISL_426631) (0.89)
hCoV-19/Australia/VIC250/2020 (MT451147) (0.89)
hCoV-19/Australia/VIC238/2020 (MT451136) (0.89)
hCoV-19/Australia/VIC334/2020 (MT451225) (0.89)
hCoV-19/Australia/VIC156/2020 (MT451060) (0.89)
hCoV-19/Wales/PHWC-2B1FD/2020 (EPI_ISL_432246) (0.89)
hCoV-19/Australia/VIC45/2020 (MT450960) (0.89)
hCoV-19/Kuwait/KU008/2020 (EPI_ISL_422427) (0.89)
hCoV-19/Vietnam/CM296/2020 (EPI_ISL_416431)MT4511472020-03-06 SNP:
241: C>T (7669 strain(s) in DB)
3037: C>T (7693 strain(s) in DB)
14408: C>T (7704 strain(s) in DB)
23403: A>G (7732 strain(s) in DB)
28881: G>A (2045 strain(s) in DB)
28882: G>A (2040 strain(s) in DB)
28883: G>C (2036 strain(s) in DB)
29879: A>C (37 strain(s) in DB)
29885: A>T (30 strain(s) in DB)

Deletions:
1: AATTAAAGGTTTATAC>- (4882 strain(s) in DB)

hCoV-19/Northern Ireland/NIRE-1023D7/2020 (EPI_ISL_441410) (0.8)
hCoV-19/Australia/VIC109/2020 (MT451018) (0.8)
hCoV-19/Australia/VIC45/2020 (MT450960) (0.8)
hCoV-19/Australia/VIC219/2020 (MT451120) (0.8)
hCoV-19/Australia/VIC309/2020 (MT451201) (0.8)
hCoV-19/Australia/VIC334/2020 (MT451225) (0.8)
hCoV-19/Australia/VIC190/2020 (MT451092) (0.8)
hCoV-19/Australia/VIC387/2020 (MT451274) (0.8)
hCoV-19/Wales/PHWC-29D55/2020 (EPI_ISL_432244) (0.8)
hCoV-19/Australia/VIC238/2020 (MT451136) (0.8)
hCoV-19/Australia/VIC250/2020 (MT451147) (0.8)
hCoV-19/SaudiArabia/KAIMRC-Alghoribi/2020 (EPI_ISL_416432)MT4511482020-03-07 SNP:
1: A>C (4882 strain(s) in DB)
2: T>C (55 strain(s) in DB)
4: A>G (66 strain(s) in DB)
10: T>A (31 strain(s) in DB)
13: T>A (32 strain(s) in DB)
6312: C>A (127 strain(s) in DB)
11083: G>T (1220 strain(s) in DB)
13730: C>T (138 strain(s) in DB)
23929: C>T (123 strain(s) in DB)
25615: A>G (2 strain(s) in DB)
28311: C>T (150 strain(s) in DB)

Insertions:
3: T>TGG (52 strain(s) in DB)
15: C>CCTTA (17 strain(s) in DB)

Deletions:
29837: CCATGTGATTTTAATAGCTT...>C (23 strain(s) in DB)

hCoV-19/Australia/NSW38/2020 (EPI_ISL_417396) (0.47)
hCoV-19/USA/WA-UW168/2020 (MT252700) (0.4)
hCoV-19/Australia/VIC231/2020 (MT451130) (0.4)
hCoV-19/Canada/ON_PHL0141/2020 (EPI_ISL_418375) (0.4)
hCoV-19/Canada/ON_PHL3459/2020 (EPI_ISL_418376) (0.4)
hCoV-19/Australia/NSW48/2020 (EPI_ISL_417403) (0.4)
hCoV-19/Australia/NSW45/2020 (EPI_ISL_417401) (0.4)
hCoV-19/Australia/VIC42/2020 (MT450957) (0.4)
hCoV-19/Australia/QLDID921/2020 (EPI_ISL_417033) (0.4)
hCoV-19/Canada/MB_2/2020 (EPI_ISL_429807) (0.38)
hCoV-19/Australia/VIC251/2020 (MT451148) (0.38)
hCoV-19/USA/WA-UW83/2020 (EPI_ISL_416439)EPI_ISL_4164392020-03-10 SNP:
832: C>T (5 strain(s) in DB)
8782: C>T (1672 strain(s) in DB)
13901: A>G (1 strain(s) in DB)
17747: C>T (1036 strain(s) in DB)
17858: A>G (1049 strain(s) in DB)
18060: C>T (1069 strain(s) in DB)
27945: C>T (3 strain(s) in DB)
28144: T>C (1654 strain(s) in DB)
29869: A>T (89 strain(s) in DB)

Insertions:
29903: ->#NAME? (207 strain(s) in DB)

Deletions:
1: AATTAAAGGTTTATACCTTC...>- (4882 strain(s) in DB)

hCoV-19/USA/CA-MG0987/2020 (EPI_ISL_416457)EPI_ISL_4164572020-03-18 SNP:
241: C>T (7669 strain(s) in DB)
1059: C>T (2820 strain(s) in DB)
3037: C>T (7693 strain(s) in DB)
14408: C>T (7704 strain(s) in DB)
23403: A>G (7732 strain(s) in DB)
25563: G>T (3418 strain(s) in DB)

Deletions:
1: AATTAAAGGTTTATACCTTC...>- (4882 strain(s) in DB)
29836: CCCATGTGATTTTAATAGCT...>C (754 strain(s) in DB)

hCoV-19/Kuwait/KU12/2020 (EPI_ISL_416458)EPI_ISL_4164582020-03-02 SNP:
884: C>T (45 strain(s) in DB)
1397: G>A (164 strain(s) in DB)
3472: A>G (10 strain(s) in DB)
4999: C>Y (11 strain(s) in DB)
8653: G>T (55 strain(s) in DB)
11083: G>T (1220 strain(s) in DB)
27613: G>T (15 strain(s) in DB)
28688: T>C (152 strain(s) in DB)
29742: G>T (236 strain(s) in DB)

Deletions:
1: AATTAAAGGT>- (4882 strain(s) in DB)

hCoV-19/Belgium/MTR-03021/2020 (EPI_ISL_416467)EPI_ISL_4204182020-03-02 SNP:
241: C>T (7669 strain(s) in DB)
3037: C>T (7693 strain(s) in DB)
5322: T>A (2 strain(s) in DB)
13402: T>G (54 strain(s) in DB)
13408: T>A (13 strain(s) in DB)
14408: C>T (7704 strain(s) in DB)
23116: A>T (12 strain(s) in DB)
23403: A>G (7732 strain(s) in DB)
24389: A>C (57 strain(s) in DB)
24390: G>C (61 strain(s) in DB)
27046: C>T (266 strain(s) in DB)
28881: G>A (2045 strain(s) in DB)
28882: G>A (2040 strain(s) in DB)
28883: G>C (2036 strain(s) in DB)

Deletions:
1: AATTAAAGGTTTATACCTTC...>- (4882 strain(s) in DB)
29870: CAAAAAAAAAAAAAAAAAAA...>C (353 strain(s) in DB)

hCoV-19/Belgium/GMH-03022/2020 (EPI_ISL_416468) (0.69)
hCoV-19/Australia/QLDID924/2020 (EPI_ISL_418802) (0.63)
hCoV-19/Belgium/MF-030546/2020 (EPI_ISL_420444) (0.59)
hCoV-19/Belgium/BC-03016/2020 (EPI_ISL_415157) (0.59)
hCoV-19/Belgium/GSA-030454/2020 (EPI_ISL_420448) (0.59)
hCoV-19/Belgium/DBA-03032/2020 (EPI_ISL_416475) (0.59)
hCoV-19/Belgium/DBD-03024/2020 (EPI_ISL_416471) (0.59)
hCoV-19/Belgium/MTR-03026/2020 (EPI_ISL_416476) (0.57)
hCoV-19/Belgium/NMA-0324169/2020 (EPI_ISL_420426) (0.56)
hCoV-19/Belgium/ML-0324164/2020 (EPI_ISL_420421) (0.56)
hCoV-19/Belgium/NIM-0324161/2020 (EPI_ISL_420418) (0.56)
hCoV-19/Belgium/GMH-03022/2020 (EPI_ISL_416468)EPI_ISL_4164682020-03-02 SNP:
241: C>T (7669 strain(s) in DB)
3037: C>T (7693 strain(s) in DB)
13402: T>G (54 strain(s) in DB)
14408: C>T (7704 strain(s) in DB)
23403: A>G (7732 strain(s) in DB)
27046: C>T (266 strain(s) in DB)
28881: G>A (2045 strain(s) in DB)
28882: G>A (2040 strain(s) in DB)
28883: G>C (2036 strain(s) in DB)

Deletions:
1: AATTAAAGGTTTATACCTTC...>- (4882 strain(s) in DB)
29870: CAAAAAAAAAAAAAAAAAAA...>C (353 strain(s) in DB)

hCoV-19//Belgium/SN-03031/2020 (EPI_ISL_416469)EPI_ISL_4151552020-03-03 SNP:
241: C>T (7669 strain(s) in DB)
3037: C>T (7693 strain(s) in DB)
3130: C>T (5 strain(s) in DB)
3793: T>C (3 strain(s) in DB)
13402: T>G (54 strain(s) in DB)
13408: T>G (13 strain(s) in DB)
14408: C>T (7704 strain(s) in DB)
23403: A>G (7732 strain(s) in DB)
24389: A>C (57 strain(s) in DB)
24390: G>C (61 strain(s) in DB)

Deletions:
1: AATTAAAGGTTTATACCTTC...>- (4882 strain(s) in DB)
29870: CAAAAAAAAAAAAAAAAAAA...>C (353 strain(s) in DB)

hCoV-19/Belgium/BM-03012/2020 (EPI_ISL_415154) (0.62)
hCoV-19/Belgium/DB-03023/2020 (EPI_ISL_416470) (0.57)
hCoV-19/Belgium/CD-030679/2020 (EPI_ISL_420335) (0.57)
hCoV-19/Belgium/RA-030445/2020 (EPI_ISL_420443) (0.57)
hCoV-19/Belgium/MTR-03021/2020 (EPI_ISL_416467) (0.56)
hCoV-19/Belgium/ECC-030686/2020 (EPI_ISL_420342) (0.54)
hCoV-19/Belgium/PA-030680/2020 (EPI_ISL_420336) (0.54)
hCoV-19/Belgium/PAN-030681/2020 (EPI_ISL_420337) (0.54)
hCoV-19/Belgium/LM-030685/2020 (EPI_ISL_420341) (0.54)
hCoV-19/Belgium/FAE-030948/2020 (EPI_ISL_420445) (0.53)
hCoV-19/Belgium/VAG-03013/2020 (EPI_ISL_415155) (0.53)
hCoV-19/Belgium/DB-03023/2020 (EPI_ISL_416470)EPI_ISL_4188012020-03-02 SNP:
241: C>T (7669 strain(s) in DB)
3037: C>T (7693 strain(s) in DB)
3130: C>T (5 strain(s) in DB)
3784: C>T (11 strain(s) in DB)
3793: T>C (3 strain(s) in DB)
14408: C>T (7704 strain(s) in DB)
22351: A>T (9 strain(s) in DB)
23403: A>G (7732 strain(s) in DB)

Deletions:
1: AATTAAAGGTTTATACCTTC...>- (4882 strain(s) in DB)
29870: CAAAAAAAAAAAAAAAAAAA...>C (353 strain(s) in DB)

hCoV-19/Belgium/CJE-0325178/2020 (EPI_ISL_420435) (0.6)
hCoV-19/Czech Republic/IAB_18/2020 (MT517430) (0.6)
hCoV-19/Australia/QLDID920/2020 (EPI_ISL_417032) (0.6)
hCoV-19/Belgium/DCB-0324163/2020 (EPI_ISL_420420) (0.6)
hCoV-19//Belgium/SN-03031/2020 (EPI_ISL_416469) (0.57)
hCoV-19/Belgium/QL-0324173/2020 (EPI_ISL_420430) (0.55)
hCoV-19/Belgium/VLG-0325162/2020 (EPI_ISL_420419) (0.55)
hCoV-19/Australia/VIC154/2020 (MT451058) (0.55)
hCoV-19/Belgium/NKMA-0324172/2020 (EPI_ISL_420429) (0.55)
hCoV-19/Belgium/STM-0324170/2020 (EPI_ISL_420427) (0.55)
hCoV-19/Australia/QLDID923/2020 (EPI_ISL_418801) (0.55)
hCoV-19/Belgium/DBD-03024/2020 (EPI_ISL_416471)MT4153232020-03-02 SNP:
241: C>T (7669 strain(s) in DB)
3037: C>T (7693 strain(s) in DB)
13402: T>G (54 strain(s) in DB)
13947: A>T (20 strain(s) in DB)
14408: C>T (7704 strain(s) in DB)
23403: A>G (7732 strain(s) in DB)
28881: G>A (2045 strain(s) in DB)
28882: G>A (2040 strain(s) in DB)
28883: G>C (2036 strain(s) in DB)

Deletions:
1: AATTAAAGGTTTATACCTTC...>- (4882 strain(s) in DB)
29870: CAAAAAAAAAAAAAAAAAAA...>C (353 strain(s) in DB)

hCoV-19/Belgium/UMF-03025/2020 (EPI_ISL_416472) (0.91)
hCoV-19/Belgium/GMH-03022/2020 (EPI_ISL_416468) (0.83)
hCoV-19/Belgium/QKJ-03015/2020 (EPI_ISL_415158) (0.83)
hCoV-19/Belgium/ML-0324164/2020 (EPI_ISL_420421) (0.82)
hCoV-19/Belgium/NIM-0324161/2020 (EPI_ISL_420418) (0.82)
hCoV-19/Northern Ireland/NIRE-FB484/2020 (EPI_ISL_441428) (0.82)
hCoV-19/Belgium/NMA-0324169/2020 (EPI_ISL_420426) (0.82)
hCoV-19/Vietnam/39607/2020 (EPI_ISL_416428) (0.82)
hCoV-19/Northern Ireland/NIRE-FB509/2020 (EPI_ISL_441436) (0.82)
hCoV-19/Belgium/PC-0325182/2020 (EPI_ISL_420439) (0.82)
SARS-CoV-2/human/IND/GMCTC469/2020 (MT415323) (0.82)
hCoV-19/Belgium/UMF-03025/2020 (EPI_ISL_416472)EPI_ISL_4164722020-03-02 SNP:
241: C>T (7669 strain(s) in DB)
3037: C>T (7693 strain(s) in DB)
13947: A>T (20 strain(s) in DB)
14408: C>T (7704 strain(s) in DB)
23403: A>G (7732 strain(s) in DB)
28881: G>A (2045 strain(s) in DB)
28882: G>A (2040 strain(s) in DB)
28883: G>C (2036 strain(s) in DB)

Deletions:
1: AATTAAAGGTTTATACCTTC...>- (4882 strain(s) in DB)
29870: CAAAAAAAAAAAAAAAAAAA...>C (353 strain(s) in DB)

hCoV-19/Hangzhou/ZJU-08/2020MT3854292020-01-26 SNP:
5: A>G (24 strain(s) in DB)
6: A>T (19 strain(s) in DB)
11: T>C (34 strain(s) in DB)
13: T>G (32 strain(s) in DB)
21: C>G (26 strain(s) in DB)
23: G>T (8 strain(s) in DB)
24: G>C (9 strain(s) in DB)
8782: C>T (1672 strain(s) in DB)
18060: C>T (1069 strain(s) in DB)
28144: T>C (1654 strain(s) in DB)

Insertions:
7: G>GACTGGA (27 strain(s) in DB)
15: C>CGTGTGCT (17 strain(s) in DB)

Deletions:
25: TAAC>T (18 strain(s) in DB)

Indels:
1: A>A... (4882 strain(s) in DB)

hCoV-19/Hangzhou/ZJU-01/2020 (EPI_ISL_415709) (0.56)
BetaCoV/USA/WA6-UW3/2020 (MT163718) (0.32)
hCoV-19/USA/WA18-UW14/2020 (EPI_ISL_413653) (0.31)
hCoV-19/Thailand/NIH-2492-2/2020 (EPI_ISL_434704) (0.3)
hCoV-19/USA/WA-UW67/2020 (MT252793) (0.3)
Guangzhou/GZ8H0003/2020 (CNA0013699) (0.3)
hCoV-19/USA/WA-UW-4009/2020 (MT461604) (0.29)
hCoV-19/USA/WA-UW-542/2020 (MT412250) (0.27)
hCoV-19/USA/WA-UW-4067/2020 (MT461617) (0.27)
hCoV-19/USA/WA-UW-4046/2020 (MT461612) (0.26)
hCoV-19/USA/CA-CZBRR057IX00079/2020 (MT385429) (0.25)
hCoV-19/Hangzhou/ZJU-09/2020EPI_ISL_4168292020-01-28 SNP:
3: T>C (52 strain(s) in DB)
5: A>T (24 strain(s) in DB)
8: G>A (40 strain(s) in DB)
10: T>C (31 strain(s) in DB)
22303: T>G (7 strain(s) in DB)

Insertions:
6: A>A... (19 strain(s) in DB)

Indels:
1: A>A... (4882 strain(s) in DB)

hCoV-19/Hangzhou/ZJU-04/2020 (EPI_ISL_416046) (0.63)
hCoV-19/Saudi Arabia/KAUST-MAKKAH165/2020 (EPI_ISL_437478) (0.5)
hCoV-19/Hangzhou/ZJU-06/2020 (EPI_ISL_416047) (0.38)
hCoV-19/Hangzhou/ZJU-03/2020 (EPI_ISL_416044) (0.36)
hCoV-19/Hangzhou/ZJU-05/2020 (EPI_ISL_415711) (0.33)
BetaCoV/USA/WA6-UW3/2020 (MT163718) (0.29)
hCoV-19/Guangzhou/GZMU0050/2020 (CNA0013947) (0.29)
hCoV-19/Guangzhou/GZMU0041/2020 (CNA0013943) (0.29)
hCoV-19/Hangzhou/ZJU-02/2020 (EPI_ISL_416042) (0.27)
SARS-CoV-2/WH-09/human/2020/CHN (MT093631) (0.27)
hCoV-19/Malaysia/MKAK-CL-2020-5045/2020 (EPI_ISL_416829) (0.25)
hCoV-19/Belgium/DBA-03032/2020 (EPI_ISL_416475)EPI_ISL_4204182020-03-03 SNP:
241: C>T (7669 strain(s) in DB)
3037: C>T (7693 strain(s) in DB)
14408: C>T (7704 strain(s) in DB)
19299: T>G (3 strain(s) in DB)
23403: A>G (7732 strain(s) in DB)
27046: C>T (266 strain(s) in DB)
28881: G>A (2045 strain(s) in DB)
28882: G>A (2040 strain(s) in DB)
28883: G>C (2036 strain(s) in DB)

Deletions:
1: AATTAAAGGTTTATACCTTC...>- (4882 strain(s) in DB)
29870: CAAAAAAAAAAAAAAAAAAA...>C (353 strain(s) in DB)

hCoV-19/Australia/QLDID924/2020 (EPI_ISL_418802) (0.91)
hCoV-19/Belgium/GMH-03022/2020 (EPI_ISL_416468) (0.83)
hCoV-19/Belgium/JRH-030459/2020 (0.83)
hCoV-19/Wales/PHWC-27285/2020 (EPI_ISL_432277) (0.82)
hCoV-19/Northern Ireland/NIRE-FB484/2020 (EPI_ISL_441428) (0.82)
hCoV-19/Vietnam/39607/2020 (EPI_ISL_416428) (0.82)
hCoV-19/Belgium/PC-0325182/2020 (EPI_ISL_420439) (0.82)
hCoV-19/Northern Ireland/NIRE-FB509/2020 (EPI_ISL_441436) (0.82)
hCoV-19/Belgium/NMA-0324169/2020 (EPI_ISL_420426) (0.82)
hCoV-19/Belgium/ML-0324164/2020 (EPI_ISL_420421) (0.82)
hCoV-19/Belgium/NIM-0324161/2020 (EPI_ISL_420418) (0.82)
hCoV-19/Belgium/MTR-03026/2020 (EPI_ISL_416476)EPI_ISL_4204262020-03-02 SNP:
241: C>T (7669 strain(s) in DB)
3037: C>T (7693 strain(s) in DB)
6552: T>G (3 strain(s) in DB)
14408: C>T (7704 strain(s) in DB)
19299: T>G (3 strain(s) in DB)
23403: A>G (7732 strain(s) in DB)
24380: T>A (2 strain(s) in DB)
24383: A>G (2 strain(s) in DB)
24389: A>C (57 strain(s) in DB)
24390: G>C (61 strain(s) in DB)
27046: C>T (266 strain(s) in DB)
28881: G>A (2045 strain(s) in DB)
28882: G>A (2040 strain(s) in DB)
28883: G>C (2036 strain(s) in DB)
29867: T>A (123 strain(s) in DB)

Deletions:
1: AATTAAAGGTTTATACCTTC...>- (4882 strain(s) in DB)
29870: CAAAAAAAAAAAAAAAAAAA...>C (353 strain(s) in DB)

hCoV-19/Belgium/DBA-03032/2020 (EPI_ISL_416475) (0.65)
hCoV-19/Australia/QLDID924/2020 (EPI_ISL_418802) (0.59)
hCoV-19/Belgium/MTR-03021/2020 (EPI_ISL_416467) (0.57)
hCoV-19/Belgium/BC-03016/2020 (EPI_ISL_415157) (0.56)
hCoV-19/Belgium/GMH-03022/2020 (EPI_ISL_416468) (0.56)
hCoV-19/Belgium/JRH-030459/2020 (0.56)
hCoV-19/Northern Ireland/NIRE-FB509/2020 (EPI_ISL_441436) (0.53)
hCoV-19/Belgium/ML-0324164/2020 (EPI_ISL_420421) (0.53)
hCoV-19/Belgium/PC-0325182/2020 (EPI_ISL_420439) (0.53)
hCoV-19/Wales/PHWC-27285/2020 (EPI_ISL_432277) (0.53)
hCoV-19/Belgium/NMA-0324169/2020 (EPI_ISL_420426) (0.53)
hCoV-19/Georgia/Tb-390/2020 (EPI_ISL_416477)EPI_ISL_4201232020-03-08 SNP:
8782: C>T (1672 strain(s) in DB)
9477: T>A (113 strain(s) in DB)
14805: C>T (875 strain(s) in DB)
15359: G>A (1 strain(s) in DB)
25979: G>T (113 strain(s) in DB)
28144: T>C (1654 strain(s) in DB)
28657: C>T (132 strain(s) in DB)
28863: C>T (116 strain(s) in DB)

Deletions:
1: AATT>- (4882 strain(s) in DB)
29837: CCATGTGATTTTAATAGCTT...>C (23 strain(s) in DB)

hCov-19/Chile/Santiago-1/2020 (EPI_ISL_414579) (0.82)
hCoV-19/Netherlands/NoordBrabant_76/2020 (EPI_ISL_422872) (0.73)
hCoV-19/Spain/Valencia56/2020 (EPI_ISL_425180) (0.73)
hCoV-19/Spain/Valencia39/2020 (EPI_ISL_420124) (0.73)
hCoV-19/Poland/Wro-02/2020 (EPI_ISL_437625) (0.73)
hCoV-19/Chile/Santiago_op3d1/2020 (EPI_ISL_415660) (0.73)
hCoV-19/USA/NY2-PV08100/2020 (MT370842) (0.73)
hCoV-19/Spain/Valencia54/2020 (EPI_ISL_425178) (0.73)
hCoV-19/Spain/Valencia55/2020 (EPI_ISL_425179) (0.73)
hCoV-19/Chile/Santiago_op2d1/2020 (EPI_ISL_415658) (0.73)
hCoV-19/Spain/Valencia38/2020 (EPI_ISL_420123) (0.73)
nCoV-19/Georgia/Tb-673/2020 (EPI_ISL_416478)EPI_ISL_4257032020-03-14 SNP:
241: C>T (7669 strain(s) in DB)
1059: C>T (2820 strain(s) in DB)
1385: C>T (4 strain(s) in DB)
3037: C>T (7693 strain(s) in DB)
8566: T>C (6 strain(s) in DB)
14408: C>T (7704 strain(s) in DB)
23403: A>G (7732 strain(s) in DB)
25563: G>T (3418 strain(s) in DB)

Deletions:
1: AATT>- (4882 strain(s) in DB)
29836: CCCATGTGATTTTAATAGCT...>C (754 strain(s) in DB)

hCoV-19/USA/CA-MG0987/2020 (EPI_ISL_416457) (0.8)
hCoV-19/USA/NY-Wadsworth-11735-01/2020 (EPI_ISL_426290) (0.8)
hCoV-19/USA/WI-11/2020 (EPI_ISL_417505) (0.8)
hCoV-19/USA/MN66-MDH66/2020 (EPI_ISL_419394) (0.8)
hCoV-19/USA/MN129-MDH129/2020 (EPI_ISL_421685) (0.8)
hCoV-19/USA/WI-UW-268/2020 (MT429190) (0.8)
hCoV-19/USA/WI-125/2020 (EPI_ISL_427432) (0.8)
hCoV-19/USA/WI-250/2020 (EPI_ISL_428724) (0.8)
hCoV-19/USA/WI-98/2020 (EPI_ISL_425155) (0.8)
hCoV-19/USA/WI-118/2020 (EPI_ISL_425175) (0.8)
hCoV-19/Scotland/CVR164/2020 (EPI_ISL_425703) (0.8)
nCoV-19/Georgia/Tb-273/2020 (EPI_ISL_416479)EPI_ISL_4274412020-03-05 SNP:
241: C>T (7669 strain(s) in DB)
3037: C>T (7693 strain(s) in DB)
14408: C>T (7704 strain(s) in DB)
23403: A>G (7732 strain(s) in DB)
28688: T>C (152 strain(s) in DB)

Deletions:
1: AATT>- (4882 strain(s) in DB)
29836: CCCATGTGATTTTAATAGCT...>C (754 strain(s) in DB)

hCoV-19/USA/MN43-MDH43/2020 (EPI_ISL_417479) (0.86)
hCoV-19/USA/MN58-MDH58/2020 (EPI_ISL_417502) (0.86)
hCoV-19/USA/MN133-MDH133/2020 (EPI_ISL_421689) (0.86)
hCoV-19/Scotland/CVR62/2020 (EPI_ISL_425790) (0.86)
hCoV-19/USA/WI-151/2020 (EPI_ISL_427458) (0.86)
hCoV-19/Wales/PHW1/2020 (EPI_ISL_413555) (0.86)
hCoV-19/Scotland/CVR54/2020 (EPI_ISL_425783) (0.86)
hCoV-19/Scotland/CVR247/2020 (EPI_ISL_438913) (0.86)
hCoV-19/Scotland/CVR131/2020 (EPI_ISL_425674) (0.86)
hCoV-19/USA/WI-UW-265/2020 (MT429187) (0.86)
hCoV-19/USA/WI-134/2020 (EPI_ISL_427441) (0.86)
nCoV-19/Georgia/Tb-537/2020 (EPI_ISL_416480)MT4509842020-03-11 SNP:
915: A>G (3 strain(s) in DB)
11083: G>T (1220 strain(s) in DB)
23522: G>C (2 strain(s) in DB)
26144: G>T (818 strain(s) in DB)

Deletions:
1: AATT>- (4882 strain(s) in DB)
29837: CCATGTGATTTTAATAGCTT...>C (23 strain(s) in DB)

hCoV-19/Georgia/Tb-54/2020 (EPI_ISL_415641) (0.57)
hCoV-19/Georgia/Tb-468/2020 (EPI_ISL_415643) (0.5)
SARS-CoV-2/human/ITA/INMI1/2020 (MT077125) (0.43)
hCoV-19/Spain/Valencia124/2020 (EPI_ISL_436219) (0.43)
hCoV-19/Spain/Valencia115/2020 (EPI_ISL_436210) (0.43)
BetaCoV/Italy/INMI1-cs/2020 (EPI_ISL_410546) (0.43)
hCoV-19/Australia/VIC301/2020 (MT451193) (0.38)
hCoV-19/Spain/Madrid_H2_16/2020 (EPI_ISL_417952) (0.38)
SARS-CoV-2/human/ESP/Valencia11/2020 (MT292572) (0.38)
hCoV-19/Australia/VIC327/2020 (MT451219) (0.38)
hCoV-19/Australia/VIC70/2020 (MT450984) (0.38)
nCoV-19/Ge/Tb-712/2020 (EPI_ISL_416481)EPI_ISL_4229482020-03-16 SNP:
241: C>T (7669 strain(s) in DB)
3037: C>T (7693 strain(s) in DB)
14408: C>T (7704 strain(s) in DB)
20268: A>G (601 strain(s) in DB)
23403: A>G (7732 strain(s) in DB)

Deletions:
1: AATT>- (4882 strain(s) in DB)
29837: CCATGTGATTTTAATAGCTT...>C (23 strain(s) in DB)

hCoV-19/Spain/VH000001133/2020 (MT359865) (0.86)
hCoV-19/USA/CA-CZBRR057IX00067/2020 (MT385453) (0.86)
hCoV-19/Australia/VIC114/2020 (MT451023) (0.86)
hCoV-19/Australia/VIC91/2020 (MT451001) (0.75)
hCoV-19/Wales/PHWC-26ECE/2020 (EPI_ISL_422090) (0.75)
hCoV-19/Switzerland/GE3121/2020 (EPI_ISL_414019) (0.75)
hCoV-19/Switzerland/GE5373/2020 (EPI_ISL_414020) (0.75)
hCoV-19/USA/AK-PHL06/2020 (EPI_ISL_420305) (0.75)
hCoV-19/Australia/VIC154/2020 (MT451058) (0.75)
hCoV-19/Spain/Valencia296/2020 (EPI_ISL_436391) (0.75)
hCoV-19/Netherlands/ZuidHolland_80/2020 (EPI_ISL_422948) (0.75)
nCoV-19/Georgia/Tb/2020 (EPI_ISL_416482)EPI_ISL_4257832020-03-13 SNP:
241: C>T (7669 strain(s) in DB)
3037: C>T (7693 strain(s) in DB)
14408: C>T (7704 strain(s) in DB)
23403: A>G (7732 strain(s) in DB)
24077: G>T (20 strain(s) in DB)

Deletions:
1: AATT>- (4882 strain(s) in DB)
29836: CCCATGTGATTTTAATAGCT...>C (754 strain(s) in DB)

hCoV-19/USA/WI-151/2020 (EPI_ISL_427458) (0.86)
hCoV-19/USA/WI-UW-265/2020 (MT429187) (0.86)
hCoV-19/Scotland/CVR131/2020 (EPI_ISL_425674) (0.86)
hCoV-19/USA/MN58-MDH58/2020 (EPI_ISL_417502) (0.86)
hCoV-19/Scotland/CVR247/2020 (EPI_ISL_438913) (0.86)
hCoV-19/Wales/PHW1/2020 (EPI_ISL_413555) (0.86)
hCoV-19/USA/WI-134/2020 (EPI_ISL_427441) (0.86)
hCoV-19/USA/MN133-MDH133/2020 (EPI_ISL_421689) (0.86)
hCoV-19/Scotland/CVR62/2020 (EPI_ISL_425790) (0.86)
hCoV-19/USA/MN43-MDH43/2020 (EPI_ISL_417479) (0.86)
hCoV-19/Scotland/CVR54/2020 (EPI_ISL_425783) (0.86)
hCoV-19/Poland/PL_P1/2020 (EPI_ISL_416488)EPI_ISL_4164882020-03-03 SNP:
198: G>A (2 strain(s) in DB)
1440: G>A (174 strain(s) in DB)
2891: G>A (171 strain(s) in DB)

hCoV-19/USA/WI2/2020 (EPI_ISL_416489)EPI_ISL_4164892020-03-15 SNP:
241: C>T (7669 strain(s) in DB)
3037: C>T (7693 strain(s) in DB)
14408: C>T (7704 strain(s) in DB)
17639: C>T (11 strain(s) in DB)
20268: A>G (601 strain(s) in DB)
23403: A>G (7732 strain(s) in DB)
28638: C>T (8 strain(s) in DB)
29640: C>T (6 strain(s) in DB)

Deletions:
1: AA>- (4882 strain(s) in DB)
11074: CT>C (49 strain(s) in DB)
29873: AAAAAAAAAAAAAAAAAAAA...>A (124 strain(s) in DB)

hCoV-19/USA/WI4/2020 (EPI_ISL_416491)MT3650332020-03-15 SNP:
241: C>T (7669 strain(s) in DB)
1059: C>T (2820 strain(s) in DB)
3037: C>T (7693 strain(s) in DB)
14408: C>T (7704 strain(s) in DB)
15760: G>A (18 strain(s) in DB)
23403: A>G (7732 strain(s) in DB)
25563: G>T (3418 strain(s) in DB)

Deletions:
1: AATTAAAGGTTTATACCTTC...>- (4882 strain(s) in DB)
11074: CT>C (49 strain(s) in DB)
29867: TGACAAAAAAAAAAAAAAAA...>T (123 strain(s) in DB)

hCoV-19/USA/WA-UW104/2020 (MT252768) (0.73)
hCoV-19/USA/AK-PHL034/2020 (EPI_ISL_437513) (0.73)
hCoV-19/USA/WI-92/2020 (EPI_ISL_425149) (0.73)
SARS-CoV-2/human/TWN/CGMH-CGU-14/2020 (MT374110) (0.7)
hCoV-19/USA/WI-74/2020 (EPI_ISL_421332) (0.7)
hCoV-19/Australia/VIC279/2020 (MT451175) (0.7)
hCoV-19/USA/WA-UW-3883/2020 (MT358702) (0.7)
hCoV-19/USA/WI-29/2020 (EPI_ISL_421287) (0.7)
hCoV-19/Australia/VIC207/2020 (MT451108) (0.7)
hCoV-19/Taiwan/CGMH-CGU-14/2020 (EPI_ISL_424970) (0.7)
SARS-CoV-2/tiger/NY/040420/2020 (MT365033) (0.7)
hCoV-19/USA/WI-05/2020 (EPI_ISL_416492)MT3741102020-03-15 SNP:
241: C>T (7669 strain(s) in DB)
1059: C>T (2820 strain(s) in DB)
3037: C>T (7693 strain(s) in DB)
14408: C>T (7704 strain(s) in DB)
15760: G>A (18 strain(s) in DB)
23403: A>G (7732 strain(s) in DB)
25563: G>T (3418 strain(s) in DB)
29868: G>T (177 strain(s) in DB)

Deletions:
1: AATTAAAGGTTTATACCTTC...>- (4882 strain(s) in DB)
1813: TA>T (16 strain(s) in DB)
11074: CT>C (49 strain(s) in DB)
29875: AAAAAAAAAAAAAAAAAAAA...>A (78 strain(s) in DB)

hCoV-19/USA/WI4/2020 (EPI_ISL_416491) (0.69)
hCoV-19/Norway/1951/2020 (EPI_ISL_420145) (0.67)
hCoV-19/USA/WA-UW-2091/2020 (MT345798) (0.67)
hCoV-19/USA/AK-PHL034/2020 (EPI_ISL_437513) (0.62)
hCoV-19/USA/WA-UW237/2020 (MT251973) (0.62)
hCoV-19/USA/WA-UW110/2020 (MT252774) (0.62)
hCoV-19/USA/WA-UW104/2020 (MT252768) (0.62)
hCoV-19/USA/WA-UW-1689/2020 (MT326136) (0.62)
hCoV-19/USA/WI-92/2020 (EPI_ISL_425149) (0.62)
hCoV-19/USA/VA-DCLS-0159/2020 (MT482139) (0.62)
SARS-CoV-2/human/TWN/CGMH-CGU-14/2020 (MT374110) (0.58)
hCoV-19/France/HF2196/2020 (EPI_ISL_416493)EPI_ISL_4164932020-03-08 SNP:
241: C>T (7669 strain(s) in DB)
3037: C>T (7693 strain(s) in DB)
14408: C>T (7704 strain(s) in DB)
15324: C>T (278 strain(s) in DB)
23403: A>G (7732 strain(s) in DB)

Deletions:
29882: AAAAAAAAAAAAAAAAAAAA...>A (514 strain(s) in DB)

hCoV-19/France/N2223/2020 (EPI_ISL_416494)EPI_ISL_4253122020-03-04 SNP:
187: A>G (94 strain(s) in DB)
241: C>T (7669 strain(s) in DB)
3037: C>T (7693 strain(s) in DB)
14408: C>T (7704 strain(s) in DB)
23403: A>G (7732 strain(s) in DB)

Deletions:
29864: GAATGACAAAAAAAAAAAAA...>G (204 strain(s) in DB)

hCoV-19/Scotland/EDB801/2020 (EPI_ISL_433248) (0.83)
hCoV-19/England/CAMB-745AE/2020 (EPI_ISL_425310) (0.83)
hCoV-19/England/CAMB-745EA/2020 (EPI_ISL_425314) (0.83)
hCoV-19/England/CAMB-7379A/2020 (EPI_ISL_425236) (0.83)
hCoV-19/England/CAMB-73B70/2020 (EPI_ISL_433668) (0.83)
hCoV-19/England/CAMB-743FF/2020 (EPI_ISL_425287) (0.83)
hCoV-19/England/CAMB-78355/2020 (EPI_ISL_433721) (0.83)
hCoV-19/England/CAMB-7459F/2020 (EPI_ISL_425309) (0.83)
hCoV-19/Germany/BAV-MVP0100/2020 (EPI_ISL_437291) (0.83)
hCoV-19/England/CAMB-76E74/2020 (EPI_ISL_425434) (0.83)
hCoV-19/England/CAMB-745CC/2020 (EPI_ISL_425312) (0.83)
hCoV-19/France/HF2234/2020 (EPI_ISL_416495)EPI_ISL_4360412020-03-10 SNP:
241: C>T (7669 strain(s) in DB)
1059: C>T (2820 strain(s) in DB)
3037: C>T (7693 strain(s) in DB)
14408: C>T (7704 strain(s) in DB)
18682: A>G (1 strain(s) in DB)
23403: A>G (7732 strain(s) in DB)
25563: G>T (3418 strain(s) in DB)
29739: C>T (8 strain(s) in DB)

Deletions:
29882: AAAAAAAAAAAAAAAAAAAA...>A (514 strain(s) in DB)

hCov-19/USA/NY_2929/2020 (MT304486) (0.78)
SARS-CoV-2/human/USA/RI_0702/2020 (MT325605) (0.78)
hCoV-19/USA/NY_1922/2020 (EPI_ISL_424906) (0.78)
hCoV-19/France/B2346/2020 (EPI_ISL_416510) (0.78)
hCoV-19/USA/OH_0023/2020 (EPI_ISL_424880) (0.78)
hCoV-19/USA/RI_0702/2020 (EPI_ISL_424887) (0.78)
hCoV-19/France/HF2381/2020 (EPI_ISL_418226) (0.78)
SARS-CoV-2/human/USA/OH_0023/2020 (MT325598) (0.78)
SARS-CoV-2/human/USA/NY_1922/2020 (MT325627) (0.78)
hCoV-19/France/IDF2075/2020 (EPI_ISL_415650) (0.7)
hCoV-19/USA/DC-CDC-9092/2020 (EPI_ISL_436041) (0.7)
hCoV-19/France/HF2237/2020 (EPI_ISL_416496)EPI_ISL_4177422020-03-10 SNP:
241: C>T (7669 strain(s) in DB)
1059: C>T (2820 strain(s) in DB)
3037: C>T (7693 strain(s) in DB)
14408: C>T (7704 strain(s) in DB)
23403: A>G (7732 strain(s) in DB)
25563: G>T (3418 strain(s) in DB)
26459: A>G (3 strain(s) in DB)
27490: G>T (1 strain(s) in DB)

Deletions:
29869: ACAAAAAAAAAAAAAAAAAA...>A (89 strain(s) in DB)

hCoV-19/Luxembourg/LNS3052946/2020 (EPI_ISL_421748) (0.78)
hCoV-19/France/HF1465/2020 (EPI_ISL_418218) (0.7)
hCoV-19/USA/WA-UW-6535/2020 (MT461656) (0.7)
hCoV-19/Germany/NRW-42/2020 (MT582458) (0.67)
hCoV-19/Iceland/110/2020 (0.67)
hCoV-19/Denmark/ALAB-SSI413/2020 (EPI_ISL_429509) (0.67)
hCoV-19/Denmark/ALAB-SSI414/2020 (EPI_ISL_429511) (0.67)
hCoV-19/Iceland/61/2020 (0.67)
hCoV-19/Denmark/ALAB-SSI416/2020 (EPI_ISL_429513) (0.67)
hCoV-19/Denmark/ALAB-SSI417/2020 (EPI_ISL_429514) (0.67)
hCoV-19/Iceland/197/2020 (0.67)
hCoV-19/France/HF2239/2020 (EPI_ISL_416497)EPI_ISL_4248442020-03-10 SNP:
4: A>T (66 strain(s) in DB)
241: C>T (7669 strain(s) in DB)
2416: C>T (203 strain(s) in DB)
3037: C>T (7693 strain(s) in DB)
12722: T>C (3 strain(s) in DB)
14408: C>T (7704 strain(s) in DB)
23403: A>G (7732 strain(s) in DB)
25563: G>T (3418 strain(s) in DB)

Deletions:
29862: GAGAATGACAAAAAAAAAAA...>G (145 strain(s) in DB)

hCoV-19/France/HF1995/2020 (EPI_ISL_414638) (0.78)
hCoV-19/Sweden/20-50230/2020 (EPI_ISL_429155) (0.67)
hCoV-19/France/HF1684/2020 (EPI_ISL_414626) (0.67)
hCoV-19/Russia/Vector_71403/2020 (EPI_ISL_428880) (0.67)
hCoV-19/Sweden/20-50231/2020 (EPI_ISL_430863) (0.67)
hCoV-19/USA/NY-NYUMC32/2020 (EPI_ISL_418978) (0.67)
hCoV-19/Taiwan/TSGH-18/2020 (EPI_ISL_436103) (0.64)
SARS-CoV-2/human/USA/PA_2317/2020 (MT325601) (0.6)
SARS-CoV-2/human/USA/PA_1881/2020 (MT325600) (0.6)
hCoV-19/USA/KS_4126/2020 (EPI_ISL_424867) (0.6)
hCoV-19/USA/MA_3672/2020 (EPI_ISL_424844) (0.6)
hCoV-19/France/IDF2256/2020 (EPI_ISL_416498)EPI_ISL_4293772020-03-11 SNP:
241: C>T (7669 strain(s) in DB)
1059: C>T (2820 strain(s) in DB)
3037: C>T (7693 strain(s) in DB)
10582: C>T (44 strain(s) in DB)
14408: C>T (7704 strain(s) in DB)
23403: A>G (7732 strain(s) in DB)
23707: C>T (40 strain(s) in DB)
25563: G>T (3418 strain(s) in DB)

Deletions:
29864: GAATGACAAAAAAAAAAAAA...>G (204 strain(s) in DB)

hCoV-19/France/IDF3509/2020 (EPI_ISL_428351) (1)
hCoV-19/France/IDF2253/2020 (EPI_ISL_428357) (0.8)
hCoV-19/France/IDF2252/2020 (EPI_ISL_428356) (0.8)
hCoV-19/USA/WA-S657/2020 (EPI_ISL_438210) (0.78)
hCoV-19/Scotland/EDB1701/2020 (EPI_ISL_433122) (0.7)
hCoV-19/Scotland/EDB124/2020 (EPI_ISL_425906) (0.7)
hCoV-19/USA/WA-UW140/2020 (MT252756) (0.7)
hCoV-19/Scotland/EDB125/2020 (EPI_ISL_425907) (0.7)
hCoV-19/Scotland/EDB389/2020 (EPI_ISL_425992) (0.7)
hCoV-19/Scotland/EDB412/2020 (EPI_ISL_426003) (0.7)
hCoV-19/Denmark/ALAB-SSI162/2020 (EPI_ISL_429377) (0.67)
hCoV-19/France/IDF2278/2020 (EPI_ISL_416499)EPI_ISL_4206202020-03-11 SNP:
241: C>T (7669 strain(s) in DB)
3037: C>T (7693 strain(s) in DB)
14408: C>T (7704 strain(s) in DB)
15324: C>T (278 strain(s) in DB)
23403: A>G (7732 strain(s) in DB)
27208: C>T (4 strain(s) in DB)

Deletions:
29881: AAAAAAAAAAAAAAAAAAAA...>A (31 strain(s) in DB)

hCoV-19/France/IDF3230/2020 (EPI_ISL_420063) (0.75)
hCoV-19/England/20146060504/2020 (EPI_ISL_423583) (0.71)
hCoV-19/Belgium/ULG-10030/2020 (EPI_ISL_421204) (0.71)
hCoV-19/Belgium/ULG-10142/2020 (EPI_ISL_427385) (0.71)
hCoV-19/Hungary/MBL-003/2020 (EPI_ISL_435421) (0.71)
hCoV-19/USA/WI-82/2020 (EPI_ISL_421341) (0.71)
hCoV-19/Scotland/CVR1022/2020 (EPI_ISL_433499) (0.71)
hCoV-19/USA/TX-HMH214/2020 (EPI_ISL_434889) (0.71)
hCoV-19/Latvia/0008/2020 (EPI_ISL_426288) (0.63)
hCoV-19/France/IDF3518/2020 (EPI_ISL_428352) (0.63)
hCoV-19/France/ARA12996/2020 (EPI_ISL_420620) (0.63)
hCoV-19/France/IDF2279/2020EPI_ISL_4165002020-03-11
hCoV-19/France/IDF2284/2020EPI_ISL_4165012020-03-10
hCoV-19/France/B2330/2020 (EPI_ISL_416502)EPI_ISL_4246102020-02-26 SNP:
241: C>T (7669 strain(s) in DB)
1059: C>T (2820 strain(s) in DB)
3037: C>T (7693 strain(s) in DB)
12866: G>A (1 strain(s) in DB)
14408: C>T (7704 strain(s) in DB)
23403: A>G (7732 strain(s) in DB)
25563: G>T (3418 strain(s) in DB)

Deletions:
29837: CCATGTGATTTTAATAGCTT...>C (23 strain(s) in DB)

hCoV-19/France/B2348/2020 (EPI_ISL_416511) (0.78)
hCoV-19/Iceland/57/2020 (0.75)
hCoV-19/Scotland/EDB694/2020 (EPI_ISL_433224) (0.75)
hCoV-19/Denmark/ALAB-HH43/2020 (EPI_ISL_429299) (0.75)
hCoV-19/USA/CA-SR0245/2020 (EPI_ISL_437564) (0.75)
hCoV-19/Iceland/219/2020 (0.75)
hCoV-19/Iceland/217/2020 (0.75)
hCoV-19/Iceland/216/2020 (0.75)
hCoV-19/Denmark/ALAB-HH82/2020 (EPI_ISL_429323) (0.75)
hCoV-19/Denmark/ALAB-HH75/2020 (EPI_ISL_429316) (0.75)
hCoV-19/Iceland/590/2020 (0.75)
hCoV-19/France/B2334/2020 (EPI_ISL_416503)EPI_ISL_4327862020-03-01 SNP:
3987: C>T (2 strain(s) in DB)
5357: G>T (1 strain(s) in DB)
11083: G>T (1220 strain(s) in DB)
20887: G>A (6 strain(s) in DB)
26144: G>T (818 strain(s) in DB)

Deletions:
29873: AAAAAAAAAAAAAAAAAAAA...>A (124 strain(s) in DB)

hCoV-19/France/B2340/2020 (EPI_ISL_416507) (0.5)
hCoV-19/Norway/1694/2020 (EPI_ISL_420136) (0.38)
hCoV-19/Italy/SPL1/2020 (0.33)
hCoV-19/Austria/CeMM0254/2020 (EPI_ISL_438083) (0.3)
hCoV-19/England/SHEF-C2626/2020 (EPI_ISL_432746) (0.29)
hCoV-19/USA/WA-S413/2020 (MT633044) (0.29)
hCoV-19/Taiwan/TSGH-06/2020 (EPI_ISL_427393) (0.29)
hCoV-19/England/SHEF-CD97D/2020 (EPI_ISL_432551) (0.29)
hCoV-19/Spain/Madrid201738/2020 (EPI_ISL_419237) (0.29)
hCoV-19/England/SHEF-C0163/2020 (EPI_ISL_420255) (0.29)
hCoV-19/England/SHEF-C426C/2020 (EPI_ISL_432786) (0.29)
hCoV-19/France/B2335/2020EPI_ISL_4165042020-03-02
hCoV-19/France/B2336/2020 (EPI_ISL_416505)EPI_ISL_4165052020-03-02 SNP:
241: C>T (7669 strain(s) in DB)
1059: C>T (2820 strain(s) in DB)
3037: C>T (7693 strain(s) in DB)
14408: C>T (7704 strain(s) in DB)
23403: A>G (7732 strain(s) in DB)
25563: G>T (3418 strain(s) in DB)

Deletions:
29868: GACAAAAAAAAAAAAAAAAA...>G (177 strain(s) in DB)

hCoV-19/France/B2337/2020 (EPI_ISL_416506)EPI_ISL_4346842020-03-03 SNP:
241: C>T (7669 strain(s) in DB)
1059: C>T (2820 strain(s) in DB)
3037: C>T (7693 strain(s) in DB)
14408: C>T (7704 strain(s) in DB)
23403: A>G (7732 strain(s) in DB)
25563: G>T (3418 strain(s) in DB)

Deletions:
29867: TGACAAAAAAAAAAAAAAAA...>T (123 strain(s) in DB)

hCoV-19/Luxembourg/LNS1644489/2020 (EPI_ISL_421740) (1)
hCoV-19/USA/NY-NYUMC302/2020 (EPI_ISL_430329) (0.86)
hCoV-19/Denmark/ALAB-SSI139/2020 (EPI_ISL_429358) (0.86)
hCoV-19/USA/MD-HP024/2020 (EPI_ISL_434685) (0.86)
hCoV-19/USA/MD-HP010/2020 (EPI_ISL_434689) (0.86)
hCoV-19/Denmark/ALAB-SSI128/2020 (EPI_ISL_429355) (0.86)
hCoV-19/USA/MD-HP015/2020 (EPI_ISL_434690) (0.86)
hCoV-19/Denmark/ALAB-SSI129/2020 (EPI_ISL_429356) (0.86)
hCoV-19/Denmark/ALAB-SSI132/2020 (EPI_ISL_429357) (0.86)
hCoV-19/Iceland/380/2020 (0.86)
hCoV-19/USA/MD-HP023/2020 (EPI_ISL_434684) (0.86)
hCoV-19/France/B2340/2020 (EPI_ISL_416507)EPI_ISL_4186762020-03-05 SNP:
3987: C>T (2 strain(s) in DB)
11083: G>T (1220 strain(s) in DB)
20887: G>A (6 strain(s) in DB)
23084: T>C (2 strain(s) in DB)
26144: G>T (818 strain(s) in DB)

Deletions:
29877: AAAAAAAAAAAAAAAAAAAA...>A (104 strain(s) in DB)

hCoV-19/France/B2334/2020 (EPI_ISL_416503) (0.5)
hCoV-19/Italy/SPL1/2020 (0.33)
hCoV-19/USA/WA-S413/2020 (MT633044) (0.29)
hCoV-19/England/SHEF-C426C/2020 (EPI_ISL_432786) (0.29)
hCoV-19/England/SHEF-CD97D/2020 (EPI_ISL_432551) (0.29)
hCoV-19/England/SHEF-C0163/2020 (EPI_ISL_420255) (0.29)
hCoV-19/England/SHEF-C2626/2020 (EPI_ISL_432746) (0.29)
hCoV-19/Spain/Madrid201738/2020 (EPI_ISL_419237) (0.29)
hCoV-19/Taiwan/TSGH-06/2020 (EPI_ISL_427393) (0.29)
hCoV-19/England/20109050706/2020 (EPI_ISL_417268) (0.25)
hCoV-19/England/20122074602/2020 (EPI_ISL_418676) (0.25)
hCoV-19/France/B2343/2020EPI_ISL_4165082020-03-06
hCoV-19/France/B2344/2020 (EPI_ISL_416509)EPI_ISL_4276082020-03-06 SNP:
241: C>T (7669 strain(s) in DB)
1059: C>T (2820 strain(s) in DB)
1547: A>G (9 strain(s) in DB)
3037: C>T (7693 strain(s) in DB)
14408: C>T (7704 strain(s) in DB)
21920: G>A (5 strain(s) in DB)
23403: A>G (7732 strain(s) in DB)
25563: G>T (3418 strain(s) in DB)

Deletions:
29871: AAAAAAAAAAAAAAAAAAAA...>A (158 strain(s) in DB)

hCoV-19/USA/NY-WCMP10A06P/2020 (EPI_ISL_427555) (0.78)
hCoV-19/USA/NY-WCMP5H02P/2020 (EPI_ISL_427542) (0.78)
hCoV-19/USA/NY-WCMP11H06P/2020 (EPI_ISL_427598) (0.78)
hCoV-19/USA/NY-WCMP4B06P/2020 (EPI_ISL_427532) (0.7)
hCoV-19/USA/NY-WCMP9B09P/2020 (EPI_ISL_427549) (0.7)
hCoV-19/Norway/1917/2020 (EPI_ISL_420143) (0.7)
hCoV-19/USA/NY-WCMP2C03P/2020 (EPI_ISL_427526) (0.7)
hCoV-19/Austria/CeMM0139/2020 (EPI_ISL_437991) (0.7)
hCoV-19/France/B2349/2020 (EPI_ISL_416512) (0.7)
hCoV-19/USA/NY-WCMP4H03P/2020 (EPI_ISL_427539) (0.7)
hCoV-19/USA/NY-WCMP12E09P/2020 (EPI_ISL_427608) (0.7)
hCoV-19/France/B2346/2020 (EPI_ISL_416510)EPI_ISL_4165102020-03-06 SNP:
241: C>T (7669 strain(s) in DB)
1059: C>T (2820 strain(s) in DB)
3037: C>T (7693 strain(s) in DB)
14408: C>T (7704 strain(s) in DB)
23403: A>G (7732 strain(s) in DB)
25563: G>T (3418 strain(s) in DB)

Deletions:
29882: AAAAAAAAAAAAAAAAAAAA...>A (514 strain(s) in DB)

hCoV-19/France/B2348/2020 (EPI_ISL_416511)EPI_ISL_4292832020-03-07 SNP:
241: C>T (7669 strain(s) in DB)
1059: C>T (2820 strain(s) in DB)
3037: C>T (7693 strain(s) in DB)
5608: A>G (3 strain(s) in DB)
14408: C>T (7704 strain(s) in DB)
23403: A>G (7732 strain(s) in DB)
25563: G>T (3418 strain(s) in DB)

Deletions:
29837: CCATGTGATTTTAATAGCTT...>C (23 strain(s) in DB)

hCoV-19/France/B2330/2020 (EPI_ISL_416502) (0.78)
hCoV-19/Denmark/ALAB-SSI123/2020 (EPI_ISL_429352) (0.75)
hCoV-19/USA/TX-HMH357/2020 (EPI_ISL_434950) (0.75)
hCoV-19/Denmark/ALAB-HH43/2020 (EPI_ISL_429299) (0.75)
hCoV-19/Iceland/158/2020 (0.75)
hCoV-19/Denmark/ALAB-HH75/2020 (EPI_ISL_429316) (0.75)
hCoV-19/Iceland/216/2020 (0.75)
hCoV-19/Iceland/217/2020 (0.75)
hCoV-19/Iceland/219/2020 (0.75)
hCoV-19/Denmark/ALAB-HH82/2020 (EPI_ISL_429323) (0.75)
hCoV-19/Denmark/ALAB-HH25/2020 (EPI_ISL_429283) (0.75)
hCoV-19/France/B2349/2020 (EPI_ISL_416512)EPI_ISL_4178442020-03-07 SNP:
241: C>T (7669 strain(s) in DB)
1059: C>T (2820 strain(s) in DB)
3037: C>T (7693 strain(s) in DB)
14408: C>T (7704 strain(s) in DB)
21920: G>A (5 strain(s) in DB)
23403: A>G (7732 strain(s) in DB)
25563: G>T (3418 strain(s) in DB)

Deletions:
29800: GCCCTAATGTGTAAAATTAA...>G (3 strain(s) in DB)

hCoV-19/Russia/Vector_66501/2020 (EPI_ISL_428871) (0.75)
hCoV-19/USA/NY-NYUMC85/2020 (EPI_ISL_421586) (0.75)
hCoV-19/Iceland/81/2020 (0.75)
hCoV-19/Iceland/80/2020 (0.75)
hCoV-19/Iceland/66/2020 (0.75)
SARS-CoV-2/human/USA/AZ-ASU2936/2020 (0.75)
hCoV-19/Denmark/ALAB-SSI150/2020 (EPI_ISL_429368) (0.75)
hCoV-19/Iceland/6/2020 (0.75)
hCoV-19/Iceland/59/2020 (0.75)
hCoV-19/Iceland/40/2020 (0.75)
hCoV-19/Iceland/36/2020 (0.75)
hCoV-19/France/B2351/2020 (EPI_ISL_416513)EPI_ISL_4381582020-03-07 SNP:
241: C>T (7669 strain(s) in DB)
1059: C>T (2820 strain(s) in DB)
3037: C>T (7693 strain(s) in DB)
14408: C>T (7704 strain(s) in DB)
18928: C>T (9 strain(s) in DB)
21920: G>A (5 strain(s) in DB)
23403: A>G (7732 strain(s) in DB)
25563: G>T (3418 strain(s) in DB)

Deletions:
29881: AAAAAAAAAAAAAAAAAAAA...>A (31 strain(s) in DB)

hCoV-19/France/B2349/2020 (EPI_ISL_416512) (0.7)
hCoV-19/Denmark/ALAB-SSI300/2020 (EPI_ISL_429451) (0.67)
hCoV-19/Denmark/ALAB-SSI464/2020 (EPI_ISL_429545) (0.67)
hCoV-19/Sweden/20-08146/2020 (EPI_ISL_429118) (0.67)
hCoV-19/USA/WA-S591/2020 (EPI_ISL_438144) (0.67)
hCoV-19/USA/WA-S596/2020 (EPI_ISL_438149) (0.67)
hCoV-19/USA/WI-68/2020 (EPI_ISL_421326) (0.67)
hCoV-19/USA/WA-S601/2020 (EPI_ISL_438154) (0.67)
hCoV-19/Iceland/286/2020 (0.67)
hCoV-19/Germany/BAV-MVP0054/2020 (EPI_ISL_437253) (0.67)
hCoV-19/USA/WA-S605/2020 (EPI_ISL_438158) (0.67)
hCoV-19/NewZealand/20VR0189/2020 (EPI_ISL_416519)EPI_ISL_4165192020-03-02 SNP:
241: C>T (7669 strain(s) in DB)
3037: C>T (7693 strain(s) in DB)
14408: C>T (7704 strain(s) in DB)
23403: A>G (7732 strain(s) in DB)
28881: G>A (2045 strain(s) in DB)
28882: G>A (2040 strain(s) in DB)
28883: G>C (2036 strain(s) in DB)

hCoV-19/NewZealand/20VR019/2020EPI_ISL_4165202020-03-04
hCoV-19/SaudiArabia/SCDC-3321/2020 (EPI_ISL_416521)EPI_ISL_4374932020-03-10 SNP:
10: T>C (31 strain(s) in DB)
241: C>T (7669 strain(s) in DB)
3037: C>T (7693 strain(s) in DB)
14408: C>T (7704 strain(s) in DB)
18877: C>T (375 strain(s) in DB)
23403: A>G (7732 strain(s) in DB)
25563: G>T (3418 strain(s) in DB)
26735: C>T (129 strain(s) in DB)

Deletions:
29891: AAAAAAAAAAAAA>A (154 strain(s) in DB)

Indels:
2: TTA>C (55 strain(s) in DB)
9: T>CCAAACTGTCA (22 strain(s) in DB)

hCoV-19/SaudiArabia/SCDC-3324/2020 (EPI_ISL_416522) (1)
hCoV-19/Saudi Arabia/KAUST-Madinah30/2020 (EPI_ISL_437485) (0.64)
hCoV-19/Saudi Arabia/KAUST-MADINAH258/2020 (EPI_ISL_437742) (0.64)
hCoV-19/Saudi Arabia/KAUST-MADINAH249/2020 (EPI_ISL_437735) (0.64)
hCoV-19/Saudi Arabia/KAUST-MAKKAH179/2020 (EPI_ISL_437702) (0.64)
hCoV-19/Saudi Arabia/KAUST-Madinah47/2020 (EPI_ISL_437487) (0.64)
hCoV-19/Saudi Arabia/KAUST-Madinah48/2020 (EPI_ISL_437488) (0.64)
hCoV-19/Saudi Arabia/KAUST-MADINAH254/2020 (EPI_ISL_437738) (0.64)
hCoV-19/Saudi Arabia/KAUST-Madinah24/2020 (EPI_ISL_437483) (0.64)
hCoV-19/Saudi Arabia/KAUST-MAKKAH177/2020 (EPI_ISL_437700) (0.64)
hCoV-19/Saudi Arabia/KAUST-Madinah54/2020 (EPI_ISL_437493) (0.64)
hCoV-19/SaudiArabia/SCDC-3324/2020 (EPI_ISL_416522)EPI_ISL_4374932020-03-10 SNP:
10: T>C (31 strain(s) in DB)
241: C>T (7669 strain(s) in DB)
3037: C>T (7693 strain(s) in DB)
14408: C>T (7704 strain(s) in DB)
18877: C>T (375 strain(s) in DB)
23403: A>G (7732 strain(s) in DB)
25563: G>T (3418 strain(s) in DB)
26735: C>T (129 strain(s) in DB)

Deletions:
29891: AAAAAAAAAAAAA>A (154 strain(s) in DB)

Indels:
2: TTA>C (55 strain(s) in DB)
9: T>CCAAACTGTCA (22 strain(s) in DB)

hCoV-19/SaudiArabia/SCDC-3321/2020 (EPI_ISL_416521) (1)
hCoV-19/Saudi Arabia/KAUST-Madinah30/2020 (EPI_ISL_437485) (0.64)
hCoV-19/Saudi Arabia/KAUST-MADINAH258/2020 (EPI_ISL_437742) (0.64)
hCoV-19/Saudi Arabia/KAUST-MADINAH249/2020 (EPI_ISL_437735) (0.64)
hCoV-19/Saudi Arabia/KAUST-MAKKAH179/2020 (EPI_ISL_437702) (0.64)
hCoV-19/Saudi Arabia/KAUST-Madinah47/2020 (EPI_ISL_437487) (0.64)
hCoV-19/Saudi Arabia/KAUST-Madinah48/2020 (EPI_ISL_437488) (0.64)
hCoV-19/Saudi Arabia/KAUST-MADINAH254/2020 (EPI_ISL_437738) (0.64)
hCoV-19/Saudi Arabia/KAUST-Madinah24/2020 (EPI_ISL_437483) (0.64)
hCoV-19/Saudi Arabia/KAUST-MAKKAH177/2020 (EPI_ISL_437700) (0.64)
hCoV-19/Saudi Arabia/KAUST-Madinah54/2020 (EPI_ISL_437493) (0.64)
hCoV-19/USA/WI-03/2020 (EPI_ISL_416523)EPI_ISL_4276142020-03-14 SNP:
241: C>T (7669 strain(s) in DB)
1059: C>T (2820 strain(s) in DB)
3037: C>T (7693 strain(s) in DB)
6814: T>C (3 strain(s) in DB)
14408: C>T (7704 strain(s) in DB)
23403: A>G (7732 strain(s) in DB)
25563: G>T (3418 strain(s) in DB)

Deletions:
1: AA>- (4882 strain(s) in DB)
1813: TA>T (16 strain(s) in DB)
11082: TG>T (3 strain(s) in DB)
29871: AAAAAAAAAAAAAAAAAAAA...>A (158 strain(s) in DB)

hCoV-19/Norway/1917/2020 (EPI_ISL_420143) (0.73)
hCoV-19/USA/NY-WCMP11E09P/2020 (EPI_ISL_427594) (0.73)
hCoV-19/USA/NY-WCMP10F09P/2020 (EPI_ISL_427574) (0.73)
hCoV-19/USA/NY-WCMP10F06P/2020 (EPI_ISL_427573) (0.73)
hCoV-19/USA/NY-WCMP9B08P/2020 (EPI_ISL_427548) (0.73)
hCoV-19/USA/NY-WCMP10H01P/2020 (EPI_ISL_427580) (0.73)
hCoV-19/USA/NY-WCMP12H01P/2020 (EPI_ISL_427618) (0.67)
hCoV-19/USA/NY-WCMP10G05P/2020 (EPI_ISL_427576) (0.67)
hCoV-19/USA/NY-WCMP11C04P/2020 (EPI_ISL_427589) (0.67)
hCoV-19/USA/NY-WCMP10G11P/2020 (EPI_ISL_427579) (0.67)
hCoV-19/USA/NY-WCMP12G02P/2020 (EPI_ISL_427614) (0.67)
hCoV-19/Japan/SMU-0311S2/2020 (EPI_ISL_416524)EPI_ISL_4298742020-03-11 SNP:
101: G>A (3 strain(s) in DB)
241: C>T (7669 strain(s) in DB)
3037: C>T (7693 strain(s) in DB)
14408: C>T (7704 strain(s) in DB)
23403: A>G (7732 strain(s) in DB)

Deletions:
29859: TAGGAGAATGACAAAAAAAA...>T (71 strain(s) in DB)

hCoV-19/Japan/SMU-0311S3/2020 (EPI_ISL_416525) (0.71)
hCoV-19/Italy/INMI6/2020 (MT527184) (0.71)
hCoV-19/USA/TX-HMH382/2020 (EPI_ISL_434970) (0.67)
hCoV-19/India/GMC-KN318/2020 (EPI_ISL_431102) (0.67)
hCoV-19/Wales/PHWC-2663F/2020 (EPI_ISL_422037) (0.67)
hCoV-19/USA/NY-NYUMC4/2020 (EPI_ISL_416832) (0.67)
hCoV-19/Russia/StPetersburg-RII4936S/2020 (EPI_ISL_430071) (0.67)
hCoV-19/Iceland/93/2020 (0.67)
hCoV-19/England/LOND-D3DF0/2020 (EPI_ISL_441036) (0.67)
hCoV-19/Australia/VIC682/2020 (MT451478) (0.67)
hCoV-19/Italy/HSacco-1/2020 (EPI_ISL_429874) (0.67)
hCoV-19/Japan/SMU-0311S3/2020 (EPI_ISL_416525)EPI_ISL_4168322020-03-11 SNP:
241: C>T (7669 strain(s) in DB)
3037: C>T (7693 strain(s) in DB)
14408: C>T (7704 strain(s) in DB)
23403: A>G (7732 strain(s) in DB)
29743: C>T (7 strain(s) in DB)

Deletions:
29859: TAGGAGAATGACAAAAAAAA...>T (71 strain(s) in DB)

hCoV-19/Italy/INMI6/2020 (MT527184) (0.71)
hCoV-19/Japan/SMU-0311S2/2020 (EPI_ISL_416524) (0.71)
hCoV-19/Russia/Vector_73406/2020 (EPI_ISL_428885) (0.67)
hCoV-19/England/20132081104/2020 (EPI_ISL_423809) (0.67)
hCoV-19/Italy/CDG1/2020 (0.67)
hCoV-19/England/CAMB-73D2F/2020 (EPI_ISL_433688) (0.67)
hCoV-19/England/LOND-D3EA2/2020 (EPI_ISL_441045) (0.67)
hCoV-19/Italy/HSacco-1/2020 (EPI_ISL_429874) (0.67)
hCoV-19/England/LOND-D3DF0/2020 (EPI_ISL_441036) (0.67)
hCoV-19/Russia/StPetersburg-RII4936S/2020 (EPI_ISL_430071) (0.67)
hCoV-19/USA/NY-NYUMC4/2020 (EPI_ISL_416832) (0.67)
hCoV-19/NewZealand/20VR0206/2020EPI_ISL_4165262020-03-05
hCoV-19/New Zealand/20VR0275/2020 (EPI_ISL_416538)MT4509322020-03-15 SNP:
490: T>A (156 strain(s) in DB)
3177: C>T (168 strain(s) in DB)
8782: C>T (1672 strain(s) in DB)
18736: T>C (151 strain(s) in DB)
19684: G>T (54 strain(s) in DB)
24034: C>T (180 strain(s) in DB)
26729: T>C (163 strain(s) in DB)
27635: C>T (58 strain(s) in DB)
28077: G>C (188 strain(s) in DB)
28144: T>C (1654 strain(s) in DB)
29700: A>G (161 strain(s) in DB)

hCoV-19/USA/TX-HMH395/2020 (EPI_ISL_434982) (1)
hCoV-19/Australia/VIC215/2020 (MT451116) (0.92)
hCoV-19/Australia/VIC86/2020 (MT450996) (0.92)
hCoV-19/Australia/VIC35/2020 (MT450950) (0.92)
hCoV-19/Australia/VIC33/2020 (MT450948) (0.92)
hCoV-19/Australia/VIC32/2020 (MT450947) (0.92)
hCoV-19/Australia/VIC73/2020 (MT450985) (0.92)
hCoV-19/Australia/VIC77/2020 (MT450988) (0.92)
hCoV-19/Australia/VIC85/2020 (MT450995) (0.92)
hCoV-19/Australia/VIC28/2020 (MT450943) (0.92)
hCoV-19/Australia/VIC17/2020 (MT450932) (0.92)
hCoV-19/NewZealand/20VR0276/2020 (EPI_ISL_416539)MT4509682020-03-15 SNP:
8782: C>T (1672 strain(s) in DB)
19684: G>T (54 strain(s) in DB)
24034: C>T (180 strain(s) in DB)
27635: C>T (58 strain(s) in DB)
28144: T>C (1654 strain(s) in DB)
29700: A>G (161 strain(s) in DB)

hCoV-19/New Zealand/20VR0275/2020 (EPI_ISL_416538) (0.55)
hCoV-19/USA/TX-HMH395/2020 (EPI_ISL_434982) (0.55)
hCoV-19/USA/FL_9655/2020 (EPI_ISL_424854) (0.5)
hCoV-19/Australia/VIC77/2020 (MT450988) (0.5)
hCoV-19/Australia/VIC646/2020 (MT451448) (0.5)
hCoV-19/Australia/VIC17/2020 (MT450932) (0.5)
hCoV-19/Australia/VIC28/2020 (MT450943) (0.5)
hCoV-19/Australia/VIC32/2020 (MT450947) (0.5)
hCoV-19/Australia/VIC33/2020 (MT450948) (0.5)
hCoV-19/Australia/VIC35/2020 (MT450950) (0.5)
hCoV-19/Australia/VIC53/2020 (MT450968) (0.5)
hCoV-19/Kuwait/KU09/2020 (EPI_ISL_416541)EPI_ISL_4165412020-03-02 SNP:
884: C>T (45 strain(s) in DB)
1397: G>A (164 strain(s) in DB)
2239: A>C (1 strain(s) in DB)
8653: G>T (55 strain(s) in DB)
11083: G>T (1220 strain(s) in DB)
20059: A>T (1 strain(s) in DB)
25980: A>C (7 strain(s) in DB)
28688: T>C (152 strain(s) in DB)
29742: G>T (236 strain(s) in DB)

Deletions:
1: AA>- (4882 strain(s) in DB)

hCoV-19/Kuwait/KU17/2020 (EPI_ISL_416542)EPI_ISL_4165422020-03-02 SNP:
1397: G>A (164 strain(s) in DB)
11083: G>T (1220 strain(s) in DB)
14653: G>A (6 strain(s) in DB)
28688: T>C (152 strain(s) in DB)
29742: G>T (236 strain(s) in DB)

Deletions:
1: AATTAAAGGTT>- (4882 strain(s) in DB)

hCoV-19/Kuwait/KU18/2020 (EPI_ISL_416543)EPI_ISL_4216672020-03-02 SNP:
884: C>T (45 strain(s) in DB)
1397: G>A (164 strain(s) in DB)
2143: C>A (10 strain(s) in DB)
2241: T>Y (1 strain(s) in DB)
7008: C>M (1 strain(s) in DB)
8653: G>T (55 strain(s) in DB)
11083: G>T (1220 strain(s) in DB)
13860: C>T (4 strain(s) in DB)
26882: C>Y (13 strain(s) in DB)
28688: T>C (152 strain(s) in DB)
29742: G>T (236 strain(s) in DB)

Deletions:
1: AATTAAAG>- (4882 strain(s) in DB)

hCoV-19/Turkey/HSGM-11518/2020 (EPI_ISL_429872) (0.58)
hCoV-19/Turkey/HSGM-8010/2020 (EPI_ISL_428722) (0.54)
hCoV-19/Turkey/HSGM-1450/2020 (EPI_ISL_437306) (0.54)
hCoV-19/Turkey/HSGM-1468/2020 (EPI_ISL_437312) (0.54)
hCoV-19/Australia/NSW24/2020 (EPI_ISL_417387) (0.5)
BetaCoV/Australia/NSW06/2020 (EPI_ISL_413213) (0.5)
hCoV-19/Turkey/HSGM-4598/2020 (EPI_ISL_429868) (0.5)
hCoV-19/India/1621/2020 (EPI_ISL_421671) (0.47)
hCoV-19/Kuwait/KU12/2020 (EPI_ISL_416458) (0.47)
hCoV-19/India/1616/2020 (EPI_ISL_421669) (0.47)
hCoV-19/India/1115/2020 (EPI_ISL_421667) (0.47)
hCoV-19/USA/WA-UW132/2020EPI_ISL_4166702020-03-12
hCoV-19/USA/WA-UW134/2020EPI_ISL_4166722020-03-10
hCoV-19/USA/WA-UW148/2020 (EPI_ISL_416686)MT2592412020-03-14 SNP:
6285: C>T (5 strain(s) in DB)
8782: C>T (1672 strain(s) in DB)
17747: C>T (1036 strain(s) in DB)
17858: A>G (1049 strain(s) in DB)
18060: C>T (1069 strain(s) in DB)
20555: C>T (4 strain(s) in DB)
27364: G>T (4 strain(s) in DB)
28144: T>C (1654 strain(s) in DB)

Deletions:
1: AATTAAAGGTTTATACCTTC...>- (4882 strain(s) in DB)
29862: GAGAATGACAAAAAAAAAAA...>G (145 strain(s) in DB)

hCoV-19/USA/WA-UW-1860/2020 (MT326044) (0.7)
SARS-CoV-2/human/USAWA-UW435/2020 (MT293199) (0.7)
hCoV-19/USA/WA-UW125/2020 (MT252743) (0.64)
hCoV-19/USA/WA-UW174/2020 (MT252709) (0.64)
hCoV-19/USA/WA-UW-3815/2020 (MT358678) (0.64)
hCoV-19/USA/WA-UW190/2020 (MT252704) (0.64)
hCoV-19/USA/VA-DCLS-0010/2020 (MT322403) (0.64)
hCoV-19/USA/WA-UW118/2020 (MT252782) (0.6)
hCoV-19/USA/WA-UW-2203/2020 (MT345833) (0.6)
hCoV-19/USA/WA-UW70/2020 (MT252798) (0.6)
hCoV-19/USA/WA-UW249/2020 (MT259241) (0.6)
hCoV-19/USA/WA-UW182/2020EPI_ISL_4167202020-03-13
hCoV-19/England/SHEF-BFCB1/2020 (EPI_ISL_416730)EPI_ISL_4167302020-03-03 SNP:
241: C>T (7669 strain(s) in DB)
3037: C>T (7693 strain(s) in DB)
14408: C>T (7704 strain(s) in DB)
23403: A>G (7732 strain(s) in DB)
27046: C>T (266 strain(s) in DB)
28881: G>A (2045 strain(s) in DB)
28882: G>A (2040 strain(s) in DB)
28883: G>C (2036 strain(s) in DB)

hCoV-19/England/SHEF-BFCC0/2020 (EPI_ISL_416731)EPI_ISL_4175892020-03-03 SNP:
241: C>T (7669 strain(s) in DB)
3037: C>T (7693 strain(s) in DB)
14408: C>T (7704 strain(s) in DB)
20434: G>T (2 strain(s) in DB)
23403: A>G (7732 strain(s) in DB)
25350: C>T (64 strain(s) in DB)
26858: C>T (4 strain(s) in DB)

hCoV-19/England/20106004803/2020 (EPI_ISL_417240) (1)
hCoV-19/England/20122032802/2020 (EPI_ISL_418673) (0.71)
hCoV-19/England/CAMB-73B61/2020 (EPI_ISL_433667) (0.71)
hCoV-19/England/CAMB-7FC53/2020 (EPI_ISL_433496) (0.71)
hCoV-19/England/20124020802/2020 (EPI_ISL_418702) (0.71)
hCoV-19/England/SHEF-C0734/2020 (EPI_ISL_420242) (0.71)
hCoV-19/England/20140068904/2020 (EPI_ISL_423401) (0.71)
hCoV-19/England/CAMB-783EC/2020 (EPI_ISL_433729) (0.71)
hCoV-19/England/SHEF-CFE03/2020 (EPI_ISL_432601) (0.71)
hCoV-19/England/20109050506/2020 (EPI_ISL_417266) (0.71)
hCoV-19/Iceland/261/2020 (0.71)
hCoV-19/England/SHEF-BFCDF/2020 (EPI_ISL_416732)EPI_ISL_4167322020-03-03 SNP:
241: C>T (7669 strain(s) in DB)
3037: C>T (7693 strain(s) in DB)
14408: C>T (7704 strain(s) in DB)
23403: A>G (7732 strain(s) in DB)
28881: G>A (2045 strain(s) in DB)
28882: G>A (2040 strain(s) in DB)
28883: G>C (2036 strain(s) in DB)

hCoV-19/England/SHEF-BFCEE/2020 (EPI_ISL_416733)EPI_ISL_4167332020-03-07 SNP:
1515: A>G (47 strain(s) in DB)
9223: C>T (53 strain(s) in DB)
11083: G>T (1220 strain(s) in DB)
14805: C>T (875 strain(s) in DB)
17247: T>C (334 strain(s) in DB)
26144: G>T (818 strain(s) in DB)

hCoV-19/England/SHEF-BFCFD/2020 (EPI_ISL_416734)EPI_ISL_4167342020-03-09 SNP:
241: C>T (7669 strain(s) in DB)
3037: C>T (7693 strain(s) in DB)
14408: C>T (7704 strain(s) in DB)
23403: A>G (7732 strain(s) in DB)
28881: G>A (2045 strain(s) in DB)
28882: G>A (2040 strain(s) in DB)
28883: G>C (2036 strain(s) in DB)

hCoV-19/England/SHEF-BFD09/2020EPI_ISL_4167352020-03-09
hCoV-19/England/SHEF-BFD18/2020EPI_ISL_4167362020-03-09
hCoV-19/England/SHEF-BFD27/2020EPI_ISL_4167372020-03-03
hCoV-19/England/SHEF-BFD36/2020EPI_ISL_4167382020-03-09
hCoV-19/England/SHEF-BFD45/2020 (EPI_ISL_416739)EPI_ISL_4209292020-03-09 SNP:
431: G>A (9 strain(s) in DB)
20270: C>T (35 strain(s) in DB)
29683: A>T (25 strain(s) in DB)

hCoV-19/England/NOTT-10E03E/2020 (EPI_ISL_425486) (0.75)
hCoV-19/England/NOTT-10E0D4/2020 (EPI_ISL_425496) (0.6)
hCoV-19/England/NOTT-10F10D/2020 (EPI_ISL_432965) (0.6)
hCoV-19/England/SHEF-C07E9/2020 (EPI_ISL_420160) (0.6)
hCoV-19/England/20124013202/2020 (EPI_ISL_418700) (0.5)
hCoV-19/Iceland/320/2020 (0.5)
hCoV-19/Iceland/298/2020 (0.5)
hCoV-19/England/SHEF-BFE9D/2020 (EPI_ISL_418302) (0.5)
hCoV-19/England/20109093706/2020 (EPI_ISL_417286) (0.5)
hCoV-19/Wales/PHW35/2020 (EPI_ISL_416024) (0.5)
hCoV-19/Wales/PHWC-25005/2020 (EPI_ISL_420929) (0.43)
hCoV-19/England/SHEF-BFD54/2020 (EPI_ISL_416740)EPI_ISL_4167402020-03-03 SNP:
514: T>C (127 strain(s) in DB)

hCoV-19/Lithuania/ChVir1632/2020 (EPI_ISL_416741)EPI_ISL_4167412020-02 SNP:
241: C>T (7669 strain(s) in DB)
3037: C>T (7693 strain(s) in DB)
14408: C>T (7704 strain(s) in DB)
23403: A>G (7732 strain(s) in DB)
26530: A>G (128 strain(s) in DB)

Deletions:
1: AATTAAAGGTTT>- (4882 strain(s) in DB)
29871: AAAAAAAAAAAAAAAAAAAA...>A (158 strain(s) in DB)

hCoV-19/Czech Republic/ChVir1630/2020 (EPI_ISL_416742)MT4511002020-02 SNP:
241: C>T (7669 strain(s) in DB)
3037: C>T (7693 strain(s) in DB)
14408: C>T (7704 strain(s) in DB)
23403: A>G (7732 strain(s) in DB)

Deletions:
1: AATTAAAGGTTTATAC>- (4882 strain(s) in DB)
29873: AAAAAAAAAAAAAAAAAAAA...>A (124 strain(s) in DB)

hCoV-19/Belgium/RS-030677/2020 (EPI_ISL_420333) (1)
hCoV-19/Belgium/HL-030771/2020 (EPI_ISL_420327) (1)
hCoV-19/Belgium/MCW-030574/2020 (EPI_ISL_420330) (0.86)
hCoV-19/Wales/PHWC-26417/2020 (EPI_ISL_422112) (0.83)
hCoV-19/Wales/PHWC-26F8F/2020 (EPI_ISL_422140) (0.83)
hCoV-19/Wales/PHWC-2B04B/2020 (EPI_ISL_432271) (0.83)
hCoV-19/Australia/VIC174/2020 (MT451077) (0.83)
hCoV-19/Wales/PHWC-27267/2020 (EPI_ISL_432307) (0.83)
hCoV-19/Wales/PHWC-29E07/2020 (EPI_ISL_432267) (0.83)
hCoV-19/Australia/VIC141/2020 (MT451045) (0.83)
hCoV-19/Australia/VIC198/2020 (MT451100) (0.83)
hCoV-19/Czech Republic/ChVir1912/2020 (EPI_ISL_416743)MT4510922020-03 SNP:
241: C>T (7669 strain(s) in DB)
3037: C>T (7693 strain(s) in DB)
14408: C>T (7704 strain(s) in DB)
23403: A>G (7732 strain(s) in DB)
28881: G>A (2045 strain(s) in DB)
28882: G>A (2040 strain(s) in DB)
28883: G>C (2036 strain(s) in DB)
29148: T>C (28 strain(s) in DB)

Deletions:
1: AATTAAAG>- (4882 strain(s) in DB)
29873: AAAAAAAAAAAAAAAAAAAA...>A (124 strain(s) in DB)

hCoV-19/Switzerland/AG7120/2020 (EPI_ISL_415457) (0.9)
hCoV-10/Switzerland/GE1736/2020 (EPI_ISL_429203) (0.9)
hCoV-19/India/c31/2020 (EPI_ISL_426179) (0.82)
hCoV-19/Switzerland/GE1422/2020 (EPI_ISL_415454) (0.82)
hCoV-19/Switzerland/GE1402/2020 (EPI_ISL_415700) (0.82)
hCoV-19/Belgium/NL-030447/2020 (EPI_ISL_420314) (0.82)
hCoV-19/India/c32/2020 (EPI_ISL_420555) (0.82)
hCoV-19/Australia/VIC109/2020 (MT451018) (0.8)
hCoV-19/Australia/VIC156/2020 (MT451060) (0.8)
hCoV-19/Kuwait/KU008/2020 (EPI_ISL_422427) (0.8)
hCoV-19/Australia/VIC190/2020 (MT451092) (0.8)
hCoV-19/Hungary/49/2020 (EPI_ISL_416744)EPI_ISL_4170042020-03-20 SNP:
241: C>T (7669 strain(s) in DB)
3037: C>T (7693 strain(s) in DB)
8293: C>T (15 strain(s) in DB)
11839: A>G (18 strain(s) in DB)
14408: C>T (7704 strain(s) in DB)
16575: C>T (16 strain(s) in DB)
19839: T>C (113 strain(s) in DB)
23403: A>G (7732 strain(s) in DB)
28881: G>A (2045 strain(s) in DB)
28882: G>A (2040 strain(s) in DB)
28883: G>C (2036 strain(s) in DB)

Deletions:
1: AATTAAAGGTTTATACCTTC...>- (4882 strain(s) in DB)
29836: CCCATGTGATTTTAATAGCT...>C (754 strain(s) in DB)

hCoV-19/Hungary/SRC-00175/2020 (EPI_ISL_435406) (0.85)
hCoV-19/Belgium/VPMV-0325153/2020 (EPI_ISL_420410) (0.71)
hCoV-19/Belgium/LJ-0325148/2020 (EPI_ISL_420405) (0.71)
hCoV-19/Australia/NSW27/2020 (EPI_ISL_417390) (0.71)
hCoV-19/Switzerland/BS0914/2020 (EPI_ISL_415701) (0.69)
hCoV-19/Switzerland/GE0199(2020 (EPI_ISL_415455) (0.69)
hCoV-19/England/SHEF-C03F4/2020 (EPI_ISL_420190) (0.69)
hCoV-19/England/CAMB-7A247/2020 (EPI_ISL_441228) (0.69)
hCoV-19/Iceland/187/2020 (0.69)
hCoV-19/Belgium/ULG-9714/2020 (EPI_ISL_418655) (0.69)
hCoV-19/Belgium/ULG-3000/2020 (EPI_ISL_417004) (0.69)
hCoV-19/France/Pollionay_1733/2020 (EPI_ISL_416745)EPI_ISL_4167492020-03-10 SNP:
241: C>T (7669 strain(s) in DB)
3037: C>T (7693 strain(s) in DB)
14408: C>T (7704 strain(s) in DB)
15324: C>T (278 strain(s) in DB)
15860: A>G (9 strain(s) in DB)
19872: G>T (4 strain(s) in DB)
23403: A>G (7732 strain(s) in DB)
25416: C>T (7 strain(s) in DB)

Deletions:
29877: AAAAAAAAAAAAAAAAAAAA...>A (104 strain(s) in DB)

hCoV-19/France/ARA11943/2020 (EPI_ISL_419170) (0.78)
hCoV-19/France/ARA12384/2020 (EPI_ISL_420605) (0.78)
hCoV-19/France/Lyon_06531/2020 (EPI_ISL_416756) (0.78)
hCoV-19/France/ARA13160/2020 (EPI_ISL_420624) (0.78)
hCoV-19/France/ARA12250/2020 (EPI_ISL_419182) (0.78)
hCoV-19/France/Lyon_06056/2020 (EPI_ISL_417334) (0.67)
hCoV-19/France/Lyon_06487/2020 (EPI_ISL_416754) (0.67)
hCoV-19/France/ARA12996/2020 (EPI_ISL_420620) (0.67)
hCoV-19/France/ARA10257/2020 (EPI_ISL_418427) (0.67)
hCoV-19/France/ARA12973/2020 (EPI_ISL_420619) (0.64)
hCoV-19/France/Valence_532/2020 (EPI_ISL_416749) (0.6)
hCoV-19/France/Valence_425/2020 (EPI_ISL_416746)EPI_ISL_4176812020-03-03 SNP:
241: C>T (7669 strain(s) in DB)
3037: C>T (7693 strain(s) in DB)
14408: C>T (7704 strain(s) in DB)
18266: G>T (1 strain(s) in DB)
22199: G>T (5 strain(s) in DB)
23403: A>G (7732 strain(s) in DB)
27046: C>T (266 strain(s) in DB)
28881: G>A (2045 strain(s) in DB)
28882: G>A (2040 strain(s) in DB)
28883: G>C (2036 strain(s) in DB)

Deletions:
29877: AAAAAAAAAAAAAAAAAAAA...>A (104 strain(s) in DB)

hCoV-19/Iceland/19/2020 (0.73)
hCoV-19/England/SHEF-BFCB1/2020 (EPI_ISL_416730) (0.73)
hCoV-19/Germany/BAV-MVP0045/2020 (EPI_ISL_437244) (0.73)
hCoV-19/Iceland/83/2020 (0.73)
hCoV-19/Russia/Vector_71605/2020 (EPI_ISL_428872) (0.73)
hCoV-19/Germany/BAV-MVP0017/2020 (EPI_ISL_437218) (0.73)
hCoV-19/Denmark/ALAB-HH62/2020 (EPI_ISL_429308) (0.73)
hCoV-19/Scotland/CVR1751/2020 (EPI_ISL_433658) (0.73)
hCoV-19/Iceland/210/2020 (0.73)
hCoV-19/Scotland/CVR1633/2020 (EPI_ISL_433636) (0.73)
hCoV-19/Iceland/37/2020 (0.73)
hCoV-19/France/Lyon_487/2020 (EPI_ISL_416747)EPI_ISL_4328642020-03-04 SNP:
241: C>T (7669 strain(s) in DB)
3037: C>T (7693 strain(s) in DB)
14408: C>T (7704 strain(s) in DB)
15324: C>T (278 strain(s) in DB)
23403: A>G (7732 strain(s) in DB)

Deletions:
29876: AAAAAAAAAAAAAAAAAAAA...>A (51 strain(s) in DB)

hCoV-19/Hungary/MBL-003/2020 (EPI_ISL_435421) (0.83)
hCoV-19/Scotland/CVR1022/2020 (EPI_ISL_433499) (0.83)
hCoV-19/Belgium/ULG-10030/2020 (EPI_ISL_421204) (0.83)
hCoV-19/England/20146060504/2020 (EPI_ISL_423583) (0.83)
hCoV-19/USA/WI-82/2020 (EPI_ISL_421341) (0.83)
hCoV-19/USA/TX-HMH214/2020 (EPI_ISL_434889) (0.83)
hCoV-19/Belgium/ULG-10142/2020 (EPI_ISL_427385) (0.83)
hCoV-19/France/ARA10257/2020 (EPI_ISL_418427) (0.71)
hCoV-19/England/SHEF-C3115/2020 (EPI_ISL_432762) (0.71)
hCoV-19/France/Lyon_06487/2020 (EPI_ISL_416754) (0.71)
hCoV-19/England/SHEF-C83ED/2020 (EPI_ISL_432864) (0.71)
hCoV-19/France/Lyon_508/2020 (EPI_ISL_416748)EPI_ISL_4304312020-03-04 SNP:
241: C>T (7669 strain(s) in DB)
1059: C>T (2820 strain(s) in DB)
2306: C>T (4 strain(s) in DB)
3037: C>T (7693 strain(s) in DB)
14408: C>T (7704 strain(s) in DB)
15952: C>T (9 strain(s) in DB)
20134: G>A (35 strain(s) in DB)
23403: A>G (7732 strain(s) in DB)
25563: G>T (3418 strain(s) in DB)

Deletions:
29877: AAAAAAAAAAAAAAAAAAAA...>A (104 strain(s) in DB)

hCoV-19/France/ARA11995/2020 (EPI_ISL_419175) (0.7)
hCoV-19/France/ARA11980/2020 (EPI_ISL_419174) (0.7)
hCoV-19/France/Lyon_06464 /2020 (EPI_ISL_416753) (0.7)
hCoV-19/France/Macon_06756/2020 (EPI_ISL_417338) (0.64)
hCoV-19/France/ARA12253/2020 (EPI_ISL_419183) (0.64)
hCoV-19/France/Bourg-en-Bresse_06813/2020 (EPI_ISL_417340) (0.64)
hCoV-19/Russia/Vector_66501/2020 (EPI_ISL_428871) (0.6)
hCoV-19/Denmark/ALAB-SSI151/2020 (EPI_ISL_429369) (0.6)
hCoV-19/Iceland/380/2020 (0.6)
hCoV-19/Denmark/ALAB-SSI150/2020 (EPI_ISL_429368) (0.6)
hCoV-19/USA/NY-NYUMC404/2020 (EPI_ISL_430431) (0.6)
hCoV-19/France/Valence_532/2020 (EPI_ISL_416749)EPI_ISL_4167492020-03-04 SNP:
241: C>T (7669 strain(s) in DB)
618: A>G (14 strain(s) in DB)
3037: C>T (7693 strain(s) in DB)
14408: C>T (7704 strain(s) in DB)
15324: C>T (278 strain(s) in DB)
23403: A>G (7732 strain(s) in DB)

Deletions:
29877: AAAAAAAAAAAAAAAAAAAA...>A (104 strain(s) in DB)

hCoV-19/France/Lyon_683/2020 (EPI_ISL_416750)EPI_ISL_4167562020-03-06 SNP:
241: C>T (7669 strain(s) in DB)
3037: C>T (7693 strain(s) in DB)
14408: C>T (7704 strain(s) in DB)
15324: C>T (278 strain(s) in DB)
21552: C>T (3 strain(s) in DB)
23403: A>G (7732 strain(s) in DB)
24990: C>T (2 strain(s) in DB)

Deletions:
29877: AAAAAAAAAAAAAAAAAAAA...>A (104 strain(s) in DB)

hCoV-19/France/Lyon_06056/2020 (EPI_ISL_417334) (0.75)
hCoV-19/France/ARA12996/2020 (EPI_ISL_420620) (0.75)
hCoV-19/France/ARA10257/2020 (EPI_ISL_418427) (0.75)
hCoV-19/France/Lyon_06487/2020 (EPI_ISL_416754) (0.75)
hCoV-19/Luxembourg/LNS2913521/2020 (EPI_ISL_429746) (0.67)
hCoV-19/France/ARA13160/2020 (EPI_ISL_420624) (0.67)
hCoV-19/France/Lyon_06625/2020 (EPI_ISL_417337) (0.67)
hCoV-19/France/Lyon_06820/2020 (EPI_ISL_417339) (0.67)
hCoV-19/France/ARA09434/2020 (EPI_ISL_418414) (0.67)
hCoV-19/France/ARA11943/2020 (EPI_ISL_419170) (0.67)
hCoV-19/France/Lyon_06531/2020 (EPI_ISL_416756) (0.67)
hCoV-19/France/Clermont-Ferrand_651/2020 (EPI_ISL_416751)EPI_ISL_4167512020-03-05 SNP:
241: C>T (7669 strain(s) in DB)
3037: C>T (7693 strain(s) in DB)
14408: C>T (7704 strain(s) in DB)
15324: C>T (278 strain(s) in DB)
19684: G>T (54 strain(s) in DB)
23403: A>G (7732 strain(s) in DB)

Deletions:
29877: AAAAAAAAAAAAAAAAAAAA...>A (104 strain(s) in DB)

hCoV-19/France/Clermont-Ferrand_650/2020 (EPI_ISL_416752)EPI_ISL_4167522020-03-04 SNP:
241: C>T (7669 strain(s) in DB)
3037: C>T (7693 strain(s) in DB)
14408: C>T (7704 strain(s) in DB)
15324: C>T (278 strain(s) in DB)
23403: A>G (7732 strain(s) in DB)
23720: A>G (1 strain(s) in DB)

Deletions:
29877: AAAAAAAAAAAAAAAAAAAA...>A (104 strain(s) in DB)

hCoV-19/France/Lyon_06464 /2020 (EPI_ISL_416753)EPI_ISL_4167532020-03-06 SNP:
241: C>T (7669 strain(s) in DB)
1059: C>T (2820 strain(s) in DB)
3037: C>T (7693 strain(s) in DB)
14408: C>T (7704 strain(s) in DB)
23403: A>G (7732 strain(s) in DB)
25563: G>T (3418 strain(s) in DB)

Deletions:
29877: AAAAAAAAAAAAAAAAAAAA...>A (104 strain(s) in DB)

hCoV-19/France/Lyon_06487/2020 (EPI_ISL_416754)EPI_ISL_4167542020-03-06 SNP:
241: C>T (7669 strain(s) in DB)
3037: C>T (7693 strain(s) in DB)
14408: C>T (7704 strain(s) in DB)
15324: C>T (278 strain(s) in DB)
23403: A>G (7732 strain(s) in DB)

Deletions:
29877: AAAAAAAAAAAAAAAAAAAA...>A (104 strain(s) in DB)

hCoV-19/France/Lyon_06531/2020 (EPI_ISL_416756)EPI_ISL_4167562020-03-06 SNP:
241: C>T (7669 strain(s) in DB)
3037: C>T (7693 strain(s) in DB)
14408: C>T (7704 strain(s) in DB)
15324: C>T (278 strain(s) in DB)
15860: A>G (9 strain(s) in DB)
23403: A>G (7732 strain(s) in DB)

Deletions:
29877: AAAAAAAAAAAAAAAAAAAA...>A (104 strain(s) in DB)

hCoV-19/France/Bourg-en-Bresse_06678/2020 (EPI_ISL_416757)EPI_ISL_4167562020-03-07 SNP:
241: C>T (7669 strain(s) in DB)
3037: C>T (7693 strain(s) in DB)
14408: C>T (7704 strain(s) in DB)
15324: C>T (278 strain(s) in DB)
21724: G>T (19 strain(s) in DB)
23403: A>G (7732 strain(s) in DB)
25433: C>T (54 strain(s) in DB)

Deletions:
29877: AAAAAAAAAAAAAAAAAAAA...>A (104 strain(s) in DB)

hCoV-19/France/ARA10165/2020 (EPI_ISL_418419) (0.78)
hCoV-19/France/ARA10163/2020 (EPI_ISL_418418) (0.78)
hCoV-19/France/Lyon_06487/2020 (EPI_ISL_416754) (0.75)
hCoV-19/France/ARA12996/2020 (EPI_ISL_420620) (0.75)
hCoV-19/France/ARA10257/2020 (EPI_ISL_418427) (0.75)
hCoV-19/France/Lyon_06056/2020 (EPI_ISL_417334) (0.75)
hCoV-19/France/ARA12524/2020 (EPI_ISL_420609) (0.67)
hCoV-19/France/ARA13160/2020 (EPI_ISL_420624) (0.67)
hCoV-19/France/ARA12576/2020 (EPI_ISL_420611) (0.67)
hCoV-19/France/Lyon_06625/2020 (EPI_ISL_417337) (0.67)
hCoV-19/France/Lyon_06531/2020 (EPI_ISL_416756) (0.67)
hCoV-19/France/Lyon_0693/2020 (EPI_ISL_416758)EPI_ISL_4191712020-03-08 SNP:
241: C>T (7669 strain(s) in DB)
337: C>T (5 strain(s) in DB)
3037: C>T (7693 strain(s) in DB)
9208: T>C (2 strain(s) in DB)
14408: C>T (7704 strain(s) in DB)
23403: A>G (7732 strain(s) in DB)
25563: G>T (3418 strain(s) in DB)

Deletions:
29877: AAAAAAAAAAAAAAAAAAAA...>A (104 strain(s) in DB)

hCoV-19/France/ARA12877/2020 (EPI_ISL_420617) (0.88)
hCoV-19/France/ARA10192/2020 (EPI_ISL_418425) (0.75)
hCoV-19/France/Lyon_0668/2020 (EPI_ISL_417336) (0.75)
hCoV-19/France/ARA10552/2020 (EPI_ISL_419168) (0.75)
hCoV-19/France/ARA12260/2020 (EPI_ISL_419184) (0.67)
hCoV-19/France/ARA12499/2020 (EPI_ISL_420608) (0.67)
hCoV-19/France/ARA12222/2020 (EPI_ISL_419179) (0.67)
hCoV-19/France/Lyon_06464 /2020 (EPI_ISL_416753) (0.67)
hCoV-19/France/ARA11995/2020 (EPI_ISL_419175) (0.67)
hCoV-19/France/ARA11980/2020 (EPI_ISL_419174) (0.67)
hCoV-19/France/ARA11949/2020 (EPI_ISL_419171) (0.67)
hCoV-19/Malaysia/MKAK-CL-2020-5045/2020 (EPI_ISL_416829)MT4471592020-01-24 SNP:
3: T>G (52 strain(s) in DB)
4: A>G (66 strain(s) in DB)
5: A>T (24 strain(s) in DB)
398: C>T (4 strain(s) in DB)
27131: C>T (5 strain(s) in DB)
27147: G>C (9 strain(s) in DB)

Deletions:
1: AA>- (4882 strain(s) in DB)
29871: AAAAAAAAAAAAAAAAAAAA...>A (158 strain(s) in DB)

hCoV-19/Saudi Arabia/KAUST-MAKKAH165/2020 (EPI_ISL_437478) (0.3)
hCoV-19/Hangzhou/ZJU-04/2020 (EPI_ISL_416046) (0.27)
BetaCoV/USA/WA6-UW3/2020 (MT163718) (0.27)
hCoV-19/Hangzhou/ZJU-09/2020 (0.25)
WH03 (0.25)
hCoV-19/Hangzhou/ZJU-03/2020 (EPI_ISL_416044) (0.23)
hCoV-19/Malaysia/MKAK-CL-2020-5047/2020 (EPI_ISL_416866) (0.22)
BetaCoV/Singapore/2/2020 (EPI_ISL_407987) (0.22)
BetaCoV/Singapore/6/2020 (EPI_ISL_410537) (0.22)
hCoV-19/Guangzhou/GZMU0034/2020 (CNA0013939) (0.2)
SARS-CoV-2/human/THA/SI200478-NST/2020 (MT447159) (0.2)
hCoV-19/USA/NY-NYUMC2/2020 (EPI_ISL_416830)EPI_ISL_4168302020-03-16 SNP:
241: C>T (7669 strain(s) in DB)
1059: C>T (2820 strain(s) in DB)
3037: C>T (7693 strain(s) in DB)
14408: C>T (7704 strain(s) in DB)
23403: A>G (7732 strain(s) in DB)
25563: G>T (3418 strain(s) in DB)

hCoV-19/USA/NY-NYUMC3/2020 (EPI_ISL_416831)EPI_ISL_4168312020-03-16 SNP:
241: C>T (7669 strain(s) in DB)
3037: C>T (7693 strain(s) in DB)
14408: C>T (7704 strain(s) in DB)
18877: C>T (375 strain(s) in DB)
23403: A>G (7732 strain(s) in DB)
25563: G>T (3418 strain(s) in DB)

hCoV-19/USA/NY-NYUMC4/2020 (EPI_ISL_416832)EPI_ISL_4168322020-03-16 SNP:
241: C>T (7669 strain(s) in DB)
3037: C>T (7693 strain(s) in DB)
14408: C>T (7704 strain(s) in DB)
23403: A>G (7732 strain(s) in DB)

hCoV-19/Malaysia/MKAK-CL-2020-5047/2020 (EPI_ISL_416866)EPI_ISL_4203332020-01-24 SNP:
27147: G>C (9 strain(s) in DB)

Deletions:
1: AATTAAAGGTT>- (4882 strain(s) in DB)

Indels:
29873: AAAAAAAAAAAAAAAAAAAA...>T (124 strain(s) in DB)

BetaCoV/Singapore/2/2020 (EPI_ISL_407987) (0.5)
BetaCoV/Singapore/6/2020 (EPI_ISL_410537) (0.5)
hCoV-19/Malaysia/IMR_WC627/2020 (EPI_ISL_430444) (0.4)
hCoV-19/Singapore/36/2020 (EPI_ISL_422429) (0.4)
hCoV-19/Wales/PHWC-24288/2020 (EPI_ISL_418159) (0.33)
hCoV-19/Korea/KCDC2004/2020 (EPI_ISL_426164) (0.33)
hCoV-19/Norway/1694/2020 (EPI_ISL_420136) (0.33)
hCoV-19/Guangzhou/GZMU0014/2020 (CNA0013717) (0.33)
hCoV-19/Korea/KCDC2007/2020 (EPI_ISL_426169) (0.33)
hCoV-19/Czech Republic/ChVir1630/2020 (EPI_ISL_416742) (0.29)
hCoV-19/Belgium/RS-030677/2020 (EPI_ISL_420333) (0.29)
hCoV-19/Malaysia/MKAK-CL-2020-5049/2020 (EPI_ISL_416884)EPI_ISL_4168842020-01-24
hCoV-19/Malaysia/MKAK-CL-2020-5096/2020EPI_ISL_4168852020-01-30
hCoV-19/Malaysia/MKAK-CL-2020-6430/2020 (EPI_ISL_416886)EPI_ISL_4168862020-02-04
hCoV-19/Malaysia/MKAK-CL-2020-7554/2020 (EPI_ISL_416907)EPI_ISL_4169072020-02-06
hCoV-19/Spain/CastillayLeon201437/2020 (EPI_ISL_416994)EPI_ISL_4169942020-03-04 SNP:
8782: C>T (1672 strain(s) in DB)
9477: T>A (113 strain(s) in DB)
14805: C>T (875 strain(s) in DB)
18582: C>T (5 strain(s) in DB)
25979: G>T (113 strain(s) in DB)
28144: T>C (1654 strain(s) in DB)
28657: C>T (132 strain(s) in DB)
28863: C>T (116 strain(s) in DB)

Deletions:
29781: GAGCTGCCTATATGGAAGAG...>G (41 strain(s) in DB)

hCoV-19/Belgium/ULG-2971/2020EPI_ISL_4169972020-03-05
hCoV-19/Belgium/ULG-3000/2020 (EPI_ISL_417004)EPI_ISL_4170042020-03-05 SNP:
241: C>T (7669 strain(s) in DB)
3037: C>T (7693 strain(s) in DB)
14408: C>T (7704 strain(s) in DB)
23403: A>G (7732 strain(s) in DB)
28881: G>A (2045 strain(s) in DB)
28882: G>A (2040 strain(s) in DB)
28883: G>C (2036 strain(s) in DB)

Deletions:
1: AATTAAAGGTTTATACCTTC...>- (4882 strain(s) in DB)
29836: CCCATGTGATTTTAATAGCT...>C (754 strain(s) in DB)

hCoV-19/Belgium/ULG-3162/2020EPI_ISL_4170052020-03-05
hCoV-19/Belgium/ULG-3163/2020EPI_ISL_4170062020-03-05
hCoV-19/Spain/Galicia201663/2020 (EPI_ISL_417007)EPI_ISL_4300992020-03-07 SNP:
241: C>T (7669 strain(s) in DB)
3037: C>T (7693 strain(s) in DB)
14408: C>T (7704 strain(s) in DB)
20268: A>G (601 strain(s) in DB)
23403: A>G (7732 strain(s) in DB)

Deletions:
29781: GAGCTGCCTATATGGAAGAG...>G (41 strain(s) in DB)

hCoV-19/Spain/Cataluña201397/2020 (EPI_ISL_419707) (1)
hCoV-19/Spain/Madrid201442/2020 (EPI_ISL_417010) (1)
hCoV-19/Hungary/MBL-465/2020 (EPI_ISL_435423) (0.83)
hCoV-19/Scotland/EDB2071/2020 (EPI_ISL_433174) (0.83)
hCoV-19/Scotland/EDB914/2020 (EPI_ISL_432877) (0.83)
hCoV-19/Scotland/EDB2084/2020 (EPI_ISL_433183) (0.83)
hCoV-19/Wales/PHWC-25F9F/2020 (EPI_ISL_422118) (0.83)
hCoV-19/Hungary/SRC-00066/2020 (EPI_ISL_435403) (0.83)
hCoV-19/Scotland/EDB2105/2020 (EPI_ISL_439154) (0.83)
hCoV-19/Australia/NT19/2020 (MT641663) (0.83)
hCoV-19/Russia/StPetersburg-RII5942S/2020 (EPI_ISL_430099) (0.83)
hCoV-19/Belgium/ULG-3662/2020 (EPI_ISL_417008)MT4510562020-03-07 SNP:
3859: A>G (5 strain(s) in DB)
11083: G>T (1220 strain(s) in DB)
14805: C>T (875 strain(s) in DB)
17247: T>C (334 strain(s) in DB)
22323: C>T (14 strain(s) in DB)
26144: G>T (818 strain(s) in DB)
29598: A>G (6 strain(s) in DB)

Deletions:
1: AATTAAAGGTTTATACCTTC...>- (4882 strain(s) in DB)
29836: CCCATGTGATTTTAATAGCT...>C (754 strain(s) in DB)

hCoV-19/Belgium/ULG-3665/2020 (EPI_ISL_417009) (1)
hCoV-19/Scotland/CVR357/2020 (EPI_ISL_439065) (0.67)
hCoV-19/Scotland/CVR100/2020 (EPI_ISL_425647) (0.67)
hCoV-19/Netherlands/NA_190/2020 (EPI_ISL_422725) (0.64)
hCoV-19/Scotland/CVR89/2020 (EPI_ISL_425813) (0.6)
hCoV-19/Scotland/CVR45/2020 (EPI_ISL_425773) (0.6)
hCoV-19/Scotland/CVR134/2020 (EPI_ISL_425677) (0.6)
hCoV-19/Scotland/CVR195/2020 (EPI_ISL_425727) (0.6)
hCoV-19/Scotland/CVR46/2020 (EPI_ISL_425774) (0.6)
hCoV-19/Scotland/CVR206/2020 (EPI_ISL_425736) (0.6)
hCoV-19/Australia/VIC152/2020 (MT451056) (0.56)
hCoV-19/Belgium/ULG-3665/2020 (EPI_ISL_417009)EPI_ISL_4170092020-03-07 SNP:
3859: A>G (5 strain(s) in DB)
11083: G>T (1220 strain(s) in DB)
14805: C>T (875 strain(s) in DB)
17247: T>C (334 strain(s) in DB)
22323: C>T (14 strain(s) in DB)
26144: G>T (818 strain(s) in DB)
29598: A>G (6 strain(s) in DB)

Deletions:
1: AATTAAAGGTTTATACCTTC...>- (4882 strain(s) in DB)
29836: CCCATGTGATTTTAATAGCT...>C (754 strain(s) in DB)

hCoV-19/Spain/Madrid201442/2020 (EPI_ISL_417010)EPI_ISL_4300992020-03-04 SNP:
241: C>T (7669 strain(s) in DB)
3037: C>T (7693 strain(s) in DB)
14408: C>T (7704 strain(s) in DB)
20268: A>G (601 strain(s) in DB)
23403: A>G (7732 strain(s) in DB)

Deletions:
29781: GAGCTGCCTATATGGAAGAG...>G (41 strain(s) in DB)

hCoV-19/Spain/Cataluña201397/2020 (EPI_ISL_419707) (1)
hCoV-19/Spain/Galicia201663/2020 (EPI_ISL_417007) (1)
hCoV-19/Hungary/MBL-465/2020 (EPI_ISL_435423) (0.83)
hCoV-19/Scotland/EDB2071/2020 (EPI_ISL_433174) (0.83)
hCoV-19/Scotland/EDB914/2020 (EPI_ISL_432877) (0.83)
hCoV-19/Scotland/EDB2084/2020 (EPI_ISL_433183) (0.83)
hCoV-19/Wales/PHWC-25F9F/2020 (EPI_ISL_422118) (0.83)
hCoV-19/Hungary/SRC-00066/2020 (EPI_ISL_435403) (0.83)
hCoV-19/Scotland/EDB2105/2020 (EPI_ISL_439154) (0.83)
hCoV-19/Australia/NT19/2020 (MT641663) (0.83)
hCoV-19/Russia/StPetersburg-RII5942S/2020 (EPI_ISL_430099) (0.83)
hCoV-19/Belgium/ULG-3683/2020EPI_ISL_4170112020-03-07
hCoV-19/Belgium/ULG-3843/2020EPI_ISL_4170122020-03-08
hCoV-19/Belgium/ULG-4163/2020EPI_ISL_4170132020-03-09
hCoV-19/Belgium/ULG-6216/2020 (EPI_ISL_417014)EPI_ISL_4390562020-03-13 SNP:
241: C>T (7669 strain(s) in DB)
3037: C>T (7693 strain(s) in DB)
14408: C>T (7704 strain(s) in DB)
15852: C>T (1 strain(s) in DB)
23403: A>G (7732 strain(s) in DB)
27046: C>T (266 strain(s) in DB)
28881: G>A (2045 strain(s) in DB)
28882: G>A (2040 strain(s) in DB)
28883: G>C (2036 strain(s) in DB)

Deletions:
1: AATTAAAGGTTTATACCTTC...>- (4882 strain(s) in DB)
29836: CCCATGTGATTTTAATAGCT...>C (754 strain(s) in DB)

hCoV-19/Czech Republic/NRL_2615/2020 (EPI_ISL_437519) (0.91)
hCoV-19/Thailand/Bangkok-CONI-0022/2020 (EPI_ISL_423043) (0.83)
hCoV-19/Scotland/CVR27/2020 (EPI_ISL_425756) (0.83)
hCoV-19/Thailand/Bangkok-0036/2020 (EPI_ISL_429172) (0.83)
hCoV-19/Japan/P4-4/2020 (EPI_ISL_419304) (0.82)
nCoV-19/Georgia/Tb-1679/2020 (EPI_ISL_420144) (0.82)
hCoV-19/England/CAMB-7A247/2020 (EPI_ISL_441228) (0.82)
hCoV-19/Belgium/ULG-3000/2020 (EPI_ISL_417004) (0.82)
hCoV-19/Wales/PHWC-27285/2020 (EPI_ISL_432277) (0.82)
hCoV-19/Scotland/CVR1493/2020 (EPI_ISL_433600) (0.82)
hCoV-19/Scotland/CVR337/2020 (EPI_ISL_439056) (0.82)
hCoV-19/Belgium/ULG-6457/2020 (EPI_ISL_417015)EPI_ISL_4336562020-03-13 SNP:
241: C>T (7669 strain(s) in DB)
2447: G>A (7 strain(s) in DB)
3037: C>T (7693 strain(s) in DB)
7564: C>T (13 strain(s) in DB)
14408: C>T (7704 strain(s) in DB)
23403: A>G (7732 strain(s) in DB)
28881: G>A (2045 strain(s) in DB)
28882: G>A (2040 strain(s) in DB)
28883: G>C (2036 strain(s) in DB)

Deletions:
1: AATTAAAGGTTTATACCTTC...>- (4882 strain(s) in DB)
29836: CCCATGTGATTTTAATAGCT...>C (754 strain(s) in DB)

hCoV-19/Belgium/ULG-9634/2020 (EPI_ISL_418651) (0.91)
hCoV-19/Belgium/ULG-9735/2020 (EPI_ISL_418661) (0.91)
hCoV-19/Belgium/ULG-9741/2020 (EPI_ISL_418664) (0.91)
hCoV-19/Scotland/CVR1493/2020 (EPI_ISL_433600) (0.82)
hCoV-19/Belgium/ULG-3000/2020 (EPI_ISL_417004) (0.82)
hCoV-19/Scotland/CVR337/2020 (EPI_ISL_439056) (0.82)
hCoV-19/England/CAMB-7A247/2020 (EPI_ISL_441228) (0.82)
nCoV-19/Georgia/Tb-1679/2020 (EPI_ISL_420144) (0.82)
hCoV-19/Belgium/ULG-9714/2020 (EPI_ISL_418655) (0.82)
hCoV-19/Japan/P4-4/2020 (EPI_ISL_419304) (0.82)
hCoV-19/Scotland/CVR1698/2020 (EPI_ISL_433656) (0.75)
hCoV-19/Belgium/ULG-6503/2020 (EPI_ISL_417016)EPI_ISL_4201462020-03-13 SNP:
241: C>T (7669 strain(s) in DB)
3037: C>T (7693 strain(s) in DB)
4255: G>T (50 strain(s) in DB)
14408: C>T (7704 strain(s) in DB)
23403: A>G (7732 strain(s) in DB)
26530: A>G (128 strain(s) in DB)

Deletions:
1: AATTAAAGGTTTATACCTTC...>- (4882 strain(s) in DB)
29836: CCCATGTGATTTTAATAGCT...>C (754 strain(s) in DB)

hCoV-19/Belgium/ULG-6972/2020/P1 (EPI_ISL_418624) (1)
hCoV-19/Belgium/ULG-6754/2020 (EPI_ISL_417019) (0.89)
hCoV-19/Scotland/CVR70/2020 (EPI_ISL_425801) (0.78)
hCoV-19/Netherlands/Gelderland_7/2020 (EPI_ISL_422643) (0.78)
hCoV-19/USA/MN67-MDH67/2020 (EPI_ISL_419395) (0.78)
hCoV-19/Scotland/CVR131/2020 (EPI_ISL_425674) (0.75)
hCoV-19/Belgium/UGent-45/2020 (EPI_ISL_434361) (0.75)
hCoV-19/Belgium/UGent-13/2020 (EPI_ISL_425055) (0.75)
hCoV-19/USA/WI-134/2020 (EPI_ISL_427441) (0.75)
hCoV-19/Wales/PHW1/2020 (EPI_ISL_413555) (0.75)
hCoV-19/Norway/1955/2020 (EPI_ISL_420146) (0.75)
hCoV-19/Belgium/ULG-6638/2020 (EPI_ISL_417017)EPI_ISL_4170172020-03-14 SNP:
1515: A>G (47 strain(s) in DB)
9223: C>T (53 strain(s) in DB)
9438: C>T (15 strain(s) in DB)
11083: G>T (1220 strain(s) in DB)
14805: C>T (875 strain(s) in DB)
17247: T>C (334 strain(s) in DB)
26144: G>T (818 strain(s) in DB)

Deletions:
1: AATTAAAGGTTTATACCTTC...>- (4882 strain(s) in DB)
29836: CCCATGTGATTTTAATAGCT...>C (754 strain(s) in DB)

hCoV-19/Belgium/ULG-6670/2020 (EPI_ISL_417018)EPI_ISL_4170182020-03-14 SNP:
241: C>T (7669 strain(s) in DB)
2113: C>T (41 strain(s) in DB)
3037: C>T (7693 strain(s) in DB)
7765: C>T (43 strain(s) in DB)
14408: C>T (7704 strain(s) in DB)
17690: C>T (31 strain(s) in DB)
18877: C>T (375 strain(s) in DB)
23403: A>G (7732 strain(s) in DB)
25563: G>T (3418 strain(s) in DB)

Deletions:
1: AATTAAAGGTTTATACCTTC...>- (4882 strain(s) in DB)
29836: CCCATGTGATTTTAATAGCT...>C (754 strain(s) in DB)

hCoV-19/Belgium/ULG-6754/2020 (EPI_ISL_417019)MT4509592020-03-14 SNP:
241: C>T (7669 strain(s) in DB)
3037: C>T (7693 strain(s) in DB)
4255: G>T (50 strain(s) in DB)
13517: C>T (17 strain(s) in DB)
14408: C>T (7704 strain(s) in DB)
23403: A>G (7732 strain(s) in DB)
26530: A>G (128 strain(s) in DB)

Deletions:
1: AATTAAAGGTTTATACCTTC...>- (4882 strain(s) in DB)
29836: CCCATGTGATTTTAATAGCT...>C (754 strain(s) in DB)

hCoV-19/Belgium/ULG-6503/2020 (EPI_ISL_417016) (0.89)
hCoV-19/Belgium/ULG-6972/2020/P1 (EPI_ISL_418624) (0.89)
hCoV-19/Netherlands/Gelderland_7/2020 (EPI_ISL_422643) (0.7)
hCoV-19/USA/MN67-MDH67/2020 (EPI_ISL_419395) (0.7)
hCoV-19/Scotland/CVR70/2020 (EPI_ISL_425801) (0.7)
hCoV-19/USA/WI-251/2020 (EPI_ISL_428725) (0.7)
hCoV-19/Luxembourg/LNS6326231/2020 (EPI_ISL_428960) (0.7)
hCoV-19/Luxembourg/LNS9322962/2020 (EPI_ISL_428961) (0.7)
hCoV-19/Australia/VIC62/2020 (MT450977) (0.67)
hCoV-19/Australia/VIC54/2020 (MT450969) (0.67)
hCoV-19/Australia/VIC44/2020 (MT450959) (0.67)
hCoV-19/Belgium/ULG-6939/2020 (EPI_ISL_417020)EPI_ISL_4272812020-03-15 SNP:
241: C>T (7669 strain(s) in DB)
1059: C>T (2820 strain(s) in DB)
3037: C>T (7693 strain(s) in DB)
14408: C>T (7704 strain(s) in DB)
23403: A>G (7732 strain(s) in DB)
23679: C>T (8 strain(s) in DB)
25563: G>T (3418 strain(s) in DB)
28857: G>A (15 strain(s) in DB)

Deletions:
1: AATTAAAGGTTTATACCTTC...>- (4882 strain(s) in DB)
29836: CCCATGTGATTTTAATAGCT...>C (754 strain(s) in DB)

hCoV-19/Belgium/ULG-9572/2020 (EPI_ISL_418646) (1)
hCoV-19/Taiwan/107/2020 (EPI_ISL_420085) (0.82)
hCoV-19/USA/WI-98/2020 (EPI_ISL_425155) (0.8)
hCoV-19/USA/MN-MDH-120/2020 (EPI_ISL_427276) (0.8)
hCoV-19/Belgium/ULG-10078/2020 (EPI_ISL_424637) (0.8)
hCoV-19/USA/WI-163/2020 (EPI_ISL_428259) (0.8)
hCoV-19/Canada/MB_36/2020 (EPI_ISL_429817) (0.8)
hCoV-19/Canada/MB_39/2020 (EPI_ISL_429820) (0.8)
hCoV-19/Belgium/ULG-10001/2020 (EPI_ISL_421182) (0.8)
hCoV-19/USA/NY-Wadsworth-11735-01/2020 (EPI_ISL_426290) (0.8)
hCoV-19/USA/MN-MDH-142/2020 (EPI_ISL_427281) (0.8)
hCoV-19/Belgium/ULG-6942/2020 (EPI_ISL_417021)EPI_ISL_4298222020-03-15 SNP:
241: C>T (7669 strain(s) in DB)
313: C>T (124 strain(s) in DB)
3037: C>T (7693 strain(s) in DB)
14408: C>T (7704 strain(s) in DB)
19518: G>T (12 strain(s) in DB)
23403: A>G (7732 strain(s) in DB)
28845: G>T (7 strain(s) in DB)
28881: G>A (2045 strain(s) in DB)
28882: G>A (2040 strain(s) in DB)
28883: G>C (2036 strain(s) in DB)

Deletions:
1: AATTAAAGGTTTATACCTTC...>- (4882 strain(s) in DB)
29836: CCCATGTGATTTTAATAGCT...>C (754 strain(s) in DB)

hCoV-19/Belgium/ULG-6948/2020 (EPI_ISL_417022) (1)
hCoV-19/Belgium/ULG-7242/2020 (EPI_ISL_418626) (1)
hCoV-19/Belgium/ULG-6950/2020 (EPI_ISL_417023) (1)
hCoV-19/USA/AK-PHL041/2020 (EPI_ISL_437514) (0.85)
hCoV-19/USA/MN128-MDH128/2020 (EPI_ISL_421684) (0.83)
hCoV-19/Belgium/ULG-10061/2020 (EPI_ISL_424662) (0.83)
hCoV-19/USA/WI-24/2020 (EPI_ISL_417512) (0.83)
hCoV-19/Japan/Donner12/2020 (EPI_ISL_438956) (0.83)
hCoV-19/USA/WI-164/2020 (EPI_ISL_428260) (0.77)
hCoV-19/USA/MN62-MDH62/2020 (EPI_ISL_419390) (0.77)
hCoV-19/Canada/SK_63/2020 (EPI_ISL_429822) (0.77)
hCoV-19/Belgium/ULG-6948/2020 (EPI_ISL_417022)EPI_ISL_4298222020-03-15 SNP:
241: C>T (7669 strain(s) in DB)
313: C>T (124 strain(s) in DB)
3037: C>T (7693 strain(s) in DB)
14408: C>T (7704 strain(s) in DB)
19518: G>T (12 strain(s) in DB)
23403: A>G (7732 strain(s) in DB)
28845: G>T (7 strain(s) in DB)
28881: G>A (2045 strain(s) in DB)
28882: G>A (2040 strain(s) in DB)
28883: G>C (2036 strain(s) in DB)

Deletions:
1: AATTAAAGGTTTATACCTTC...>- (4882 strain(s) in DB)
29836: CCCATGTGATTTTAATAGCT...>C (754 strain(s) in DB)

hCoV-19/Belgium/ULG-6942/2020 (EPI_ISL_417021) (1)
hCoV-19/Belgium/ULG-7242/2020 (EPI_ISL_418626) (1)
hCoV-19/Belgium/ULG-6950/2020 (EPI_ISL_417023) (1)
hCoV-19/USA/AK-PHL041/2020 (EPI_ISL_437514) (0.85)
hCoV-19/USA/MN128-MDH128/2020 (EPI_ISL_421684) (0.83)
hCoV-19/Belgium/ULG-10061/2020 (EPI_ISL_424662) (0.83)
hCoV-19/USA/WI-24/2020 (EPI_ISL_417512) (0.83)
hCoV-19/Japan/Donner12/2020 (EPI_ISL_438956) (0.83)
hCoV-19/USA/WI-164/2020 (EPI_ISL_428260) (0.77)
hCoV-19/USA/MN62-MDH62/2020 (EPI_ISL_419390) (0.77)
hCoV-19/Canada/SK_63/2020 (EPI_ISL_429822) (0.77)
hCoV-19/Belgium/ULG-6950/2020 (EPI_ISL_417023)EPI_ISL_4298222020-03-15 SNP:
241: C>T (7669 strain(s) in DB)
313: C>T (124 strain(s) in DB)
3037: C>T (7693 strain(s) in DB)
14408: C>T (7704 strain(s) in DB)
19518: G>T (12 strain(s) in DB)
23403: A>G (7732 strain(s) in DB)
28845: G>T (7 strain(s) in DB)
28881: G>A (2045 strain(s) in DB)
28882: G>A (2040 strain(s) in DB)
28883: G>C (2036 strain(s) in DB)

Deletions:
1: AATTAAAGGTTTATACCTTC...>- (4882 strain(s) in DB)
29836: CCCATGTGATTTTAATAGCT...>C (754 strain(s) in DB)

hCoV-19/Belgium/ULG-6942/2020 (EPI_ISL_417021) (1)
hCoV-19/Belgium/ULG-7242/2020 (EPI_ISL_418626) (1)
hCoV-19/Belgium/ULG-6948/2020 (EPI_ISL_417022) (1)
hCoV-19/USA/AK-PHL041/2020 (EPI_ISL_437514) (0.85)
hCoV-19/USA/MN128-MDH128/2020 (EPI_ISL_421684) (0.83)
hCoV-19/Belgium/ULG-10061/2020 (EPI_ISL_424662) (0.83)
hCoV-19/USA/WI-24/2020 (EPI_ISL_417512) (0.83)
hCoV-19/Japan/Donner12/2020 (EPI_ISL_438956) (0.83)
hCoV-19/USA/WI-164/2020 (EPI_ISL_428260) (0.77)
hCoV-19/USA/MN62-MDH62/2020 (EPI_ISL_419390) (0.77)
hCoV-19/Canada/SK_63/2020 (EPI_ISL_429822) (0.77)
hCoV-19/Belgium/ULG-6972/2020EPI_ISL_4170242020-03-15
hCoV-19/Belgium/ULG-7019/2020 (EPI_ISL_417025)EPI_ISL_4330022020-03-15 SNP:
1515: A>G (47 strain(s) in DB)
9223: C>T (53 strain(s) in DB)
9438: C>T (15 strain(s) in DB)
14805: C>T (875 strain(s) in DB)
17247: T>C (334 strain(s) in DB)
26144: G>T (818 strain(s) in DB)

Deletions:
1: AATTAAAGGTTTATACCTTC...>- (4882 strain(s) in DB)
29836: CCCATGTGATTTTAATAGCT...>C (754 strain(s) in DB)

hCoV-19/Belgium/ULG-6638/2020 (EPI_ISL_417017) (0.89)
hCoV-19/USA/MN57-MDH57/2020 (EPI_ISL_417501) (0.88)
hCoV-19/USA/MN42-MDH42/2020 (EPI_ISL_417478) (0.88)
hCoV-19/Belgium/ULG-10080/2020 (EPI_ISL_424641) (0.67)
hCoV-19/England/CAMB-72740/2020 (EPI_ISL_439644) (0.67)
hCoV-19/USA/WA-UW108/2020 (MT252772) (0.6)
hCoV-19/USA/WA-UW185/2020 (MT252717) (0.6)
hCoV-19/Australia/VIC25/2020 (MT450940) (0.6)
hCoV-19/Australia/VIC84/2020 (MT450994) (0.6)
hCoV-19/Iceland/246/2020 (0.56)
hCoV-19/England/NOTT-10F413/2020 (EPI_ISL_433002) (0.56)
hCoV-19/Australia/NSW04/2020 (EPI_ISL_417030)EPI_ISL_4145212020-01-24 SNP:
2445: C>T (2 strain(s) in DB)
8782: C>T (1672 strain(s) in DB)
20367: T>C (5 strain(s) in DB)
28144: T>C (1654 strain(s) in DB)
29095: C>T (58 strain(s) in DB)

Deletions:
1: AATTAAAGGTTTATACCTTC...>- (4882 strain(s) in DB)
29836: CCCATGTGATTTTAATAGCT...>C (754 strain(s) in DB)

hCoV-19/Beijing/BJ492/2020 (EPI_ISL_430728) (0.63)
BetaCoV/Australia/NSW01/2020 (EPI_ISL_407893) (0.57)
hCoV-19/Beijing/BJ782/2020 (EPI_ISL_430741) (0.56)
hCoV-19/Japan/UT-NCGM02/2020 (EPI_ISL_418809) (0.56)
2019-nCoV_HKU-SZ-002a_2020 (0.5)
BetaCoV/Guangdong/20SF012/2020 (NMDC60013005-01) (0.5)
hCoV-19/Shanghai/SH0005/2020 (0.5)
hCoV-19/Shanghai/SH0074/2020 (0.5)
BetaCoV/Guangdong/20SF013/2020 (NMDC60013006-01) (0.5)
BetaCoV/Guangdong/20SF025/2020 (NMDC60013008-01) (0.5)
hCoV-19/Germany/BavPat3/2020 (EPI_ISL_414521) (0.44)
hCoV-19/Australia/QLDID919/2020 (EPI_ISL_417031)EPI_ISL_4170312020-03-11 SNP:
8782: C>T (1672 strain(s) in DB)
17747: C>T (1036 strain(s) in DB)
17858: A>G (1049 strain(s) in DB)
18060: C>T (1069 strain(s) in DB)
24694: A>T (93 strain(s) in DB)
28144: T>C (1654 strain(s) in DB)

Deletions:
1: AATTAAA>- (4882 strain(s) in DB)
29870: CAAAAAAAAAAAAAAAAAAA...>C (353 strain(s) in DB)

hCoV-19/Australia/QLDID920/2020 (EPI_ISL_417032)EPI_ISL_4170322020-03-11 SNP:
241: C>T (7669 strain(s) in DB)
3037: C>T (7693 strain(s) in DB)
14408: C>T (7704 strain(s) in DB)
23403: A>G (7732 strain(s) in DB)

Deletions:
1: AATTAAA>- (4882 strain(s) in DB)
29870: CAAAAAAAAAAAAAAAAAAA...>C (353 strain(s) in DB)

hCoV-19/Australia/QLDID921/2020 (EPI_ISL_417033)EPI_ISL_4170332020-03-11 SNP:
6312: C>A (127 strain(s) in DB)
11083: G>T (1220 strain(s) in DB)
13730: C>T (138 strain(s) in DB)
23929: C>T (123 strain(s) in DB)
28311: C>T (150 strain(s) in DB)

Deletions:
1: AATTAA>- (4882 strain(s) in DB)
29870: CAAAAAAAAAAAAAAAAAAA...>C (353 strain(s) in DB)

hCoV-19/Brazil/AMBR-02/2020 (EPI_ISL_417034)EPI_ISL_4170342020-03-16 SNP:
8782: C>T (1672 strain(s) in DB)
9477: T>A (113 strain(s) in DB)
12781: C>T (24 strain(s) in DB)
14805: C>T (875 strain(s) in DB)
25979: G>T (113 strain(s) in DB)
26642: C>T (7 strain(s) in DB)
28144: T>C (1654 strain(s) in DB)
28657: C>T (132 strain(s) in DB)
28863: C>T (116 strain(s) in DB)

Deletions:
1: AATTAAAGGTTTATACCTTC...>- (4882 strain(s) in DB)
29835: CCCCATGTGATTTTAATAGC...>C (23 strain(s) in DB)

hCoV-19/HongKong/case2_VB20017970/2020 (EPI_ISL_417064)MN9886692020-01-21 SNP:
28861: T>C (13 strain(s) in DB)

Deletions:
1: AATTAAAGGTTTATACCTTC...>- (4882 strain(s) in DB)
29858: TTAGGAGAATGACAAAAAAA...>T (26 strain(s) in DB)

hCoV-19/Japan/DP0804/2020 (LC571038) (0.5)
SARS-CoV-2/human/HKG/HKU-902a/2020 (0.5)
WIV02 (0.4)
BetaCoV/Zhejiang/WZ-01/2020 (NMDC60013099-01) (0.4)
hCoV-19/Korea/KCDC2007/2020 (EPI_ISL_426169) (0.33)
hCoV-19/Korea/KCDC2004/2020 (EPI_ISL_426164) (0.33)
SARS-CoV-2/HZ-91/human/2020/CHN (MT253710) (0.25)
2019-nCoV WHU01 (MN988668) (0.25)
hCoV-19/Thailand/74/2020 (0.25)
hCoV-19/Thailand/61/2020 (0.25)
2019-nCoV WHU02 (MN988669) (0.25)
hCoV-19/USA/WA-S25/2020EPI_ISL_4170782020-03-02
hCoV-19/Hong Kong/HKPU1_2101/2020EPI_ISL_4171762020-01-21
hCoV-19/Hong Kong/HKPU2_1801/2020EPI_ISL_4171772020-01-23
hCoV-19/HongKong/Case6_21012020/2020 (EPI_ISL_417178)EPI_ISL_4381992020-01-25 SNP:
745: C>T (1 strain(s) in DB)
26198: C>T (2 strain(s) in DB)

hCoV-19/China/WF0003/2020 (CNA0013888) (0.2)
WH01 (0)
hCoV-19/USA/WA-S638/2020 (EPI_ISL_438191) (0)
hCoV-19/USA/WA-S639/2020 (EPI_ISL_438192) (0)
hCoV-19/USA/WA-S640/2020 (EPI_ISL_438193) (0)
hCoV-19/USA/WA-S641/2020 (EPI_ISL_438194) (0)
hCoV-19/USA/WA-S642/2020 (EPI_ISL_438195) (0)
hCoV-19/USA/WA-S643/2020 (EPI_ISL_438196) (0)
hCoV-19/USA/WA-S644/2020 (EPI_ISL_438197) (0)
hCoV-19/USA/WA-S645/2020 (EPI_ISL_438198) (0)
hCoV-19/USA/WA-S646/2020 (EPI_ISL_438199) (0)
hCoV-19/Hong Kong/HKPU12_2201/2020EPI_ISL_4171792020-01-30
hCoV-19/Hong Kong/HKPU17_2201/2020EPI_ISL_4171802020-02-03
hCoV-19/Hong Kong/HKPU19_0402/2020EPI_ISL_4171812020-02-05
hCoV-19/Hong Kong/HKPU20_3001/2020EPI_ISL_4171822020-02-05
hCoV-19/Hong Kong/HKPU23_2601/2020EPI_ISL_4171832020-01-30
hCoV-19/Hong Kong/HKPU27_3001/2020EPI_ISL_4171842020-02-08
hCoV-19/HongKong/Case28_30012020/2020 (EPI_ISL_417185)EPI_ISL_4089772020-02-09 SNP:
26144: G>T (818 strain(s) in DB)

hCoV-19/Guangdong/GD2020087-P0008/2020 (0.5)
hCoV-19/Hong Kong/HKPU52-3101/2020 (EPI_ISL_419224) (0.5)
hCoV-19/Italy/SPL1/2020 (0.5)
hCoV-19/Australia/VIC03/2020 (MT450920) (0.5)
hCoV-19/Guangdong/20SF1136/2020 (NMDC60013105-01) (0.5)
hCoV-19/Guangdong/20SF602/2020 (NMDC60013127-01) (0.5)
SARS-CoV-2/human/ITA/INMI1/2020 (0.33)
BetaCoV/France/IDF0386/2020/P3 (EPI_ISL_411220) (0.33)
hCoV-19/England/200960515/2020 (EPI_ISL_414009) (0.33)
2019-nCoV/USA-CA2/2020 (MN994468) (0.33)
BetaCoV/Sydney/3/2020 (EPI_ISL_408977) (0.33)
hCoV-19/HongKong/Case29_01022020/2020 (EPI_ISL_417187)MT2766002020-02-08 SNP:
9962: C>T (16 strain(s) in DB)
13929: T>C (16 strain(s) in DB)
14724: C>T (24 strain(s) in DB)
21584: T>G (14 strain(s) in DB)
26144: G>T (818 strain(s) in DB)

hCoV-19/HongKong/Case30_29012020/2020 (EPI_ISL_417188) (1)
hCoV-19/Hong Kong/HKPU40-2801/2020 (EPI_ISL_419215) (1)
hCoV-19/Hong Kong/HKPU39-3001/2020 (EPI_ISL_419214) (1)
hCoV-19/Hong Kong/Case36_07022020/2020 (EPI_ISL_418815) (0.83)
hCoV-19/HongKong/Case32_04022020/2020 (EPI_ISL_417193) (0.83)
hCoV-19/Hong Kong/HKPU41-0802/2020 (EPI_ISL_419216) (0.83)
hCoV-19/HongKong/Case34_30012020/2020 (EPI_ISL_417197) (0.67)
hCoV-19/Hong Kong/HKPU89-2502/2020 (EPI_ISL_419250) (0.57)
hCoV-19/Hong Kong/HKPU83-1702/2020 (EPI_ISL_419247) (0.57)
hCoV-19/Hong Kong/case90_VM20002907/2020 (MT215195) (0.56)
SARS-CoV-2/human/HKG/case113_VM2003179/2020 (MT276600) (0.56)
hCoV-19/HongKong/Case30_29012020/2020 (EPI_ISL_417188)MT2766002020-02-08 SNP:
9962: C>T (16 strain(s) in DB)
13929: T>C (16 strain(s) in DB)
14724: C>T (24 strain(s) in DB)
21584: T>G (14 strain(s) in DB)
26144: G>T (818 strain(s) in DB)

hCoV-19/HongKong/Case29_01022020/2020 (EPI_ISL_417187) (1)
hCoV-19/Hong Kong/HKPU40-2801/2020 (EPI_ISL_419215) (1)
hCoV-19/Hong Kong/HKPU39-3001/2020 (EPI_ISL_419214) (1)
hCoV-19/Hong Kong/Case36_07022020/2020 (EPI_ISL_418815) (0.83)
hCoV-19/HongKong/Case32_04022020/2020 (EPI_ISL_417193) (0.83)
hCoV-19/Hong Kong/HKPU41-0802/2020 (EPI_ISL_419216) (0.83)
hCoV-19/HongKong/Case34_30012020/2020 (EPI_ISL_417197) (0.67)
hCoV-19/Hong Kong/HKPU89-2502/2020 (EPI_ISL_419250) (0.57)
hCoV-19/Hong Kong/HKPU83-1702/2020 (EPI_ISL_419247) (0.57)
hCoV-19/Hong Kong/case90_VM20002907/2020 (MT215195) (0.56)
SARS-CoV-2/human/HKG/case113_VM2003179/2020 (MT276600) (0.56)
hCoV-19/USA/MN4-MDH4/2020EPI_ISL_4171892020-03-09
hCoV-19/Hong Kong/HKPU_2801/2020EPI_ISL_4171902020-02-08
hCoV-19/USA/MN5-MDH5/2020 (EPI_ISL_417191)EPI_ISL_4336562020-03-10 SNP:
241: C>T (7669 strain(s) in DB)
3037: C>T (7693 strain(s) in DB)
14408: C>T (7704 strain(s) in DB)
20833: T>C (1 strain(s) in DB)
23403: A>G (7732 strain(s) in DB)
28881: G>A (2045 strain(s) in DB)
28882: G>A (2040 strain(s) in DB)
28883: G>C (2036 strain(s) in DB)
29697: A>G (2 strain(s) in DB)
29698: T>A (2 strain(s) in DB)
29700: A>G (161 strain(s) in DB)
29714: A>G (1 strain(s) in DB)
29715: G>A (3 strain(s) in DB)
29716: A>G (2 strain(s) in DB)

Insertions:
29743: C>CGA (7 strain(s) in DB)
29775: T>TA (5 strain(s) in DB)

Deletions:
1: AATTAAAGGTTTATACCTTC...>- (4882 strain(s) in DB)
29836: CCCATGTGATTTTAATAGCT...>C (754 strain(s) in DB)

hCoV-19/Japan/P4-4/2020 (EPI_ISL_419304) (0.5)
hCoV-19/Belgium/ULG-9714/2020 (EPI_ISL_418655) (0.5)
hCoV-19/England/CAMB-7A247/2020 (EPI_ISL_441228) (0.5)
hCoV-19/Belgium/ULG-3000/2020 (EPI_ISL_417004) (0.5)
nCoV-19/Georgia/Tb-1679/2020 (EPI_ISL_420144) (0.5)
hCoV-19/Scotland/CVR337/2020 (EPI_ISL_439056) (0.5)
hCoV-19/Scotland/CVR1493/2020 (EPI_ISL_433600) (0.5)
hCoV-19/Belgium/ULG-9741/2020 (EPI_ISL_418664) (0.47)
hCoV-19/Scotland/CVR1221/2020 (EPI_ISL_438776) (0.47)
hCoV-19/Scotland/CVR21/2020 (EPI_ISL_425739) (0.47)
hCoV-19/Scotland/CVR1698/2020 (EPI_ISL_433656) (0.47)
hCoV-19/USA/MN25-MDH25/2020EPI_ISL_4171922020-03-12
hCoV-19/HongKong/Case32_04022020/2020 (EPI_ISL_417193)EPI_ISL_4192472020-02-09 SNP:
9962: C>T (16 strain(s) in DB)
13929: T>C (16 strain(s) in DB)
14724: C>T (24 strain(s) in DB)
21584: T>G (14 strain(s) in DB)
21974: G>T (12 strain(s) in DB)
26144: G>T (818 strain(s) in DB)

hCoV-19/Hong Kong/HKPU41-0802/2020 (EPI_ISL_419216) (1)
hCoV-19/HongKong/Case29_01022020/2020 (EPI_ISL_417187) (0.83)
hCoV-19/Hong Kong/HKPU40-2801/2020 (EPI_ISL_419215) (0.83)
hCoV-19/Hong Kong/HKPU39-3001/2020 (EPI_ISL_419214) (0.83)
hCoV-19/HongKong/Case30_29012020/2020 (EPI_ISL_417188) (0.83)
hCoV-19/HongKong/Case34_30012020/2020 (EPI_ISL_417197) (0.83)
hCoV-19/Hong Kong/Case36_07022020/2020 (EPI_ISL_418815) (0.71)
SARS-CoV-2/human/HKG/case113_VM2003179/2020 (MT276600) (0.5)
hCoV-19/Hong Kong/case90_VM20002907/2020 (MT215195) (0.5)
hCoV-19/Hong Kong/case85_VM20002868/2020 (MT215194) (0.5)
hCoV-19/Hong Kong/HKPU83-1702/2020 (EPI_ISL_419247) (0.5)
hCoV-19/USA/MN26-MDH26/2020EPI_ISL_4171942020-03-12
hCoV-19/Hong Kong/HKPU33_0202/2020EPI_ISL_4171952020-02-09
hCoV-19/USA/MN29-MDH29/2020EPI_ISL_4171962020-03-11
hCoV-19/HongKong/Case34_30012020/2020 (EPI_ISL_417197)EPI_ISL_4171972020-02-09 SNP:
9962: C>T (16 strain(s) in DB)
13929: T>C (16 strain(s) in DB)
21584: T>G (14 strain(s) in DB)
21974: G>T (12 strain(s) in DB)
26144: G>T (818 strain(s) in DB)

hCoV-19/USA/MN30-MDH30/2020EPI_ISL_4171982020-03-12
hCoV-19/Hong Kong/HKPU35_0402/2020EPI_ISL_4171992020-02-09
hCoV-19/USA/WI-06/2020 (EPI_ISL_417200)EPI_ISL_4251732020-03-21 SNP:
1929: C>T (5 strain(s) in DB)
8782: C>T (1672 strain(s) in DB)
16381: G>A (27 strain(s) in DB)
17877: T>C (31 strain(s) in DB)
20316: C>T (21 strain(s) in DB)
25500: G>T (24 strain(s) in DB)
28144: T>C (1654 strain(s) in DB)
28878: G>A (75 strain(s) in DB)
29742: G>A (236 strain(s) in DB)

Deletions:
1: AATTAAAGGTTTATACCTTC...>- (4882 strain(s) in DB)
1813: TA>T (16 strain(s) in DB)
3412: TA>T (5 strain(s) in DB)
5224: TA>T (8 strain(s) in DB)
11074: CT>C (49 strain(s) in DB)
23143: TA>T (8 strain(s) in DB)
24672: CA>C (1 strain(s) in DB)
29869: ACAAAAAAAAAAAAAAAAAA...>A (89 strain(s) in DB)

hCoV-19/USA/WI-07/2020 (EPI_ISL_417201) (0.7)
hCoV-19/USA/WI-22/2020 (EPI_ISL_417514) (0.5)
hCoV-19/USA/WI-117/2020 (EPI_ISL_425174) (0.47)
hCoV-19/USA/WI-66/2020 (EPI_ISL_421324) (0.47)
hCoV-19/USA/WI-73/2020 (EPI_ISL_421331) (0.47)
hCoV-19/USA/WI-71/2020 (EPI_ISL_421329) (0.47)
hCoV-19/USA/WI-70/2020 (EPI_ISL_421328) (0.47)
hCoV-19/USA/WI-67/2020 (EPI_ISL_421325) (0.47)
hCoV-19/USA/WI-149/2020 (EPI_ISL_427456) (0.45)
hCoV-19/USA/WI-132/2020 (EPI_ISL_427439) (0.45)
hCoV-19/USA/WI-116/2020 (EPI_ISL_425173) (0.45)
hCoV-19/USA/WI-07/2020 (EPI_ISL_417201)EPI_ISL_4213242020-03-21 SNP:
8: G>A (40 strain(s) in DB)
8782: C>T (1672 strain(s) in DB)
16381: G>A (27 strain(s) in DB)
17877: T>C (31 strain(s) in DB)
20316: C>T (21 strain(s) in DB)
25500: G>T (24 strain(s) in DB)
26211: G>T (12 strain(s) in DB)
28144: T>C (1654 strain(s) in DB)
28878: G>A (75 strain(s) in DB)
29742: G>A (236 strain(s) in DB)

Deletions:
1: AATTA>- (4882 strain(s) in DB)
1813: TA>T (16 strain(s) in DB)
3412: TA>T (5 strain(s) in DB)
5224: TA>T (8 strain(s) in DB)
11074: CT>C (49 strain(s) in DB)
25587: CA>C (10 strain(s) in DB)
29869: ACAAAAAAAAAAAAAAAAAA...>A (89 strain(s) in DB)

hCoV-19/USA/WI-06/2020 (EPI_ISL_417200) (0.7)
hCoV-19/USA/WI-117/2020 (EPI_ISL_425174) (0.56)
hCoV-19/USA/WI-38/2020 (EPI_ISL_421296) (0.53)
hCoV-19/USA/WI-69/2020 (EPI_ISL_421327) (0.53)
hCoV-19/USA/WI-61/2020 (EPI_ISL_421319) (0.53)
hCoV-19/USA/WI-132/2020 (EPI_ISL_427439) (0.53)
hCoV-19/USA/WI-149/2020 (EPI_ISL_427456) (0.53)
hCoV-19/USA/WI-22/2020 (EPI_ISL_417514) (0.5)
hCoV-19/USA/WI-255/2020 (EPI_ISL_428729) (0.5)
hCoV-19/USA/WI-77/2020 (EPI_ISL_421335) (0.5)
hCoV-19/USA/WI-66/2020 (EPI_ISL_421324) (0.47)
hCoV-19/USA/WI-08/2020 (EPI_ISL_417202)MT4510772020-03-21 SNP:
241: C>T (7669 strain(s) in DB)
3037: C>T (7693 strain(s) in DB)
3871: G>T (25 strain(s) in DB)
14408: C>T (7704 strain(s) in DB)
23403: A>G (7732 strain(s) in DB)
29614: C>T (11 strain(s) in DB)

Deletions:
1: AATTAAAGGTTTATACCTTC...>- (4882 strain(s) in DB)
1813: TA>T (16 strain(s) in DB)
3412: TA>T (5 strain(s) in DB)
11074: CT>C (49 strain(s) in DB)
29868: GACAAAAAAAAAAAAAAAAA...>G (177 strain(s) in DB)

hCoV-19/Belgium/GE-030573/2020 (EPI_ISL_420329) (0.55)
hCoV-19/Belgium/WAM-030676/2020 (EPI_ISL_420332) (0.55)
hCoV-19/USA/WI-05/2020 (EPI_ISL_416492) (0.53)
hCoV-19/USA/WI-115/2020 (EPI_ISL_425172) (0.5)
hCoV-19/Belgium/SH-03014/2020 (EPI_ISL_415156) (0.5)
hCoV-19/USA/WI-108/2020 (EPI_ISL_425165) (0.5)
hCoV-19/USA/WI-18/2020 (EPI_ISL_417515) (0.5)
hCoV-19/Belgium/CA-0319111/2020 (EPI_ISL_420368) (0.5)
hCoV-19/Belgium/VHRA-030644/2020 (EPI_ISL_418794) (0.46)
hCoV-19/Wales/PHWC-29E07/2020 (EPI_ISL_432267) (0.45)
hCoV-19/Australia/VIC174/2020 (MT451077) (0.45)
hCoV-19/USA/WI-09/2020 (EPI_ISL_417203)EPI_ISL_4188122020-03-21 SNP:
8782: C>T (1672 strain(s) in DB)
10771: T>C (17 strain(s) in DB)
17747: C>T (1036 strain(s) in DB)
17858: A>G (1049 strain(s) in DB)
18060: C>T (1069 strain(s) in DB)
28144: T>C (1654 strain(s) in DB)

Deletions:
1: AATTAAAGGTTTATACCTTC...>- (4882 strain(s) in DB)
1813: TA>T (16 strain(s) in DB)
3412: TA>T (5 strain(s) in DB)
5224: TA>T (8 strain(s) in DB)
11074: CT>C (49 strain(s) in DB)
23143: TA>T (8 strain(s) in DB)
29867: TGACAAAAAAAAAAAAAAAA...>T (123 strain(s) in DB)

hCoV-19/Canada/PE_3/2020 (EPI_ISL_429808) (0.5)
hCoV-19/Canada/ON_PHL3877/2020 (EPI_ISL_418339) (0.5)
hCoV-19/Australia/VIC40/2020 (MT450955) (0.5)
hCoV-19/Canada/NL_34/2020 (EPI_ISL_429815) (0.47)
hCoV-19/Canada/ON_PHL4069/2020 (EPI_ISL_418334) (0.47)
hCoV-19/Australia/VIC41/2020 (MT450956) (0.47)
hCoV-19/Canada/ON_PHL4464/2020 (EPI_ISL_418335) (0.47)
hCoV-19/USA/WA-UW68/2020 (MT252788) (0.47)
hCoV-19/Canada/ON_PHL5705/2020 (EPI_ISL_418336) (0.47)
BetaCoV/USA/WA4-UW2/2020 (MT163717) (0.47)
hCoV-19/Canada/MB_8/2020 (EPI_ISL_418812) (0.47)
hCoV-19/USA/WI-10/2020 (EPI_ISL_417204)MT4510522020-03-21 SNP:
29: A>C (3 strain(s) in DB)
30: A>T (8 strain(s) in DB)
241: C>T (7669 strain(s) in DB)
1059: C>T (2820 strain(s) in DB)
3037: C>T (7693 strain(s) in DB)
11224: C>T (12 strain(s) in DB)
14408: C>T (7704 strain(s) in DB)
23403: A>G (7732 strain(s) in DB)
25563: G>T (3418 strain(s) in DB)

Deletions:
1: AATTAAAGGTTTATACCTTC>- (4882 strain(s) in DB)
24: GT>G (9 strain(s) in DB)
1813: TA>T (16 strain(s) in DB)
3412: TA>T (5 strain(s) in DB)
5224: TA>T (8 strain(s) in DB)
11074: CT>C (49 strain(s) in DB)
23143: TA>T (8 strain(s) in DB)
29866: ATGACAAAAAAAAAAAAAAA...>A (422 strain(s) in DB)

hCoV-19/USA/WI-05/2020 (EPI_ISL_416492) (0.45)
hCoV-19/USA/MN-MDH-119/2020 (EPI_ISL_427275) (0.44)
hCoV-19/Canada/NS_30/2020 (EPI_ISL_429812) (0.44)
hCoV-19/England/BRIS-121D4D/2020 (EPI_ISL_439966) (0.44)
hCoV-19/USA/MN-MDH-621/2020 (EPI_ISL_437383) (0.42)
hCoV-19/USA/ID-UW-3888/2020 (MT358703) (0.42)
hCoV-19/Canada/ON_PHL1095/2020 (EPI_ISL_418361) (0.42)
hCoV-19/USA/WI4/2020 (EPI_ISL_416491) (0.42)
hCoV-19/USA/WI-94/2020 (EPI_ISL_425151) (0.42)
hCoV-19/Austria/CeMM0052/2020 (EPI_ISL_437935) (0.41)
hCoV-19/Australia/VIC148/2020 (MT451052) (0.41)
hCoV-19/NewZealand/CoV001/2020 (EPI_ISL_417211)EPI_ISL_4257962020-03-11 SNP:
514: T>C (127 strain(s) in DB)
22591: C>T (6 strain(s) in DB)

Deletions:
1: AATTAAAGGTTTATACCTTC...>- (4882 strain(s) in DB)
1604: AATG>A (288 strain(s) in DB)
29839: ATGTGATTTTAATAGCTTCT...>A (12 strain(s) in DB)

hCoV-19/Netherlands/NA_227/2020 (EPI_ISL_422762) (0.5)
hCoV-19/Netherlands/NA_207/2020 (EPI_ISL_422742) (0.5)
hCoV-19/Netherlands/Utrecht_12/2020 (EPI_ISL_414551) (0.5)
hCov-19/Netherlands/NA/32/2020 (EPI_ISL_415489) (0.5)
hCoV-19/Scotland/CVR71/2020 (EPI_ISL_425802) (0.5)
hCov-19/Netherlands/NoordBrabant/51/2020 (EPI_ISL_415507) (0.5)
hCoV-19/Netherlands/NoordBrabant_77/2020 (EPI_ISL_422873) (0.5)
hCoV-19/Netherlands/NA_185/2020 (EPI_ISL_422720) (0.5)
hCoV-19/Netherlands/NoordBrabant_95/2020 (EPI_ISL_422889) (0.5)
hCoV-19/Netherlands/NA_195/2020 (EPI_ISL_422730) (0.5)
hCoV-19/Scotland/CVR65/2020 (EPI_ISL_425796) (0.5)
hCoV-19/NewZealand/CoV002/2020 (EPI_ISL_417212)EPI_ISL_4329882020-03-11 SNP:
1684: C>T (19 strain(s) in DB)
13627: G>T (24 strain(s) in DB)
14805: C>T (875 strain(s) in DB)
15540: C>T (35 strain(s) in DB)
26144: G>T (818 strain(s) in DB)
28338: A>G (24 strain(s) in DB)
29403: A>G (3 strain(s) in DB)

Deletions:
1: AATTAAAGGTTTATACCTTC...>- (4882 strain(s) in DB)
11082: TG>T (3 strain(s) in DB)
29852: AGCTTCTTAGGAGAATGACA...>A (11 strain(s) in DB)

hCoV-19/Australia/VIC176/2020 (MT451079) (0.55)
hCoV-19/Australia/VIC325/2020 (MT451217) (0.46)
hCoV-19/Australia/VIC326/2020 (MT451218) (0.46)
hCoV-19/Wales/PHWC-27935/2020 (EPI_ISL_432270) (0.46)
hCoV-19/Australia/VIC344/2020 (MT451235) (0.43)
hCoV-19/Australia/VIC342/2020 (MT451233) (0.43)
hCoV-19/Australia/VIC280/2020 (MT451176) (0.43)
hCoV-19/Australia/VIC305/2020 (MT451197) (0.43)
hCoV-19/Australia/VIC223/2020 (MT451123) (0.43)
hCoV-19/England/CAMB-7815B/2020 (EPI_ISL_441112) (0.4)
hCoV-19/England/NOTT-10F2DD/2020 (EPI_ISL_432988) (0.38)
hCoV-19/England/20102068502/2020EPI_ISL_4172132020-03-01
hCoV-19/England/20102073303/2020EPI_ISL_4172142020-03-02
hCoV-19/England/20102087902/2020EPI_ISL_4172152020-02-25
hCoV-19/England/20102088002/2020EPI_ISL_4172162020-02-25
hCoV-19/England/20102098802/2020EPI_ISL_4172172020-03-01
hCoV-19/England/20102112102/2020EPI_ISL_4172182020-03-02
hCoV-19/England/20102115303/2020EPI_ISL_4172192020-03-01
hCoV-19/England/20104002606/2020EPI_ISL_4172202020-03-03
hCoV-19/England/20104002902/2020EPI_ISL_4172212020-03-04
hCoV-19/England/20104003002/2020 (EPI_ISL_417222)EPI_ISL_4324812020-03-04 SNP:
241: C>T (7669 strain(s) in DB)
3037: C>T (7693 strain(s) in DB)
14408: C>T (7704 strain(s) in DB)
23403: A>G (7732 strain(s) in DB)
29632: C>Y (2 strain(s) in DB)

hCoV-19/Germany/BAV-MVP0015/2020 (EPI_ISL_437216) (0.8)
hCoV-19/Australia/VIC682/2020 (MT451478) (0.8)
hCoV-19/Iceland/93/2020 (0.8)
hCoV-19/Russia/Vector_73406/2020 (EPI_ISL_428885) (0.8)
hCoV-19/England/CAMB-73D2F/2020 (EPI_ISL_433688) (0.8)
hCoV-19/Italy/CDG1/2020 (0.8)
hCoV-19/Wales/PHWC-27C1E/2020 (EPI_ISL_432238) (0.8)
hCoV-19/USA/NY-NYUMC69/2020 (EPI_ISL_420585) (0.8)
hCoV-19/Belgium/UGent-25/2020 (EPI_ISL_425064) (0.8)
hCoV-19/USA/NY-NYUMC70/2020 (EPI_ISL_420586) (0.8)
hCoV-19/England/SHEF-CA0B7/2020 (EPI_ISL_432481) (0.8)
hCoV-19/England/20104004402/2020EPI_ISL_4172232020-03-02
hCoV-19/England/20104004502/2020EPI_ISL_4172242020-03-01
hCoV-19/England/20104004802/2020EPI_ISL_4172252020-03-02
hCoV-19/England/20104004902/2020 (EPI_ISL_417226)EPI_ISL_4172262020-03-02 SNP:
241: C>T (7669 strain(s) in DB)
3037: C>T (7693 strain(s) in DB)
14408: C>T (7704 strain(s) in DB)
23403: A>G (7732 strain(s) in DB)
25350: C>T (64 strain(s) in DB)

hCoV-19/England/20104007503/2020 (EPI_ISL_417227)EPI_ISL_4172272020-03-03 SNP:
241: C>T (7669 strain(s) in DB)
3037: C>T (7693 strain(s) in DB)
14408: C>T (7704 strain(s) in DB)
23403: A>G (7732 strain(s) in DB)

hCoV-19/England/20104008402/2020EPI_ISL_4172282020-03-03
hCoV-19/England/20104008502/2020EPI_ISL_4172292020-03-01
hCoV-19/England/20104008702/2020EPI_ISL_4172302020-03-02
hCoV-19/England/20104008802/2020 (EPI_ISL_417231)EPI_ISL_4187022020-03-03 SNP:
241: C>T (7669 strain(s) in DB)
3037: C>T (7693 strain(s) in DB)
7528: C>T (12 strain(s) in DB)
14408: C>T (7704 strain(s) in DB)
17762: C>T (1 strain(s) in DB)
23403: A>G (7732 strain(s) in DB)
25350: C>T (64 strain(s) in DB)

hCoV-19/England/20104004902/2020 (EPI_ISL_417226) (0.71)
hCoV-19/England/200990660/2020 (EPI_ISL_414523) (0.71)
hCoV-19/England/CAMB-783EC/2020 (EPI_ISL_433729) (0.71)
hCoV-19/England/CAMB-787B3/2020 (EPI_ISL_433772) (0.71)
hCoV-19/England/NOTT-10E7A2/2020 (EPI_ISL_425593) (0.71)
hCoV-19/England/20109050506/2020 (EPI_ISL_417266) (0.71)
hCoV-19/England/20108007002/2020 (EPI_ISL_417255) (0.71)
hCoV-19/England/20140068904/2020 (EPI_ISL_423401) (0.71)
hCoV-19/England/CAMB-73B61/2020 (EPI_ISL_433667) (0.71)
hCoV-19/England/20122032802/2020 (EPI_ISL_418673) (0.71)
hCoV-19/England/20124020802/2020 (EPI_ISL_418702) (0.71)
hCoV-19/England/20104008902/2020 (EPI_ISL_417232)EPI_ISL_4294732020-03-04 SNP:
241: C>T (7669 strain(s) in DB)
1514: C>T (10 strain(s) in DB)
3037: C>T (7693 strain(s) in DB)
14408: C>T (7704 strain(s) in DB)
23403: A>G (7732 strain(s) in DB)
27046: C>T (266 strain(s) in DB)
28881: G>A (2045 strain(s) in DB)
28882: G>A (2040 strain(s) in DB)
28883: G>C (2036 strain(s) in DB)

hCoV-19/Scotland/EDB168/2020 (EPI_ISL_425925) (0.89)
hCoV-19/Russia/Vector_64405/2020 (EPI_ISL_428869) (0.89)
hCoV-19/Denmark/ALAB-HH62/2020 (EPI_ISL_429308) (0.89)
hCoV-19/England/20109098806/2020 (EPI_ISL_417295) (0.89)
hCoV-19/England/20109097506/2020 (EPI_ISL_417293) (0.89)
hCoV-19/Scotland/EDB148/2020 (EPI_ISL_425916) (0.89)
hCoV-19/England/20108006003/2020 (EPI_ISL_417252) (0.89)
hCoV-19/England/20104013703/2020 (EPI_ISL_417235) (0.89)
hCoV-19/Russia/Vector_71605/2020 (EPI_ISL_428872) (0.89)
hCoV-19/Russia/Vector_62506/2020 (EPI_ISL_428862) (0.89)
hCoV-19/Denmark/ALAB-SSI365/2020 (EPI_ISL_429473) (0.89)
hCoV-19/England/20104009002/2020 (EPI_ISL_417233)EPI_ISL_4172332020-03-02 SNP:
241: C>T (7669 strain(s) in DB)
3037: C>T (7693 strain(s) in DB)
14408: C>T (7704 strain(s) in DB)
23403: A>G (7732 strain(s) in DB)
24077: G>T (20 strain(s) in DB)

hCoV-19/England/20104009102/2020 (EPI_ISL_417234)EPI_ISL_4372182020-03-02 SNP:
241: C>T (7669 strain(s) in DB)
3037: C>T (7693 strain(s) in DB)
14408: C>T (7704 strain(s) in DB)
20031: C>A (10 strain(s) in DB)
23403: A>G (7732 strain(s) in DB)
27046: C>T (266 strain(s) in DB)
28881: G>A (2045 strain(s) in DB)
28882: G>A (2040 strain(s) in DB)
28883: G>C (2036 strain(s) in DB)

hCoV-19/England/20108007302/2020 (EPI_ISL_417256) (1)
hCoV-19/England/20109053606/2020 (EPI_ISL_417279) (0.9)
hCoV-19/England/20104015302/2020 (EPI_ISL_417236) (0.9)
hCoV-19/Ireland/20G21145/2020 (EPI_ISL_418548) (0.89)
hCoV-19/Russia/Vector_62506/2020 (EPI_ISL_428862) (0.89)
hCoV-19/Scotland/EDB148/2020 (EPI_ISL_425916) (0.89)
hCoV-19/Iceland/22/2020 (0.89)
hCoV-19/Denmark/ALAB-SSI405/2020 (EPI_ISL_429499) (0.89)
hCoV-19/Russia/Vector_64405/2020 (EPI_ISL_428869) (0.89)
hCoV-19/Iceland/83/2020 (0.89)
hCoV-19/Germany/BAV-MVP0017/2020 (EPI_ISL_437218) (0.89)
hCoV-19/England/20104013703/2020 (EPI_ISL_417235)EPI_ISL_4172352020-03-02 SNP:
241: C>T (7669 strain(s) in DB)
3037: C>T (7693 strain(s) in DB)
14408: C>T (7704 strain(s) in DB)
23403: A>G (7732 strain(s) in DB)
27046: C>T (266 strain(s) in DB)
28881: G>A (2045 strain(s) in DB)
28882: G>A (2040 strain(s) in DB)
28883: G>C (2036 strain(s) in DB)

hCoV-19/England/20104015302/2020 (EPI_ISL_417236)EPI_ISL_4172932020-03-01 SNP:
241: C>T (7669 strain(s) in DB)
3037: C>T (7693 strain(s) in DB)
11755: A>R (5 strain(s) in DB)
14408: C>T (7704 strain(s) in DB)
20031: C>M (10 strain(s) in DB)
23403: A>G (7732 strain(s) in DB)
27046: C>T (266 strain(s) in DB)
28881: G>R (2045 strain(s) in DB)
28882: G>R (2040 strain(s) in DB)
28883: G>S (2036 strain(s) in DB)

hCoV-19/England/20108007302/2020 (EPI_ISL_417256) (0.9)
hCoV-19/England/20104009102/2020 (EPI_ISL_417234) (0.9)
hCoV-19/England/20109053606/2020 (EPI_ISL_417279) (0.82)
hCoV-19/Iceland/78/2020 (0.8)
hCoV-19/Denmark/ALAB-SSI365/2020 (EPI_ISL_429473) (0.8)
hCoV-19/England/SHEF-BFCB1/2020 (EPI_ISL_416730) (0.8)
hCoV-19/England/20109098806/2020 (EPI_ISL_417295) (0.8)
hCoV-19/Ireland/20G21145/2020 (EPI_ISL_418548) (0.8)
hCoV-19/Iceland/19/2020 (0.8)
hCoV-19/Russia/Vector_64405/2020 (EPI_ISL_428869) (0.8)
hCoV-19/England/20109097506/2020 (EPI_ISL_417293) (0.8)
hCoV-19/England/20104023103/2020EPI_ISL_4172372020-03-03
hCoV-19/England/20104035803/2020EPI_ISL_4172382020-03-03
hCoV-19/England/20106003303/2020EPI_ISL_4172392020-03-03
hCoV-19/England/20106004803/2020 (EPI_ISL_417240)EPI_ISL_4187022020-03-03 SNP:
241: C>T (7669 strain(s) in DB)
3037: C>T (7693 strain(s) in DB)
14408: C>T (7704 strain(s) in DB)
20434: G>T (2 strain(s) in DB)
23403: A>G (7732 strain(s) in DB)
25350: C>T (64 strain(s) in DB)
26858: C>T (4 strain(s) in DB)

hCoV-19/England/SHEF-BFCC0/2020 (EPI_ISL_416731) (1)
hCoV-19/England/CAMB-7FC53/2020 (EPI_ISL_433496) (0.71)
hCoV-19/England/CAMB-73B61/2020 (EPI_ISL_433667) (0.71)
hCoV-19/England/SHEF-CFE03/2020 (EPI_ISL_432601) (0.71)
hCoV-19/England/20109050506/2020 (EPI_ISL_417266) (0.71)
hCoV-19/Iceland/261/2020 (0.71)
hCoV-19/England/20140068904/2020 (EPI_ISL_423401) (0.71)
hCoV-19/England/20104004902/2020 (EPI_ISL_417226) (0.71)
hCoV-19/Scotland/EDB149/2020 (EPI_ISL_425917) (0.71)
hCoV-19/England/SHEF-C0734/2020 (EPI_ISL_420242) (0.71)
hCoV-19/England/20124020802/2020 (EPI_ISL_418702) (0.71)
hCoV-19/England/20106004902/2020EPI_ISL_4172412020-03-05
hCoV-19/England/20106005103/2020EPI_ISL_4172422020-03-03
hCoV-19/England/20106005303/2020EPI_ISL_4172432020-03-03
hCoV-19/England/20106005403/2020 (EPI_ISL_417244)EPI_ISL_4238392020-03-03 SNP:
241: C>T (7669 strain(s) in DB)
3037: C>T (7693 strain(s) in DB)
14408: C>T (7704 strain(s) in DB)
23403: A>G (7732 strain(s) in DB)
28881: G>A (2045 strain(s) in DB)
28882: G>A (2040 strain(s) in DB)
28883: G>C (2036 strain(s) in DB)
29256: G>T (2 strain(s) in DB)

hCoV-19/England/20109099006/2020 (EPI_ISL_417297) (1)
hCoV-19/NewZealand/20VR0189/2020 (EPI_ISL_416519) (0.88)
hCoV-19/England/20139060504/2020 (EPI_ISL_420733) (0.88)
hCoV-19/Russia/Vector_87104/2020 (EPI_ISL_428914) (0.88)
hCoV-19/England/20132032504/2020 (EPI_ISL_423771) (0.88)
hCoV-19/England/CAMB-73BF8/2020 (EPI_ISL_433675) (0.88)
hCoV-19/England/LOND-D3E66/2020 (EPI_ISL_441042) (0.88)
hCoV-19/England/20132096304/2020 (EPI_ISL_423830) (0.88)
hCoV-19/England/20132100404/2020 (EPI_ISL_423834) (0.88)
hCoV-19/England/LOND-D359E/2020 (EPI_ISL_440958) (0.88)
hCoV-19/England/20132105704/2020 (EPI_ISL_423839) (0.88)