# Reference
MN908947

# Duplicate of Guangdong/20SF012/2020 / EPI_ISL_403932
HKU-SZ-002a_2020

# Duplicates of USA/WA1/2020
USA/WA1-F6/2020
USA/WA1-A12/2020

# Duplicates of Wuhan/IVDC-HB-envF13/2020
Wuhan/IVDC-HB-envF13-20/2020
Wuhan/IVDC-HB-envF13-21/2020
env/Wuhan/IVDC-HBF13-20/2020
env/Wuhan/IVDC-HBF13-21/2020

# Potentially artificial mouse sample
mouse/Harbin/HRB-26m/2020

# Duplicates of Italy/INMI1-cs/2020
Italy/INMI1/2020
Italy/INMI1-isl/2020

# Duplicates of France/IDF0372/2020, France/IDF0515/2020 and France/IDF0386-islP1/2020
France/IDF0372-isl/2020
France/IDF0515-isl/2020
France/IDF0386-islP3/2020

# Appears to be a duplicate of France/IDF0515/2020 47F taken 3 days later on Feb 2
France/IDF0571/2020

# Presumed early submission of the now-included Shenzhen/HKU-SZ-005/2020. Formerly a lack of precise date lead to an incorrect time placement (end of Jan)
HKU-SZ-005b_2020

# Unknown precise date (2020-01-XX). Travel history shows Hubei, so may be good to rerun and see how this fits.
SouthKorea/SNU01/2020

# Doesn't have the enough divergence relative to supposed sampling date
Hefei/2/2020

# Seems divergent - sample date 8 Jan, but 6 muts from root.
Jingzhou/HBCDC-HB-01/2020

# Far to divergent- 30 mutations
Wuhan/HBCDC-HB-04/2019

# Too divergent
DRC/KN-0051/2020
India/S8/2020
India/S10/2020
India/S12/2020

# UPHL-05 and -06 are same patient - exclude -06
USA/UPHL-06/2020

# UPHL-03 and -04 are same patient - exclude -04
USA/UPHL-04/2020

# Missing mutations
Canada/BC_40860/2020
England/20102000906/2020
England/20108125106/2020
England/20109050106/2020
Germany/NRW-31/2020
Guangzhou/GZMU0031/2020
Iceland/263/2020
Iceland/274/2020
Iceland/288/2020
Ireland/COR-20134/2020
Netherlands/Oisterwijk_1364072/2020
Netherlands/Utrecht_1364066/2020
Pakistan/JRCGR_SCV-54_IBGE-06/2020
Pakistan/Manga-KPK/2020
Qatar/QA02/2020
Qatar/QA08/2020
Qatar/QA11/2020
Qatar/QA12/2020
Qatar/QA13/2020
Qatar/QA15/2020
Qatar/QA16/2020
Qatar/QA17/2020
Qatar/QA18/2020
Qatar/QA19/2020
Qatar/QA20/2020
Qatar/QA21/2020
Qatar/QA22/2020
Qatar/QA23/2020
Qatar/QA24/2020
Scotland/EDB034/2020
Singapore/28/2020
Singapore/31/2020
Singapore/32/2020
USA/CA-CZB0706/2020
USA/CT-Yale-001/2020
USA/MN-MDH-146/2020
USA/MN135-MDH135/2020
England/20144064004/2020
Iceland/516/2020

# Many A's from position 29767 to 29799
England/20146015504/2020

# Suspicious mutations in subsequent positions - possible sequencing error
USA/UN-UW-1486/2020
USA/ID-UW-4462/2020
USA/WA-UW-4118/2020
England/20132002004/2020
Wales/PHWC-25867/2020
England/20129171402/2020
Wales/PHWC-24895/2020

# Confusing phylogeography
Netherlands/Rotterdam_1363790/2020
Netherlands/NoordBrabant_5/2020

# Missing precise date
Netherlands/NoordBrabant_34/2020

# Unbelieveable date when submitted - 23 June 2020 and submitted same day:
Egypt/CUNCI-HGC5I015/2020

# These have more tip-specific divergence than expected
Beijing/IVDC-BJ-005/2020
China/WF0023/2020
Henan/IVDC-HeN-002/2020
Guangdong/GDSZ202013-P0014/2020
Shanghai/IVDC-SH-001/2020
Shenzhen/SZTH-001/2020
Shenzhen/SZTH-004/2020
Wuhan/IPBCAMS-WH-05/2020
Wuhan/IVDC-HB-envF54/2020
env/Wuhan/IVDC-HBF54/2020
Wuhan/WH02/2019
Guangzhou/GZMU0016/2020
Guangzhou/GZMU0047/2020
HongKong/CUHK2/2020
Wales/PHW06/2020
HongKong/Case1_21012020/2020
Shandong/LY007/2020
USA/WA-UW119/2020
USA/WA-UW230/2020
Italy/UniMI02/2020
USA/CT-UW230/2020
USA/WI-GMF-00237/2020
USA/ID-UW-4100/2020
USA/WA-UW-4568/2020
USA/WA-UW-3841/2020
USA/WI-GMF-00049/2020
HongKong/XM-PII-S4/2020
HongKong/HKPU1_2101/2020
SouthAfrica/R02606/2020
Fujian/IM3520004T/2020
Luxembourg/LNS0522318/2020

# These are removed by 'iqd' cutoff in Treetime repeatedly or >50% time
# exclude before this step
# to help with alignment & tree building
Malaysia/190300/2020
Turkey/6224-Ankara1034/2020
Malaysia/186197/2020
Mexico/CDMX-INER_03/2020
Senegal/610/2020
USA/WI-GMF-00384/2020
USA/WA-UW-1572/2020
England/201360246/2020
Turkey/VETAL-AHM1/2020
SouthAfrica/R05475/2020
USA/OH-OSUP0014/2020

# Excluding because seem to be too divergent - worth double checking
Shandong/LY002/2020
Shandong/LY001/2020
USA/MN1-MDH1/2020
USA/WA-UW40/2020
USA/WA-UW53/2020
USA/WA-UW65/2020
USA/WA11-UW7/2020
Wuhan/IVDC-HB-envF13/2020
USA/WA-UW48/2020
USA/WA-UW45/2020
France/HF1805/2020
Canada/ON-PHL-4069/2020
Canada/ON-PHL-3501/2020
Bangladesh/DNAS-CPH-436/2020
Lebanon/S6_766/2020
USA/ID-UW-2198/2020
USA/MDH-8137/2020
Iran/IRVSH-2/2020
USA/WA-UW-24958/2020
USA/WA-UW-10272/2020

# Excluded because seem to have sequencing issues - many reversions
# See slack channel comment & screenshot: https://bedfordlab.slack.com/archives/CTZKJC7PZ/p1591901131438800
# This is from run 5bd87ffa-8ff9-4f4b-90a2-096b64eb6370
SouthAfrica/Tygerberg_01/2020
SouthAfrica/Tygerberg_02/2020
SouthAfrica/Tygerberg_03/2020
SouthAfrica/Tygerberg_04/2020
SouthAfrica/Tygerberg_05/2020
SouthAfrica/Tygerberg_06/2020
SouthAfrica/Tygerberg_07/2020
SouthAfrica/Tygerberg_08/2020
SouthAfrica/Tygerberg_09/2020
SouthAfrica/Tygerberg_10/2020
SouthAfrica/Tygerberg_11/2020
SouthAfrica/Tygerberg_12/2020
SouthAfrica/Tygerberg_13/2020
SouthAfrica/Tygerberg_14/2020
SouthAfrica/Tygerberg_15/2020
SouthAfrica/Tygerberg_16/2020
SouthAfrica/Tygerberg_17/2020
SouthAfrica/Tygerberg_18/2020
SouthAfrica/Tygerberg_19/2020
SouthAfrica/Tygerberg_20/2020
SouthAfrica/Tygerberg_21/2020
SouthAfrica/Tygerberg_22/2020
SouthAfrica/Tygerberg_23/2020
SouthAfrica/Tygerberg_24/2020
SouthAfrica/Tygerberg_25/2020
SouthAfrica/Tygerberg_26/2020
SouthAfrica/Tygerberg_27/2020
SouthAfrica/Tygerberg_28/2020
SouthAfrica/Tygerberg_29/2020
SouthAfrica/Tygerberg_30/2020
SouthAfrica/Tygerberg_31/2020
SouthAfrica/Tygerberg_32/2020
SouthAfrica/Tygerberg_33/2020
SouthAfrica/Tygerberg_34/2020
SouthAfrica/Tygerberg_35/2020
SouthAfrica/Tygerberg_36/2020
SouthAfrica/Tygerberg_37/2020
SouthAfrica/Tygerberg_38/2020
SouthAfrica/Tygerberg_41/2020
SouthAfrica/Tygerberg_42/2020
SouthAfrica/Tygerberg_43/2020
SouthAfrica/Tygerberg_44/2020
SouthAfrica/Tygerberg_45/2020
SouthAfrica/Tygerberg_46/2020
SouthAfrica/Tygerberg_47/2020
SouthAfrica/Tygerberg_48/2020
SouthAfrica/Tygerberg_50/2020

# Bat and pangolin relatives, too divergent to be included here
bat/Yunnan/RaTG13/2013
pangolin/Guangdong/SM44-9/2019
pangolin/Guangdong/SM79-9/2019
pangolin/Guandong/1/2020
pangolin/Guangdong/1/2019
pangolin/Guangdong/P2S/2019
pangolin/Guangxi/P1E/2017
pangolin/Guangxi/P2V/2017
pangolin/Guangxi/P3B/2017
pangolin/Guangxi/P4L/2017
pangolin/Guangxi/P5E/2017
pangolin/Guangxi/P5L/2017
pangolin/Guandong/1/2019
pangolin/China/MP789/2019
pangolin/Guangdong/A22-2/2019
pangolin/Guangdong/FM45-9/2019
bat/Yunnan/RmYN02/2019
bat/Yunnan/RmYN01/2019

# Temporarily excluded
USA/CruiseA-1/2020
USA/CruiseA-2/2020
USA/CruiseA-3/2020
USA/CruiseA-4/2020
USA/CruiseA-5/2020
USA/CruiseA-6/2020
USA/CruiseA-7/2020
USA/CruiseA-8/2020
USA/CruiseA-9/2020
USA/CruiseA-10/2020
USA/CruiseA-11/2020
USA/CruiseA-12/2020
USA/CruiseA-13/2020
USA/CruiseA-14/2020
USA/CruiseA-15/2020
USA/CruiseA-16/2020
USA/CruiseA-17/2020
USA/CruiseA-18/2020
USA/CruiseA-19/2020
USA/CruiseA-20/2020
USA/CruiseA-21/2020
USA/CruiseA-22/2020
USA/CruiseA-23/2020
USA/CruiseA-24/2020
USA/CruiseA-25/2020
USA/CruiseA-26/2020

# way too divergent
# Russia/StPetersburg-3524/2020

# temporarily excluded because is currently reverse complement
# Peru/010/2020

# Japan Diamond Princess sequences
#Japan/DP0005/2020
#Japan/DP0027/2020
#Japan/DP0037/2020
#Japan/DP0058/2020
#Japan/DP0059/2020
#Japan/DP0065/2020
#Japan/DP0077/2020
#Japan/DP0078/2020
#Japan/DP0104/2020
#Japan/DP0107/2020
#Japan/DP0121/2020
#Japan/DP0133/2020
#Japan/DP0134/2020
#Japan/DP0152/2020
#Japan/DP0158/2020
#Japan/DP0184/2020
#Japan/DP0190/2020
#Japan/DP0191/2020
#Japan/DP0196/2020
#Japan/DP0200/2020
#Japan/DP0236/2020
#Japan/DP0274/2020
#Japan/DP0278/2020
#Japan/DP0286/2020
#Japan/DP0287/2020
#Japan/DP0289/2020
#Japan/DP0290/2020
#Japan/DP0294/2020
#Japan/DP0311/2020
#Japan/DP0319/2020
#Japan/DP0328/2020
#Japan/DP0344/2020
#Japan/DP0346/2020
#Japan/DP0357/2020
#Japan/DP0361/2020
#Japan/DP0438/2020
#Japan/DP0457/2020
#Japan/DP0462/2020
#Japan/DP0464/2020
#Japan/DP0476/2020
#Japan/DP0481/2020
#Japan/DP0482/2020
#Japan/DP0543/2020
#Japan/DP0544/2020
#Japan/DP0568/2020
#Japan/DP0588/2020
#Japan/DP0644/2020
#Japan/DP0645/2020
#Japan/DP0654/2020
#Japan/DP0687/2020
#Japan/DP0690/2020
#Japan/DP0697/2020
#Japan/DP0699/2020
#Japan/DP0700/2020
#Japan/DP0703/2020
#Japan/DP0724/2020
#Japan/DP0743/2020
#Japan/DP0752/2020
#Japan/DP0763/2020
#Japan/DP0764/2020
#Japan/DP0765/2020
#Japan/DP0779/2020
#Japan/DP0785/2020
#Japan/DP0786/2020
#Japan/DP0802/2020
#Japan/DP0803/2020
#Japan/DP0804/2020
#Japan/DP0827/2020
#Japan/DP0880/2020
#Japan/DP0890/2020
#
## USA Diamond Princess sequences
#USA/CruiseA-19/2020
#USA/CruiseA-21/2020
#USA/CruiseA-22/2020

# Suspected wrong date - listed as 16 Feb but code says epi week 16 (12-18 Apr) see https://bedfordlab.slack.com/archives/CSKMU6YUC/p1595518895288300
England/20168037604/2020

# causes IQTREE error: ERROR: b'ERROR: Sequence Norway_X_X_1539_X_X_2020 has invalid character I at site 20199
# The GISAID data was subsequently updated => TODO check if this sequence has been fixed
Norway/1539/2020

# Portugal/PT0006a/2020 and Portugal/PT0006b/2020 seem to be same patient sampled 2 days apart?
# Exclude one (neither making it to build right now, but in case in future)
Portugal/PT0006b/2020

# More diverse than expected - possible sequencing/assembly error
Ecuador/HGSQ-USFQ-007/2020
Ecuador/HGSQ-USFQ-010/2020

#excluding due to incorrect collection duplicate
Uruguay/UY-3/2020

# Includes characters "AAGACTAAAAATGTTACAAAAGAA:::::::::::::::GGTTTTTTCACTTACATTTGT"
USA/AK-PHL180/2020

#Seems pretty divergent with about 30 mutations
Colombia/VAC-GVI-97181/2020
Colombia/BOY-GUR-0574/2020

# These early Wuhan seem very divergent, and have a cluster of mutations all together. Excluding for now, but may choose to re-include later
Wuhan/WHUH006/2020
Wuhan/WHUH005/2020
Wuhan/WHUH004/2020
Wuhan/WHUH003/2020
Wuhan/WHUH008/2020

# Duplicates of other Iran sequences - informed by @Mahan_Ghafari via DM to Emma
Iran/HGRC-2-2162/2020
Iran/HGRC-01-IPI-8206/2020

#40+ mutations
Russia/SCPM-O-05/2020

# Likely consecutive days sampling dates from same patient Germany/NRW-42/2020, all 68 yo male from Dusseldorf as per GISAID metadata
Germany/NRW-42-2/2020
Germany/NRW-42-3/2020

# Submitting hospital notes duplicate sampling in preprint 10.1101/2020.05.19.20107144, both same collection date 69 yo male, arbitrarily keeping USA/IL-NM082/2020 as sequences are identical
USA/IL-NM087/2020

# Subsequent (BAL) sampling of Italy/INMI2-N/2020 (NP sample)
Italy/INMI2-B/2020

# According to GISAID metadata duplicate entries for 24 yo male in Kalmthout
Belgium/VDLH-030548/2020
# Likely duplicate case BAL sample based on metadata: collection same day for hospitalized 51 yo male in Liege with identical viral genome as NP swab Belgium/ULG-9620/2020
# BALs are few and far between in the Belgian data, increasing likelihood this was a single patient multi-site collection.
Belgium/ULG-9732/2020

# Duplicates passages of USA/CA-CZB-59X001/2020
# Told to us via: https://bedfordlab.slack.com/archives/CTZKJC7PZ/p1592249374011900
USA/CA-CZB-59X002/2020
USA/CA-CZB-59X003/2020
USA/CA-CZB-59X004/2020

# Suspected duplicates due to exact same location, collection date, sex, and age
India/GBRC1s/2020
India/GBRC95b/2020
India/GBRC17b/2020
India/GBRC24b/2020
India/GBRC153b/2020
India/GBRC72b/2020
India/GBRC151b/2020
India/GBRC56b/2020
India/GBRC65b/2020
India/GBRC67b/2020
India/GBRC88b/2020
India/GBRC78b/2020
India/GBRC79b/2020
India/GBRC81b/2020
India/GBRC82b/2020
India/GBRC97b/2020
India/GBRC146b/2020
India/GBRC148b/2020
India/GBRC150b/2020
India/GBRC135b/2020
India/GBRC136b/2020
India/GBRC137b/2020
India/GBRC139b/2020
India/GBRC141b/2020
India/GBRC157b/2020
India/GBRC159b/2020
India/GBRC160b/2020
India/GBRC161b/2020
India/GBRC162b/2020
India/GBRC163b/2020
India/GBRC166b/2020
India/GBRC167b/2020
India/GBRC168b/2020
India/GBRC177b/2020
India/GBRC178b/2020
India/GBRC179b/2020
India/GBRC180b/2020
India/GBRC181b/2020
India/GBRC182b/2020
India/GBRC183b/2020
India/GBRC185b/2020
India/GBRC186b/2020
India/GBRC193b/2020
India/GBRC169b/2020
India/GBRC170b/2020
India/GBRC173b/2020
India/GBRC174b/2020
India/GBRC187b/2020
India/GBRC191b/2020
India/GBRC195b/2020
India/GBRC201b/2020


# Egypt sequences with all the same date; can add back in later if date information is updated
Egypt/CUNCI-HGC3I011/2020
Egypt/CUNCI-HGC3I012/2020
Egypt/CUNCI-HGC3I013/2020
Egypt/CUNCI-HGC3I014/2020
Egypt/CUNCI-HGC3I02/2020
Egypt/CUNCI-HGC3I023/2020
Egypt/CUNCI-HGC3I025/2020
Egypt/CUNCI-HGC3I03/2020
Egypt/CUNCI-HGC3I05/2020
Egypt/CUNCI-HGC3I06/2020
Egypt/CUNCI-HGC3I07/2020
Egypt/CUNCI-HGC3I08/2020
Egypt/CUNCI-HGC3I09/2020
Egypt/CUNCI-HGC4I003/2020
Egypt/CUNCI-HGC4I004/2020
Egypt/CUNCI-HGC4I015/2020
Egypt/CUNCI-HGC4I022/2020
Egypt/CUNCI-HGC4I023/2020
Egypt/CUNCI-HGC4I025/2020
Egypt/CUNCI-HGC4I026/2020
Egypt/CUNCI-HGC4I029/2020
Egypt/CUNCI-HGC4I030/2020
Egypt/CUNCI-HGC4I031/2020
Egypt/CUNCI-HGC4I032/2020
Egypt/CUNCI-HGC4I033/2020
Egypt/CUNCI-HGC4I034/2020
Egypt/CUNCI-HGC5I001/2020
Egypt/CUNCI-HGC5I003/2020
Egypt/CUNCI-HGC5I010/2020
Egypt/CUNCI-HGC5I011/2020
Egypt/CUNCI-HGC5I012/2020
Egypt/CUNCI-HGC5I014/2020
Egypt/CUNCI-HGC5I016/2020
Egypt/CUNCI-HGC5I022/2020
Egypt/CUNCI-HGC5I025/2020
Egypt/CUNCI-HGC5I026/2020
Egypt/CUNCI-HGC5I029/2020
Egypt/CUNCI-HGC5I030/2020
Egypt/CUNCI-HGC5I033/2020
Egypt/CUNCI-HGC5I034/2020
Egypt/CUNCI-HGC6I002/2020
Egypt/CUNCI-HGC6I003/2020
Egypt/CUNCI-HGC6I007/2020
Egypt/CUNCI-HGC6I009/2020
Egypt/CUNCI-HGC6I011/2020
Egypt/CUNCI-HGC6I015/2020
Egypt/CUNCI-HGC6I024/2020
Egypt/CUNCI-HGC6I026/2020
Egypt/CUNCI-HGC6I032/2020
Egypt/CUNCI-HGC6I033/2020


# future collection dates
Australia/VIC1101/2020
Australia/VIC1129/2020
Australia/VIC1130/2020
Australia/VIC1152/2020
Australia/VIC1167/2020
Australia/VIC1168/2020
Australia/VIC1182/2020
Australia/VIC1254/2020
Australia/VIC1298/2020
Australia/VIC1645/2020
Australia/VIC1944/2020
Australia/VIC1945/2020
Australia/VIC1946/2020
Australia/VIC1948/2020
Australia/VIC1949/2020
Australia/VIC1950/2020
Australia/VIC1951/2020
Australia/VIC1952/2020
Australia/VIC1953/2020
Australia/VIC1954/2020
Australia/VIC1955/2020
Australia/VIC1956/2020
Australia/VIC1957/2020
Australia/VIC1958/2020
Australia/VIC1960/2020
Australia/VIC1961/2020
Australia/VIC1965/2020
Australia/VIC1983/2020
Australia/VIC1985/2020
Australia/VIC2037/2020
Australia/VIC2038/2020
Australia/VIC2040/2020
Australia/VIC2043/2020
Australia/VIC2044/2020
Australia/VIC2053/2020
Australia/VIC2054/2020
Australia/VIC2059/2020
Australia/VIC2060/2020
Australia/VIC2066/2020
Australia/VIC2067/2020
Australia/VIC2087/2020
Australia/VIC2089/2020
Timor-Leste/TL04/2020
Timor-Leste/TL13/2020

# Collection dates from Jan 6 with divergence resembling a much more recent virus
Australia/VIC1898/2020
Australia/VIC1899/2020
Australia/VIC2012/2020
Australia/VIC2013/2020

# Per pre-print https://www.biorxiv.org/content/10.1101/2020.07.10.197095v1 samples with 'a' and 'b' suffices from
# Gujarat are from the same sample but "heterozygous mutations" have been manually separated into two genomes (co-infection was assumed)
# Genomes with suffix 'a' are the major allele (60-80% of the Ion Torrent reads), so 'b' is being excluded. 1s is also a dupe (resampling)
India/GBRC1s/2020
India/GBRC56b/2020
India/GBRC65b/2020
India/GBRC67b/2020
India/GBRC135b/2020
India/GBRC136b/2020
India/GBRC137b/2020
India/GBRC139b/2020
India/GBRC157b/2020
India/GBRC159b/2020
India/GBRC161b/2020
India/GBRC162b/2020
India/GBRC163b/2020
India/GBRC177b/2020
India/GBRC178b/2020
India/GBRC179b/2020
India/GBRC180b/2020
India/GBRC181b/2020
India/GBRC182b/2020
India/GBRC183b/2020
India/GBRC228b/2020
India/GBRC17b/2020
India/GBRC24b/2020
India/GBRC95b/2020
India/GBRC166b/2020
India/GBRC167b/2020
India/GBRC168b/2020
India/GBRC185b/2020
India/GBRC186b/2020
India/GBRC237b/2020
India/GBRC238b/2020
India/GBRC264b/2020
India/GBRC267b/2020
India/GBRC273b/2020
India/GBRC250b/2020
India/GBRC88b/2020
India/GBRC72b/2020
India/GBRC169b/2020
India/GBRC174b/2020
India/GBRC258b/2020
India/GBRC146b/2020
India/GBRC150b/2020
India/GBRC256b/2020
India/GBRC251b/2020
India/GBRC170b/2020
India/GBRC173b/2020
India/GBRC219b/2020
India/GBRC148b/2020
India/GBRC201b/2020
India/GBRC78b/2020
India/GBRC79b/2020
India/GBRC81b/2020
India/GBRC82b/2020
India/GBRC277b/2020
India/GBRC203b/2020
India/GBRC204b/2020
India/GBRC229b/2020
India/GBRC153b/2020
India/GBRC248b/2020
India/GBRC249b/2020
India/GBRC253b/2020
India/GBRC254b/2020
India/GBRC255b/2020
India/GBRC257b/2020
India/GBRC225b/2020
India/GBRC194b/2020
India/GBRC205b/2020
India/GBRC207b/2020
India/GBRC208b/2020
India/GBRC209b/2020
India/GBRC210b/2020
India/GBRC213b/2020
India/GBRC214b/2020
India/GBRC231b/2020
India/GBRC232b/2020
India/GBRC233b/2020
India/GBRC235b/2020
India/GBRC260b/2020
India/GBRC261b/2020
India/GBRC263b/2020
India/GBRC268b/2020
India/GBRC271b/2020
India/GBRC272b/2020
India/GBRC275b/2020
India/GBRC97b/2020
India/GBRC151b/2020
India/GBRC216b/2020
India/GBRC217b/2020
India/GBRC218b/2020
India/GBRC222b/2020
India/GBRC223b/2020
India/GBRC224b/2020
India/GBRC187b/2020
India/GBRC191b/2020
India/GBRC193b/2020
India/GBRC195b/2020

# In vertical transmission study (https://journals.lww.com/pidj/Abstract/9000/Probable_Vertical_Transmission_of_SARS_CoV_2.96098.aspx),
# maternal and neonatal SARS-CoV-2 viruses were sequenced at two time points. Later timepoint being excluded.
England/20110005006/2020
England/20118044606/2020


# submission_date is BEFORE date (sampling date)
Belgium/ULG-3000/2020
Belgium/ULG-3163/2020
Belgium/ULG-3843/2020
Belgium/ULG-6216/2020
Belgium/ULG-6457/2020
Belgium/ULG-6670/2020
Belgium/ULG-6754/2020
Belgium/ULG-6649/2020
Belgium/ULG-8664/2020
Belgium/ULG-8810/2020
Belgium/ULG-9634/2020
Belgium/ULG-9641/2020
Belgium/ULG-9647/2020
Belgium/ULG-9735/2020
Belgium/ULG-9738/2020
Belgium/ULG-9741/2020
Belgium/ULG-6972/2020
Belgium/ULG-10042/2020
Belgium/ULG-10045/2020
Belgium/ULG-10046/2020
Belgium/ULG-10027/2020
Belgium/ULG-10128/2020
Belgium/ULG-10131/2020
Belgium/ULG-10050/2020
Belgium/ULG-9742/2020
Belgium/ULG-9751/2020
Belgium/ULG-10054/2020
Belgium/ULG-10119/2020
Belgium/ULG-10125/2020
Belgium/ULG-3662/2020
Belgium/ULG-9732/2020
Belgium/ULG-10154/2020
Belgium/ULG-10120/2020
Belgium/ULG-10166/2020
Belgium/ULG-10168/2020
Belgium/ULG-10109/2020

# wrong dates according to PHE naming scheme; see https://bedfordlab.slack.com/archives/CTZKJC7PZ/p1595623954471500
England/201040021/2020
England/201040023/2020
England/201040024/2020
England/20129054906/2020
England/20130071804/2020
England/20132079304/2020
England/20168037604/2020
England/20186075504/2020

# "This looks off. You have a number of mutations neighboring each other at site 29277"; see https://bedfordlab.slack.com/archives/CTZKJC7PZ/p1596149732030400
Oman/205036436/2020

# High divergence; see https://bedfordlab.slack.com/archives/CTZKJC7PZ/p1596744120113900 and subsequent messages in slack
Turkey/ACUTG-10/2020
Turkey/ACUTG-3/2020
Turkey/ACUTG-4/2020

#"It properly groups with other Israeli viruses but has a number of additional mutations";  see https://bedfordlab.slack.com/archives/CTZKJC7PZ/p1597880694027200
Israel/CVL-n26495/2020

#This is the first case in NY - however, we already have it. It's identical to USA/NY1-PV08001/2020 - so excluding this one
USA/NY-Wadsworth-10131-01/2020

#Date before first case confirmed in Nigeria
Nigeria/ED01-CV155/2020

#Both are identical to reference but taken mid-May - very underdiverged
Oman/MA-RESP-20-B-16263/2020
Bangladesh/NIB-BCSIR-02/2020Switzerland/BE-UNIBE-149-0641/2020

# Too many on the same day; Emma will reach out. See: https://bedfordlab.slack.com/archives/CTZKJC7PZ/p1602171095033800
Switzerland/BE-UNIBE-150-5479/2020
Switzerland/BE-UNIBE-151-6539/2020
Switzerland/BE-UNIBE-152-7992/2020
Switzerland/BE-UNIBE-153-8040/2020
Switzerland/BE-UNIBE-154-8234/2020
Switzerland/BE-UNIBE-155-8269/2020
Switzerland/BE-UNIBE-156-8498/2020
Switzerland/BE-UNIBE-157-8499/2020
Switzerland/BE-UNIBE-159-9400/2020
Switzerland/BE-UNIBE-160-0067/2020
Switzerland/BE-UNIBE-161-0117/2020
Switzerland/BE-UNIBE-162-0355/2020
Switzerland/BE-UNIBE-163-0431/2020
Switzerland/BE-UNIBE-164-0436/2020
Switzerland/BE-UNIBE-165-0657/2020
Switzerland/BE-UNIBE-166-0852/2020
Switzerland/BE-UNIBE-167-0863/2020
Switzerland/BE-UNIBE-168-1178/2020
Switzerland/BE-UNIBE-169-1508/2020
Switzerland/BE-UNIBE-170-1618/2020
Switzerland/BE-UNIBE-171-1643/2020
Switzerland/BE-UNIBE-172-1644/2020
Switzerland/BE-UNIBE-173-2392/2020
Switzerland/BE-UNIBE-174-2395/2020
Switzerland/BE-UNIBE-175-2461/2020
Switzerland/BE-UNIBE-176-2465/2020
Switzerland/BE-UNIBE-178-2905/2020
Switzerland/BE-UNIBE-179-2921/2020
Switzerland/BE-UNIBE-180-2946/2020
Switzerland/BE-UNIBE-181-3245/2020
Switzerland/BE-UNIBE-182-3534/2020
Switzerland/BE-UNIBE-183-3586/2020
Switzerland/BE-UNIBE-184-3592/2020
Switzerland/BE-UNIBE-185-3816/2020
Switzerland/BE-UNIBE-186-3956/2020
Switzerland/BE-UNIBE-187-3981/2020
Switzerland/BE-UNIBE-188-3982/2020
Switzerland/BE-UNIBE-189-4085/2020
Switzerland/BE-UNIBE-190-4089/2020
Switzerland/BE-UNIBE-191-4171/2020
Switzerland/BE-UNIBE-192-4208/2020
Switzerland/BE-UNIBE-193-4523/2020
Switzerland/BE-UNIBE-194-4693/2020
Switzerland/BE-UNIBE-195-4728/2020
Switzerland/BE-UNIBE-197-5085/2020
Switzerland/BE-UNIBE-198-5301/2020
Switzerland/BE-UNIBE-199-5783/2020
Switzerland/BE-UNIBE-200-5795/2020
Switzerland/BE-UNIBE-201-6020/2020
Switzerland/BE-UNIBE-202-6410/2020
Switzerland/BE-UNIBE-203-6441/2020
Switzerland/BE-UNIBE-204-6477/2020
Switzerland/BE-UNIBE-205-7690/2020
Switzerland/BE-UNIBE-206-7951/2020
Switzerland/BE-UNIBE-207-8159/2020
Switzerland/BE-UNIBE-208-8169/2020
Switzerland/BE-UNIBE-209-8650/2020
Switzerland/BE-UNIBE-210-8666/2020
Switzerland/BE-UNIBE-211-9026/2020
Switzerland/BE-UNIBE-212-9055/2020
Switzerland/BE-UNIBE-214-0044/2020
Switzerland/BE-UNIBE-215-0080/2020
Switzerland/BE-UNIBE-217-0518/2020
Switzerland/BE-UNIBE-218-0537/2020
Switzerland/BE-UNIBE-219-1251/2020
Switzerland/BE-UNIBE-220-1253/2020
Switzerland/BE-UNIBE-222-1255/2020
Switzerland/BE-UNIBE-223-2673/2020
Switzerland/BE-UNIBE-225-2890/2020
Switzerland/BE-UNIBE-226-3606/2020
Switzerland/BE-UNIBE-227-3922/2020
Switzerland/BE-UNIBE-228-9106/2020
Switzerland/BE-UNIBE-229-6507/2020

# High divergence; https://bedfordlab.slack.com/archives/CTZKJC7PZ/p1602716523107800
India/MH-NIV-220751/2020

# Checked with submittor, has high intra-sample variation
France/BR8951/2020

# Duplicates marked in additional infos
USA/NY-MSK-11Ai/2020
USA/NY-MSK-11D/2020
USA/NY-MSK-13Ai/2020
USA/NY-MSK-13B/2020
USA/NY-MSK-14Ai/2020
USA/NY-MSK-16Ai/2020
USA/NY-MSK-16B/2020
USA/NY-MSK-1Ai/2020
USA/NY-MSK-20E/2020
USA/NY-MSK-2Ai/2020
USA/NY-MSK-2B/2020
USA/NY-MSK-3Ai/2020
USA/NY-MSK-3B/2020
USA/NY-MSK-3Bi/2020
USA/NY-MSK-3C/2020
USA/NY-MSK-3Ci/2020
USA/NY-MSK-3D/2020
USA/NY-MSK-3E/2020
USA/NY-MSK-4Ai/2020
USA/NY-MSK-4C/2020
USA/NY-MSK-4Ci/2020
USA/NY-MSK-4E/2020
USA/NY-MSK-5B/2020
USA/NY-MSK-6D/2020
USA/NY-MSK-6E/2020
USA/NY-MSK-6F/2020
USA/NY-MSK-6Fi/2020
USA/NY-MSK-6G/2020
USA/NY-MSK-6Gi/2020
USA/NY-MSK-6H/2020
USA/NY-MSK-6Hi/2020
USA/NY-MSK-8Ai/2020
USA/NY-MSK-8B/2020
USA/NY-MSK-8Bi/2020
USA/NY-MSK-8C/2020
USA/NY-MSK-9Ai/2020
USA/NY-MSK-9B/2020
USA/NY-MSK-9Bi/2020

# see https://bedfordlab.slack.com/archives/CTZKJC7PZ/p1603818312066400
USA/MA-JLL-D128/2020
USA/MA-JLL-D130/2020
USA/MA-JLL-D143/2020
USA/MA-JLL-D146/2020
USA/MA-JLL-D152/2020
USA/MA-JLL-D18/2020
USA/MA-JLL-D25/2020
USA/MA-JLL-D75/2020
USA/MA-JLL-D81/2020

# Duplicate
USA/WA-NIH-WA1/2020

# Future dates
Italy/INMI34/2020
Italy/INMI36/2020
Italy/INMI37/2020
Italy/INMI38/2020
Italy/INMI39/2020
Italy/INMI40/2020
Italy/INMI41/2020

# Sampling date in the past
pangolin/Yunnan/MP20/2020

# Labeled as duplicate to CzechRepublic/NRL_9893/2020 in additional info
CzechRepublic/NRL_9894/2020

# Collection date in the future
England/C200040625/2020

# Divergence is far more diverse than the very narrow date range given
# suspect incorrect dates - excluding until can be fixed
Jordan/AM-ALSR-3901/2020
Jordan/AM-ALSR-3903/2020
Jordan/AM-ALSR-3904/2020
Jordan/AM-ALSR-3905/2020
Jordan/AM-ALSR-3906/2020
Jordan/AM-ALSR-3907/2020
Jordan/AM-ALSR-3908/2020
Jordan/AM-ALSR-3909/2020
Jordan/AM-ALSR-3910/2020
Jordan/AM-ALSR-3911/2020
Jordan/AM-ALSR-3912/2020
Jordan/AM-ALSR-3913/2020
Jordan/AM-ALSR-3914/2020
Jordan/AM-ALSR-3915/2020
Jordan/AM-ALSR-3916/2020
Jordan/AM-ALSR-3918/2020
Jordan/AM-ALSR-3919/2020
Jordan/AM-ALSR-3920/2020
Jordan/AM-ALSR-3921/2020
Jordan/AM-ALSR-3922/2020
Jordan/AM-ALSR-3923/2020
Jordan/AM-ALSR-3925/2020
Jordan/AM-ALSR-3926/2020
Jordan/AM-ALSR-3927/2020
Jordan/AM-ALSR-3928/2020
Jordan/AM-ALSR-3929/2020
Jordan/AM-ALSR-3930/2020
Jordan/AM-ALSR-3931/2020
Jordan/AM-ALSR-3932/2020
Jordan/AM-ALSR-3933/2020
Jordan/AM-ALSR-3935/2020
Jordan/AM-ALSR-3936/2020
Jordan/AM-ALSR-3937/2020
Jordan/AM-ALSR-3938/2020
Jordan/AM-ALSR-3939/2020
Jordan/AM-ALSR-3940/2020
Jordan/AM-ALSR-3941/2020
Jordan/AM-ALSR-3942/2020
Jordan/AM-ALSR-3943/2020
Jordan/AM-ALSR-3944/2020
Jordan/AM-ALSR-3945/2020
Jordan/AM-ALSR-3946/2020
Jordan/AM-ALSR-3947/2020
Jordan/AM-ALSR-3948/2020
Jordan/AM-ALSR-3950/2020
Jordan/AM-ALSR-3951/2020
Jordan/AM-ALSR-3952/2020
Jordan/AM-ALSR-3954/2020
Jordan/AM-ALSR-3955/2020
Jordan/AM-ALSR-3956/2020
Jordan/AM-ALSR-3957/2020
Jordan/AM-ALSR-3958/2020
Jordan/AM-ALSR-3959/2020
Jordan/AM-ALSR-3960/2020
Jordan/AM-ALSR-3961/2020
Jordan/AM-ALSR-3962/2020
Jordan/AM-ALSR-3963/2020
Jordan/AM-ALSR-3964/2020
Jordan/AM-ALSR-3965/2020
Jordan/AM-ALSR-3966/2020
Jordan/AM-ALSR-3967/2020
Jordan/AM-ALSR-3968/2020
Jordan/AM-ALSR-3969/2020
Jordan/AM-ALSR-3970/2020
Jordan/AM-ALSR-3971/2020
Jordan/AM-ALSR-3972/2020
Jordan/AM-ALSR-3973/2020
Jordan/AM-ALSR-3974/2020
Jordan/AM-ALSR-3975/2020
Jordan/AM-ALSR-3976/2020
Jordan/AM-ALSR-3977/2020
Jordan/AM-ALSR-3978/2020
Jordan/AM-ALSR-3979/2020
Jordan/AM-ALSR-3980/2020
Jordan/AM-ALSR-3981/2020
Jordan/AM-ALSR-3982/2020
Jordan/AM-ALSR-3983/2020
Jordan/AM-ALSR-3984/2020
Jordan/AM-ALSR-3985/2020
Jordan/AM-ALSR-3986/2020
Jordan/AM-ALSR-3987/2020
Jordan/AM-ALSR-3988/2020
Jordan/AM-ALSR-3989/2020
Jordan/AM-ALSR-3990/2020
Jordan/AM-ALSR-3991/2020
Jordan/AM-ALSR-3992/2020
Jordan/AM-ALSR-3993/2020
Jordan/AM-ALSR-3994/2020
Jordan/AM-ALSR-3995/2020
Jordan/AM-ALSR-3996/2020
Jordan/AM-ALSR-3997/2020
Jordan/AM-ALSR-3998/2020
Jordan/AM-ALSR-3999/2020
Jordan/AM-ALSR-4000/2020
Jordan/AM-ALSR-4001/2020
Jordan/AM-ALSR-4002/2020
Jordan/AM-ALSR-4003/2020
Jordan/AM-ALSR-4004/2020
Jordan/AM-ALSR-4005/2020
Jordan/AM-ALSR-4006/2020
Jordan/AM-ALSR-4007/2020
Jordan/AM-ALSR-4008/2020
Jordan/AM-ALSR-4009/2020
Jordan/AM-ALSR-4010/2020
Jordan/AM-ALSR-4011/2020
Jordan/AM-ALSR-4012/2020
Jordan/AM-ALSR-4013/2020
Jordan/AM-ALSR-4014/2020
Jordan/AM-ALSR-4015/2020
Jordan/AM-ALSR-4016/2020
Jordan/AM-ALSR-4017/2020
Jordan/AM-ALSR-4020/2020
Jordan/AM-ALSR-4021/2020
Jordan/AM-ALSR-4022/2020
Jordan/AM-ALSR-4023/2020
Jordan/AM-ALSR-4024/2020
Jordan/AM-ALSR-4025/2020
Jordan/AM-ALSR-4026/2020
Jordan/AM-ALSR-4027/2020
Jordan/AM-ALSR-4028/2020
Jordan/AM-ALSR-4029/2020
Jordan/AM-ALSR-4031/2020
Jordan/AM-ALSR-4032/2020
Jordan/AM-ALSR-4033/2020
Jordan/AM-ALSR-4034/2020
Jordan/AM-ALSR-4035/2020
Jordan/AM-ALSR-4036/2020
Jordan/AM-ALSR-4037/2020
Jordan/AM-ALSR-4038/2020
Jordan/AM-ALSR-4039/2020
Jordan/AM-ALSR-4040/2020
Jordan/AM-ALSR-4041/2020
Jordan/AM-ALSR-4042/2020
Jordan/AM-ALSR-4043/2020
Jordan/AM-ALSR-4044/2020
Jordan/AM-ALSR-4045/2020
Jordan/AM-ALSR-4046/2020
Jordan/AM-ALSR-4047/2020
Jordan/AM-ALSR-4048/2020
Jordan/AM-ALSR-4049/2020
Jordan/AM-ALSR-4050/2020
Jordan/AM-ALSR-4051/2020
Jordan/AM-ALSR-4052/2020
Jordan/AM-ALSR-4053/2020
Jordan/AM-ALSR-4054/2020
Jordan/AM-ALSR-4055/2020
Jordan/AM-ALSR-4056/2020
Jordan/AM-ALSR-4057/2020
Jordan/AM-ALSR-4058/2020
Jordan/AM-ALSR-4059/2020
Jordan/AM-ALSR-4060/2020
Jordan/AM-ALSR-4061/2020
Jordan/AM-ALSR-4062/2020
Jordan/AM-ALSR-4063/2020
Jordan/AM-ALSR-4064/2020
Jordan/AM-ALSR-4065/2020
Jordan/AM-ALSR-4066/2020
Jordan/AM-ALSR-4067/2020
Jordan/AM-ALSR-4068/2020
Jordan/AM-ALSR-4069/2020
Jordan/AM-ALSR-4070/2020
Jordan/AM-ALSR-4071/2020
Jordan/AM-ALSR-4072/2020
Jordan/AM-ALSR-4073/2020
Jordan/AM-ALSR-4074/2020
Jordan/AM-ALSR-4075/2020
Jordan/AM-ALSR-4076/2020
Jordan/AM-ALSR-4077/2020
Jordan/AM-ALSR-4078/2020
Jordan/AM-ALSR-4079/2020
Jordan/AM-ALSR-4080/2020
Jordan/AM-ALSR-4081/2020
Jordan/AM-ALSR-4082/2020
Jordan/AM-ALSR-4083/2020
Jordan/AM-ALSR-4084/2020
Jordan/AM-ALSR-4085/2020
Jordan/AM-ALSR-4086/2020
Jordan/AM-ALSR-4087/2020
Jordan/AM-ALSR-4088/2020
Jordan/AM-ALSR-4089/2020
Jordan/AM-ALSR-4090/2020
Jordan/AM-ALSR-4091/2020
Jordan/AM-ALSR-4092/2020
Jordan/AM-ALSR-4093/2020
Jordan/AM-ALSR-4094/2020
Jordan/AM-ALSR-4095/2020
Jordan/AM-ALSR-4096/2020
Jordan/AM-ALSR-4097/2020
Jordan/AM-ALSR-4098/2020
Jordan/IR-ALSR-3902/2020
Jordan/IR-ALSR-3917/2020
Jordan/IR-ALSR-3949/2020

# Passaged duplicates of Iran/Q100/2020 and Iran/Q111/2020
Iran/NIV-P1-Q100/2020
Iran/NIV-P1-Q111/2020
Iran/NIV-P2-Q100/2020
Iran/NIV-P2-Q111/2020

# Suspected monthly sampling
Zimbabwe/ZW-10116/2020
Zimbabwe/ZW-1114/2020
Zimbabwe/ZW-1172B/2020
Zimbabwe/ZW-1198B/2020
Zimbabwe/ZW-149/2020
Zimbabwe/ZW-162BY/2020
Zimbabwe/ZW-168/2020
Zimbabwe/ZW-1714/2020
Zimbabwe/ZW-214/2020
Zimbabwe/ZW-25BY/2020
Zimbabwe/ZW-27BY/2020
Zimbabwe/ZW-28BY/2020
Zimbabwe/ZW-307/2020
Zimbabwe/ZW-333/2020
Zimbabwe/ZW-367/2020
Zimbabwe/ZW-391/2020
Zimbabwe/ZW-4305/2020
Zimbabwe/ZW-480/2020
Zimbabwe/ZW-483/2020
Zimbabwe/ZW-532/2020
Zimbabwe/ZW-6903/2020
Zimbabwe/ZW-6969/2020
Zimbabwe/ZW-6971/2020
Zimbabwe/ZW-6972/2020
Zimbabwe/ZW-6973/2020
Zimbabwe/ZW-6974/2020
Zimbabwe/ZW-6976/2020
Zimbabwe/ZW-6978/2020
Zimbabwe/ZW-6979/2020
Zimbabwe/ZW-6980/2020
Zimbabwe/ZW-6981/2020
Zimbabwe/ZW-6982/2020
Zimbabwe/ZW-6983/2020
Zimbabwe/ZW-6984/2020
Zimbabwe/ZW-6985/2020
Zimbabwe/ZW-6989/2020
Zimbabwe/ZW-6990/2020
Zimbabwe/ZW-6991/2020
Zimbabwe/ZW-6992/2020
Zimbabwe/ZW-6993/2020
Zimbabwe/ZW-6994/2020
Zimbabwe/ZW-6996/2020
Zimbabwe/ZW-6997/2020
Zimbabwe/ZW-6998/2020
Zimbabwe/ZW-6999/2020
Zimbabwe/ZW-70/2020
Zimbabwe/ZW-7000/2020
Zimbabwe/ZW-7001/2020
Zimbabwe/ZW-7002/2020
Zimbabwe/ZW-7003/2020
Zimbabwe/ZW-7113/2020
Zimbabwe/ZW-7178/2020
Zimbabwe/ZW-8894/2020
Zimbabwe/ZW-8911/2020
Zimbabwe/ZW-8929/2020
Zimbabwe/ZW-9095/2020
Zimbabwe/ZW-9096/2020
Zimbabwe/ZW-9100/2020
Zimbabwe/ZW-9102/2020
Zimbabwe/ZW-9112/2020
Zimbabwe/ZW-9115/2020
Zimbabwe/ZW-9116/2020
Zimbabwe/ZW-9129/2020
Zimbabwe/ZW-9465/2020
Zimbabwe/ZW-9469/2020
Zimbabwe/ZW-9494/2020
Zimbabwe/ZW-9506/2020
Zimbabwe/ZW-9513/2020
Zimbabwe/ZW-9515/2020
Zimbabwe/ZW-9521/2020
Zimbabwe/ZW-9527/2020
Zimbabwe/ZW-9536/2020
Zimbabwe/ZW-9537/2020
Zimbabwe/ZW-9538/2020
Zimbabwe/ZW-9811/2020
Zimbabwe/ZW-9912/2020
Zimbabwe/ZW-9947/2020
Zimbabwe/ZW-9949/2020
Zimbabwe/ZW-9951/2020
Zimbabwe/ZW-9953/2020
Zimbabwe/ZW-9955/2020
Zimbabwe/ZW-9957/2020


# Excluding in favor of USA/MA-JLL-796350S/2020 from same patient. The 'N' sample is nasopharangeal and the 'S' sample is stool. The N is missing some data / is too short. See https://bedfordlab.slack.com/archives/CTZKJC7PZ/p1606163488161000
USA/MA-JLL-796350N/2020

# Has a sample date of 30 March but is identical to sequences in Oct/Nov, and was submitted with a batch all from autumn; see https://bedfordlab.slack.com/archives/CTZKJC7PZ/p1607015177020000?thread_ts=1607001399.018700&cid=CTZKJC7PZ
Denmark/DCGC-12020/2020

# Overly divergent, see https://bedfordlab.slack.com/archives/CTZKJC7PZ/p1607442993012700
Hungary/US-60441w/2020

# Seems far too diverged compared to date (18 Mar but lines up with seqs from Nov)
Tunisia/4107/2020

# Overly divergent, see https://bedfordlab.slack.com/archives/CTZKJC7PZ/p1608249910045600
Thailand/Bangkok-CONI-0321/2020

# Misplaced date
Tunisia/3942/2020

# Misdated; see https://bedfordlab.slack.com/archives/CTZKJC7PZ/p1609380393218400
Luxembourg/LNS4701723/2020

# Duplicates as noted in additional host info
Brazil/SP-L67-CD1714/2020
Brazil/SP-L67-CD1713/2020

# mutations suggest sequencing error; see https://bedfordlab.slack.com/archives/CTZKJC7PZ/p1609979566047200
Indonesia/SN-NIHRD-PME1701/2020
Israel/CVL-n25947/2020
Thailand/Bangkok-Sha06/2020
USA/WA-UW-32753/2020

# see discussion on slack https://bedfordlab.slack.com/archives/CTZKJC7PZ/p1610149752067200
SriLanka/BIN33/2020
Yunnan/KMS1/2020
Lebanon/S11_765/2020
India/PB-IMT-P151/2020
Israel/CVL5757/2020

# Underdiverged, see https://bedfordlab.slack.com/archives/CTZKJC7PZ/p1610391484104200
Ireland/un-NVRL-AIIDB0144v1/2020

# Too divergent for early date, see https://bedfordlab.slack.com/archives/CTZKJC7PZ/p1610529930191000
Tunisia/12-8274/2020

# early date, likely misdated
England/205390927/2020


# Duplicates, see comments in gisaid_annotations.tsv
Brazil/AM-987/2020
Brazil/AM-988/2020
Brazil/AM-990/2020
Brazil/AM-992/2020
Brazil/AM-993/2020
Brazil/AM-994/2020
Brazil/AM-997/2020

# https://bedfordlab.slack.com/archives/CTZKJC7PZ/p1611190928000900?thread_ts=1611190385.000800&cid=CTZKJC7PZ
USA/MDH-8144/2020
USA/WA-UW-21756/2020

# Invalid date: 2020-01-06 should be 2021-01-06
CzechRepublic/NRL_274/2021

# these are environmental consensus sequences that are not suitable for phylogenetic analysis it seems; https://bedfordlab.slack.com/archives/CTZKJC7PZ/p1611348101028500
env/Austria/CeMM1283/2020
env/Austria/CeMM1290/2020
env/Austria/CeMM1399/2020
env/Austria/CeMM1442/2020
env/Austria/CeMM1444/2020
env/Austria/CeMM1445/2020
env/Austria/CeMM1446/2020
env/Austria/CeMM1447/2020
env/Austria/CeMM1448/2020
env/Austria/CeMM1450/2020
env/Austria/CeMM1452/2020
env/Austria/CeMM1453/2020
env/Austria/CeMM1456/2020
env/Austria/CeMM1457/2020
env/Austria/CeMM1459/2020
env/Austria/CeMM1461/2020
env/Austria/CeMM1462/2020
env/Austria/CeMM1463/2020
env/Austria/CeMM1464/2020
env/Austria/CeMM1465/2020
env/Austria/CeMM1468/2020
env/Austria/CeMM1470/2020
env/Austria/CeMM1953/2020
env/Austria/CeMM1954/2020
env/Austria/CeMM1955/2020
env/Austria/CeMM1956/2020
env/Austria/CeMM1957/2020
env/Austria/CeMM1958/2020
env/Austria/CeMM1959/2020
env/Austria/CeMM1960/2020
env/Austria/CeMM1961/2020
env/Austria/CeMM1962/2020
env/Austria/CeMM1963/2020
env/Austria/CeMM1964/2020
env/Austria/CeMM1965/2020
env/Austria/CeMM1966/2020
env/Austria/CeMM1967/2020
env/Austria/CeMM1968/2020
env/Austria/CeMM1969/2020
env/Austria/CeMM1970/2020
env/Austria/CeMM1971/2020
env/Austria/CeMM1972/2020
env/Austria/CeMM1973/2020
env/Austria/CeMM1974/2020
env/Austria/CeMM1975/2020
env/Austria/CeMM1976/2020
env/Austria/CeMM1977/2020
env/Austria/CeMM1978/2020
env/Austria/CeMM1979/2020
env/Austria/CeMM1980/2020
env/Austria/CeMM1981/2020
env/Austria/CeMM1982/2020
env/Austria/CeMM2017/2020
env/Austria/CeMM2018/2020
env/Austria/CeMM2019/2020
env/Austria/CeMM2020/2020
env/Austria/CeMM2021/2020
env/Austria/CeMM2022/2020
env/Austria/CeMM2210/2020
env/Austria/CeMM2211/2020
env/Austria/CeMM2212/2020
env/Austria/CeMM2213/2020
env/Austria/CeMM2214/2020
env/Austria/CeMM2218/2020
env/Austria/CeMM2219/2020
env/Austria/CeMM2220/2020
env/Austria/CeMM2221/2020
env/Austria/CeMM2222/2021
env/Austria/CeMM2223/2020
env/Austria/CeMM2224/2020
env/Austria/CeMM2225/2020
env/Austria/CeMM2226/2020
env/Austria/CeMM2227/2020
env/Austria/CeMM2228/2021
env/Austria/CeMM2229/2020
env/Austria/CeMM2230/2020
env/Austria/CeMM2231/2020
env/Austria/CeMM2232/2020
env/Austria/CeMM2233/2020
env/Austria/CeMM2234/2021
env/Liechtenstein/CeMM2215/2020
env/Liechtenstein/CeMM2216/2020
env/Liechtenstein/CeMM2217/2020

# collection date in the future, reached out to submitters
SouthAfrica/KRISP-K007811/2021
# early SA dates (first days of jan), reached out to submitters
SouthAfrica/KRISP-K007801/2020
SouthAfrica/KRISP-K007805/2020
SouthAfrica/KRISP-K007815/2020

# mutations, reached out to submitters
SouthAfrica/KRISP-K006790/2020
SouthAfrica/KRISP-K006869/2020

# too early for clade, see https://bedfordlab.slack.com/archives/CTZKJC7PZ/p1611427114039000?thread_ts=1611343390.024400&cid=CTZKJC7PZ
UnitedArabEmirates/4358/2020

# Too early for USA, probably 2021-2020 swap
USA/MD-HP01188/2020
USA/MD-HP01273/2020

# probably 2021-2020 swap
CzechRepublic/NRL_274/2020
USA/ND-NDDH-0058/2020

# over-diverged, many small mutation clusters (see https://bedfordlab.slack.com/archives/CTZKJC7PZ/p1611596278055900)
Brazil/RR-IEC176337/2020

# over-diverged given date; https://bedfordlab.slack.com/archives/CTZKJC7PZ/p1611708739069500
USA/MD-MDH-0170/2020
Brazil/RR-IEC176349/2020
USA/UT-UPHL-2012683062/2020

# Duplicate sampled two days in a row - exclude the shorter one (additional_host_info: The same cat as hCoV-19/cat/Russia/RII-LEN-22246S/2021, another time point)
cat/Russia/LEN-RII-22390S/2021

# https://bedfordlab.slack.com/archives/CTZKJC7PZ/p1612243509126400
Australia/QLD1276/2020
Egypt/CCHE57357-P-30/2020
Germany/SL-SU-10450461/2020
Lebanon/S7_763/2020
Spain/PV-ISCIII-201385/2020
Tunisia/4874/2020
Australia/QLD1278/2020

# https://bedfordlab.slack.com/archives/CTZKJC7PZ/p1612397736150800
Egypt/CCHE57357-A-91/2020
Morocco/RA85/2020
Taiwan/TSGH-28/2020
India/UT-AR50/2020
Italy/LOM-UniMI02/2020
Romania/ROSV_3316/2020
Spain/RI-IBV-99010963/2020

# throwing off the dating of clade 20B; https://bedfordlab.slack.com/archives/CTZKJC7PZ/p1612477096194500
Mexico/VER-InDRE_111/2020
Mexico/VER-InDRE_112/2020

# https://bedfordlab.slack.com/archives/CTZKJC7PZ/p1612578967204200?thread_ts=1612570323.203300&cid=CTZKJC7PZ
Brazil/CE-IEC-177339/2020
Germany/SL-SU-10450744/2020
Panama/336044/2020
Luxembourg/LNS6911797/2020

# https://bedfordlab.slack.com/archives/CTZKJC7PZ/p1612536640198200
Belgium/rega-2110/2020

# misdated, see https://bedfordlab.slack.com/archives/CTZKJC7PZ/p1612984051246700
NorthMacedonia/30272/2021

# excess divergence
Israel/CVL-n25783/2020

# https://bedfordlab.slack.com/archives/CTZKJC7PZ/p1613088026264700
Belgium/AZDelta12-22124_S13/2021

# misdated; https://bedfordlab.slack.com/archives/CTZKJC7PZ/p1613156367274300
Italy/MOL-IZSGC-72035.1.2/2021
Italy/MOL-IZSGC-72035.1.3/2021
Italy/MOL-IZSGC-72035.1.4/2021
Italy/MOL-IZSGC-72035.1.5/2021
Italy/MOL-IZSGC-72035.1.6/2021
Italy/MOL-IZSGC-72035.1.7/2021
Italy/MOL-IZSGC-72035/2021
Italy/MOL-IZSGC-72053.1.10/2021
Italy/MOL-IZSGC-72053.1.11/2021
Italy/MOL-IZSGC-72053.1.12/2021
Italy/MOL-IZSGC-72053.1.13/2021
Italy/MOL-IZSGC-72053.1.14/2021
Italy/MOL-IZSGC-72053.1.15/2021
Italy/MOL-IZSGC-72053.1.16/2021
Italy/MOL-IZSGC-72053.1.2/2021
Italy/MOL-IZSGC-72053.1.3/2021
Italy/MOL-IZSGC-72053.1.4/2021
Italy/MOL-IZSGC-72053.1.5/2021
Italy/MOL-IZSGC-72053.1.6/2021
Italy/MOL-IZSGC-72053.1.7/2021
Italy/MOL-IZSGC-72053.1.8/2021
Italy/MOL-IZSGC-72053.1.9/2021
Italy/MOL-IZSGC-72053/2021
USA/NY-PRL-20210201_03B02/2020

# divergence; see https://bedfordlab.slack.com/archives/CTZKJC7PZ/p1613180621281200
USA/WA-UW-31233/2020
USA/WA-UW-32880/2020
Belgium/AZDelta23112-2105R/2021
Israel/CVL-n25909/2020
Italy/FVG-ASUFC-21/2021
Italy/FVG-ASUGI-17/2021
Italy/FVG-ASUGI-41/2021
Romania/B-1507/2021

# wrong date
USA/OH-UHTL-3/2020

# over-diverged
Lebanon/LAU-R43/2020

# wrong date, see https://bedfordlab.slack.com/archives/CTZKJC7PZ/p1613491136302100
USA/CA-LACPHL-AF00294/2020

# divergence; see https://bedfordlab.slack.com/archives/CTZKJC7PZ/p1613610878317300
Egypt/CCHE57357-A-59/2020
Mozambique/INS-K007882/2020
Romania/Focsani-268927/2020
Taiwan/TSGH-32/2020
UnitedArabEmirates/4277/2020
UnitedArabEmirates/4285/2020

# Date too early for clade
Norway/7667/2020
Spain/MD-IBV-99018532/2020

# Marked as "Longitudinal surveillance (repeat sampling)" in additional info
USA/MA-MGH-03866/2020
USA/MA-MGH-03872/2020
USA/MA-MGH-03873/2020
USA/MA-MGH-03874/2020
USA/MA-MGH-03876/2020
USA/MA-MGH-03880/2020
USA/MA-MGH-03883/2020
USA/MA-MGH-03885/2020
USA/MA-MGH-03887/2020
USA/MA-MGH-03889/2020
USA/MA-MGH-03892/2020
USA/MA-MGH-03895/2020
USA/MA-MGH-03896/2020
USA/MA-MGH-03898/2020
USA/MA-MGH-03900/2020
USA/MA-MGH-03901/2020
USA/MA-MGH-03917/2020
USA/MA-MGH-03918/2020
USA/MA-MGH-03922/2020
USA/MA-MGH-03923/2020
USA/MA-MGH-03924/2020
USA/MA-MGH-03929/2020
USA/MA-MGH-03930/2020
USA/MA-MGH-03931/2020
USA/MA-MGH-03932/2020
USA/MA-MGH-03933/2020

# divergence; see https://bedfordlab.slack.com/archives/CTZKJC7PZ/p1613779102005100
Mozambique/INS-K007880/2020
Israel/n14264/2020
Shandong/2020C1240229/2020
Lebanon/LAU-R249/2020
Lebanon/LAU-R77/2020
Lebanon/LAU-R115/2020
Lebanon/LAU-R148/2020

# misdated 2012 instead of 2021; reached out to submitter
SouthAfrica/KRISP-K008526/2021

# duplicate; additional info was: refseq hCoV-19/Wuhan/WIV04/2019|GISAID accession no. EPI_ISL_402124; see https://bedfordlab.slack.com/archives/CTZKJC7PZ/p1614102889023200
Wuhan/WH-CD/2020

# lab sequence; see https://bedfordlab.slack.com/archives/CTZKJC7PZ/p1614102889023200
mouse/Wuhan/LG/2020

# divergence; see https://bedfordlab.slack.com/archives/CTZKJC7PZ/p1614127615034900
Egypt/C-CEIRS-2MOH/2020
Tunisia/5008/2020
Tunisia/9111/2020
Tunisia/COV1663/2020
Israel/CVL1198/2020
Turkey/HSGM-2004082/2020
Mexico/ROO-InDRE_243/2020
USA/PR-CDC-S32/2020
Serbia/Belgrade-2515952809/2020
England/LOND-12F7D4C/2021

# divergence; see https://bedfordlab.slack.com/archives/CTZKJC7PZ/p1614291542057200
India/MH-NIV-967/2020
Shandong/2020C1240126/2020
Italy/CAM-CRGS-65/2020
Italy/FVG-ASUFC-23/2021
Brazil/RJ-9055PL02/2020

# Sample date before clade
Israel/CVL-1066/2020
Israel/CVL-1484/2020
Israel/CVL-1488/2020
Israel/CVL-1494/2020
Israel/CVL-1495/2020
Israel/CVL-1499/2020
Israel/CVL-1501/2020
Israel/CVL-1502/2020
Israel/CVL-1504/2020
Israel/CVL-1508/2020
Israel/CVL-1512/2020
Israel/CVL-1515/2020
Israel/CVL-1516/2020
Israel/CVL-1520/2020
Israel/CVL-1521/2020
Israel/CVL-1522/2020
Israel/CVL-1523/2020
Israel/CVL-1530/2020
Israel/CVL-1532/2020
Israel/CVL-1535/2020
Israel/CVL-1537/2020
Israel/CVL-1538/2020
Israel/CVL-1541/2020
Israel/CVL-1544/2020
Israel/CVL-1545/2020
Israel/CVL-1547/2020
Israel/CVL-1554/2020
Israel/CVL-1557/2020
Israel/CVL-1562/2020
Israel/CVL-1567/2020
Israel/CVL-1576/2020
Israel/CVL-1578/2020
Israel/CVL-1584/2020
Israel/CVL-1589/2020
Israel/CVL-1598/2020
Israel/CVL-1600/2020
Israel/CVL-1602/2020
Israel/CVL-1604/2020
Israel/CVL-1607/2020
Israel/CVL-1620/2020
Israel/CVL-1628/2020
Israel/CVL-1629/2020
Israel/CVL-1635/2020
Israel/CVL-1636/2020
Israel/CVL-1641/2020
Israel/CVL-1642/2020
Israel/CVL-1643/2020
Israel/CVL-1657/2020
Israel/CVL-1661/2020
Israel/CVL-1663/2020
Israel/CVL-1665/2020
Israel/CVL-1666/2020
Israel/CVL-1668/2020
Israel/CVL-1669/2020
Israel/CVL-1671/2020
Israel/CVL-1675/2020
Israel/CVL-1677/2020
Israel/CVL-1678/2020
Israel/CVL-1679/2020
Israel/CVL-1680/2020
Israel/CVL-1681/2020
Israel/CVL-1684/2020
Israel/CVL-1686/2020
Israel/CVL-2672/2021
Israel/CVL-2673/2021
Israel/CVL-2674/2021
Israel/CVL-2675/2021
Israel/CVL-2676/2021
Israel/CVL-2677/2021
Israel/CVL-2678/2021
Israel/CVL-2680/2021
Israel/CVL-2681/2021
Israel/CVL-2682/2021
Israel/CVL-2683/2021
Israel/CVL-2684/2021
Israel/CVL-2685/2021
Israel/CVL-2686/2021
Israel/CVL-2687/2021
Israel/CVL-2688/2021
Israel/CVL-2689/2021
Israel/CVL-2690/2021
Israel/CVL-2691/2021
Israel/CVL-2692/2021
Israel/CVL-2693/2021
Israel/CVL-2696/2021
Israel/CVL-2697/2021
Israel/CVL-2698/2021
Israel/CVL-2699/2021
Israel/CVL-2700/2021
Israel/CVL-2701/2021
Israel/CVL-2702/2021
Israel/CVL-2703/2021
Israel/CVL-2704/2021
Israel/CVL-2705/2021
Israel/CVL-2706/2021
Israel/CVL-2708/2021
Israel/CVL-2709/2021
Israel/CVL-2710/2021
Israel/CVL-2711/2021
Israel/CVL-2712/2021
Israel/CVL-2713/2021
Israel/CVL-2714/2021
Israel/CVL-2715/2021
Israel/CVL-2724/2021
Israel/CVL-2726/2021
Israel/CVL-2727/2021
Israel/CVL-2728/2021
Israel/CVL-2729/2021
Israel/CVL-2730/2021
Israel/CVL-2731/2021
Israel/CVL-2732/2021
Israel/CVL-2733/2021
Israel/CVL-2735/2021
Israel/CVL-2736/2021
Israel/CVL-2737/2021
Israel/CVL-2738/2021
Israel/CVL-2739/2021
Israel/CVL-2740/2021
Israel/CVL-2741/2021
Israel/CVL-2742/2021
Israel/CVL-2744/2021
Israel/CVL-2745/2021
Israel/CVL-2746/2021
Israel/CVL-2747/2021
Israel/CVL-2748/2021
Israel/CVL-2749/2021
Israel/CVL-2750/2021
Israel/CVL-2751/2021
Israel/CVL-2753/2021
Israel/CVL-2754/2021
Israel/CVL-2755/2021
Israel/CVL-2756/2021
Israel/CVL-2757/2021
Israel/CVL-2758/2021
Israel/CVL-2760/2021
Israel/CVL-2761/2021
Israel/CVL-2764/2021
Israel/CVL-2766/2021
Israel/CVL-2767/2021
Israel/CVL-2770/2021

# Date before clade
Australia/NSW4306/2020

# divergence; see https://bedfordlab.slack.com/archives/CTZKJC7PZ/p1614649829130500
Jordan/PHBC7/2021

# Date too early for clade
USA/NV-NSPHL-338695/2020

# divergence / clade timing; see https://bedfordlab.slack.com/archives/CTZKJC7PZ/p1615004811024400
SouthAfrica/N00187/2020

# divergence; see https://bedfordlab.slack.com/archives/CTZKJC7PZ/p1615005029024900
Brazil/RJ-9055PL03/2020
Colombia/AMA-INS-VG-612/2021

# Problematic dates, see https://bedfordlab.slack.com/archives/CTZKJC7PZ/p1615197320039000
USA/WA-AG-10073193/2021
USA/WA-AG-10077940/2021
USA/WA-AG-10083605/2021
USA/WA-AG-10085652/2021
USA/WA-AG-10087551/2021
USA/WA-AG-10088997/2021
USA/WA-AG-10093571/2021
USA/WA-AG-10093589/2021
USA/WA-AG-10093590/2021
USA/WA-AG-10093591/2021
USA/WA-AG-10093592/2021
USA/WA-AG-10093594/2021
USA/WA-AG-10093595/2021
USA/WA-AG-10093596/2021
USA/WA-AG-10093597/2021
USA/WA-AG-10093598/2021
USA/WA-AG-10093599/2021
USA/WA-AG-10093600/2021
USA/WA-AG-10093601/2021
USA/WA-AG-10093602/2021
USA/WA-AG-10093608/2021
USA/WA-AG-10095842/2021
USA/WA-AG-10096118/2021
USA/WA-AG-10103025/2021
USA/WA-AG-10105222/2021
USA/WA-AG-10106255/2021
USA/WA-AG-10106322/2021
Germany/HB-RKI-I-014899/2020
Germany/BY-RKI-I-013857/2020
Germany/BY-RKI-I-013858/2020
Germany/BY-RKI-I-013861/2020
Germany/BY-RKI-I-013862/2020
Chile/AR-265171/2020

# Under-diverged, see https://bedfordlab.slack.com/archives/CTZKJC7PZ/p1615230182053300
Senegal/SN-MBO-201724/2021
Senegal/SN-MBO-201825/2021
Senegal/SN-MBO-201781/2021
Senegal/SN-MBO-201670/2021
Senegal/SN-MBO-201894/2021
Senegal/SN-MBO-201902/2021
Senegal/SN-MBO-201765/2021
Senegal/SN-MBO-201654/2021

# Over-diverged, see https://bedfordlab.slack.com/archives/CTZKJC7PZ/p1615230568054300
NorthMacedonia/1236/2020
NorthMacedonia/1285/2020

# divergence; see https://bedfordlab.slack.com/archives/CTZKJC7PZ/p1615327203067500
NorthMacedonia/9109/2021
Brazil/RJ-9055PL04/2020
Brazil/RJ-9055PL01/2020

# Identified as duplicates in additional info
Brazil/PR-FIOCRUZ-10634/2020
Brazil/RJ-FIOCRUZ-11771A1/2020
Brazil/RJ-FIOCRUZ-12854/2020
Brazil/RJ-FIOCRUZ-12887/2020
Brazil/RJ-FIOCRUZ-12985/2020
Brazil/RJ-FIOCRUZ-7657/2020
USA/PR-01222021-811/2021

# large deletions, including in Spike:
Turkey/22_Ankara_GUMV_50454/2020
USA/SC-CDC-2-3714451/2020

# too early for clade; see https://bedfordlab.slack.com/archives/CTZKJC7PZ/p1615577473113100
Austria/CeMM4362/2020
Austria/CeMM4363/2020
Spain/CL-MS6922/2020

# too many s1 mutations; https://bedfordlab.slack.com/archives/CTZKJC7PZ/p1615591129119500
SriLanka/Genelabs-CA17643/2020

# Sample date before clade 2020-05 (20I/501Y.V1)
USA/UT-UPHL-2103006954/2020
USA/UT-UPHL-2103147562/2020
USA/UT-UPHL-2103760993/2020

# Divergence; see https://bedfordlab.slack.com/archives/CTZKJC7PZ/p1615915704035800?thread_ts=1615905803.029600&cid=CTZKJC7PZ
Japan/PG-10466/2020
Senegal/64914/2020
USA/WA-UW-22854/2020
Uganda/UG111/2020
Israel/CVL1328/2020
SouthKorea/KDCA1415/2020

# too many s1 mutations; see https://bedfordlab.slack.com/archives/CTZKJC7PZ/p1615918799038800?thread_ts=1615905803.029600&cid=CTZKJC7PZ
USA/TX-HMH-MCoV-26196/2021

# divergence; see https://bedfordlab.slack.com/archives/CTZKJC7PZ/p1616020140009400
USA/ME-HETL-J1539/2020
Spain/MD-IBV-99020764/2020

# Sample date before clade
Belgium/UZA-UA-CV0615326772/2020
Belgium/UZA-UA-CV0631961262/2020
USA/NV-NSPHL-NV2025949/2020

# Over-diverged, probably date swap, see https://bedfordlab.slack.com/archives/CTZKJC7PZ/p1616082465020900
Belgium/UZA-UA-CV2006969709/2020

# Sample date before clade : 2020-02-08 (20G) ; https://bedfordlab.slack.com/archives/CTZKJC7PZ/p1616180986031500
USA/OH-ODH-SC1040172/2020

# Sample date before clade
Australia/NSW4375/2020
Australia/NSW4379/2020
USA/NY-Yale-1980/2020

# divergence; see https://bedfordlab.slack.com/archives/CTZKJC7PZ/p1616203761035600
Lebanon/LAU-R92/2020
Lebanon/LAU-R145/2020
Lebanon/LAU-R204/2020
Lebanon/LAU-R231/2020
Lebanon/LAU-R242/2020
USA/WA-UW-12771/2020
NorthMacedonia/1282/2020
Panama/334468/2020

# divergence; see https://bedfordlab.slack.com/archives/CTZKJC7PZ/p1616542141028700
Italy/CAM-TIGEM-995/2020
Ecuador/ZZ-SARS-1/2020
Peru/LIM-INS-172/2020
Mexico/CMX-IMSS_K2/2020

# Impossible date or clade, see https://bedfordlab.slack.com/archives/CTZKJC7PZ/p1616586122040500
Netherlands/NB-EMC-748/2020
Netherlands/NB-EMC-749/2020
Netherlands/NB-EMC-810/2020
Netherlands/NB-EMC-855/2020
Netherlands/NB-EMC-856/2020
Netherlands/ZH-EMC-1909/2020
Netherlands/ZH-EMC-1910/2020
Netherlands/ZH-EMC-1911/2020
Netherlands/ZH-EMC-1916/2020
Netherlands/ZH-EMC-1917/2020
Netherlands/ZH-EMC-1918/2020
Netherlands/ZH-EMC-1919/2020
Netherlands/ZH-EMC-1925/2020
Netherlands/ZH-EMC-1926/2020
Netherlands/ZH-EMC-1941/2020
Netherlands/ZH-EMC-2070/2020
Netherlands/ZH-EMC-2071/2020
Netherlands/ZH-EMC-2072/2020
Netherlands/ZH-EMC-2073/2020
Netherlands/ZH-EMC-2074/2020
Netherlands/ZH-EMC-2075/2020
Netherlands/ZH-EMC-2076/2020
Netherlands/ZH-EMC-2077/2020
Netherlands/ZH-EMC-2078/2020
Netherlands/ZH-EMC-2079/2020
Netherlands/ZH-EMC-2080/2020
Netherlands/NB-EMC-750/2020
Netherlands/NB-EMC-811/2020
Netherlands/ZH-EMC-1816/2020
Netherlands/NB-EMC-751/2020

# divergence; see https://bedfordlab.slack.com/archives/CTZKJC7PZ/p1616712320056000
Malaysia/7970/2020
Turkey/Ankara_GUMV_10711/2020

# Sample date before clade; see https://bedfordlab.slack.com/archives/CTZKJC7PZ/p1617059513084600
France/ARA-HCL021011750901/2020
France/ARA-HCL021020561601/2020
USA/ID-IBL-620653/2020

# divergence; see https://bedfordlab.slack.com/archives/CTZKJC7PZ/p1617125150114900
Kazakhstan/123632/2020
Kazakhstan/125378/2020
Lebanon/LAU-R153/2020
Indonesia/RSDS-RCVTD-UNAIR-35-C/2020
India/MH-NCCS-181766/2020
India/MH-NCCS-181778/2020
India/MH-NCCS-181784/2020

# sample date before clade
Portugal/PT5273/2021

# divergence; see https://bedfordlab.slack.com/archives/CTZKJC7PZ/p1617399827159200
India/KL-NCCS-CH8970/2021
India/MH-NCCS-172247/2020
Paraguay/33611-R1/2020
Israel/CVL-n26800/2020
Kazakhstan/122259/2020
Lebanon/LAU-R87/2020
India/MH-NCCS-154558/2020
Japan/PG-27639/2020

# divergence; see https://bedfordlab.slack.com/archives/CTZKJC7PZ/p1617746578178900
India/MH-MW15/2020
Kazakhstan/124921/2020
Kazakhstan/125343/2020
USA/NV-NSPHL-NV2047306/2020
Indonesia/JI-RSDS-RCVTD-UNAIR-35-C/2020
Israel/CVL4659/2020
SriLanka/CDR-SL7066/2020

# divergence, see https://bedfordlab.slack.com/archives/CTZKJC7PZ/p1617921564199000
Kazakhstan/124637/2020
Kazakhstan/6294/2020
Italy/LOM-Pavia-81705/2020
Australia/SAP633/2020
Australia/VIC14510/2020

# Date before clade
USA/MA-MASPHL-02862/2020
USA/WV-WVU-WV090723/2020

# divergence; see https://bedfordlab.slack.com/archives/CTZKJC7PZ/p1618262398232100
Australia/VIC10338/2020
Germany/SL-SU-10429159/2020
Germany/SL-SU-10428507/2020
India/TG-CDFD-N5338/2020
India/MH-NCCS-113349/2020
India/MH-GA91/2020
India/MH-NIV-9127/2020
India/UT-AR49/2020
India/HR-NIBG-TF75/2020
Israel/CVL-n-6731/2020
Kazakhstan/125375/2020
Netherlands/ZH-EMC-1944/2020
Panama/GMI-PA461379/2020
Panama/GMI-PA499/2020
Panama/GMI-PABT1907/2020
Panama/334239/2020
Panama/334396/2020
Panama/GMI-PA339770/2020
Panama/GMI-PA395537/2020
Panama/GMI-PACH301/2020
Panama/GMI-PA341357/2020
Panama/GMI-PA437394/2020
Panama/GMI-PA928/2020
Panama/GMI-PA345576/2020
Panama/GMI-PA980/2020
Panama/GMI-PACH6445/2020
Panama/GMI-PA368022/2020
Panama/GMI-PABT1918/2020
Panama/GMI-PA465514/2020
Spain/CN-ISCIII-201810/2020
Shandong/LY001-2/2020
Sweden/20-51765/2020
USA/WA-UW-8510/2020

# divergence; see https://bedfordlab.slack.com/archives/CTZKJC7PZ/p1618438552259300
SouthKorea/KDCA1470/2021
Indonesia/JK-NIHRD-MI2103283/2021
SouthKorea/KDCA1417/2020
Mexico/SIN_CIAD_S0148/2020
USA/WA-UW-13330/2020
USA/WA-UW-13381/2020
USA/WA-UW-13397/2020
USA/WA-UW-2780/2020
USA/WA-UW-3611/2020
USA/WA-UW-4127/2020
Panama/GMI-PA344779/2020

# date too early for clade
SouthAfrica/Tygerberg_650/2020

# date too early for clade, see https://bedfordlab.slack.com/archives/CTZKJC7PZ/p1618554314280300
SouthKorea/KDCA0367/2020

# Dates too early
Spain/CL-COV00781/2020
USA/AZ-TG808431/2020
USA/AZ-TG808802/2020

# Divergence
CzechRepublic/LV11610/2021
Panama/GMI-PAA676/2020
Panama/GMI-PACH3141/2020

# Overdivergent; see https://bedfordlab.slack.com/archives/CTZKJC7PZ/p1618960723320800
Panama/GMI-PABT2447/2020
Shandong/2020C1240152/2020
Slovenia/17-055168-CE/2020

# Divergence, see https://bedfordlab.slack.com/archives/CTZKJC7PZ/p1619022249327500
Kazakhstan/125374/2020

# Divergence, see https://bedfordlab.slack.com/archives/CTZKJC7PZ/p1619131293335500
Panama/GMI-PA979/2020
Spain/AN-ISCIII-201273/2020
BosniaandHerzegovina/AGCOB841/2021
Brazil/RJ-IC01044_57-20/2020
Sweden/20-08339/2020
India/MH-NIV-6285/2020
Mexico/BCN-ALSR-8431/2020
SaudiArabia/KAUST-MAKKAH186/2020
HongKong/HKPU70-1302/2020
India/MH-NIV-QC-1377/2020
BosniaandHerzegovina/02-BanjaLuka/2020
Kazakhstan/6284/2020
Netherlands/ZH-EMC-1930/2020

# lab mouse
mouse/USA/IA-N501Y-MA30/2021

# wrong date; see https://bedfordlab.slack.com/archives/CTZKJC7PZ/p1619220219342700
Canada/NS-NML-2284/2020

# Divergence; see https://bedfordlab.slack.com/archives/CTZKJC7PZ/p1619297565347800
Panama/GMI-PA963/2020
Panama/GMI-PABT1906/2020
Germany/BW-UKT-a021/2020
India/MH-NCCS-87458/2020
Italy/CAM-IZSM-115298/2020
Israel/CVL-n25907/2020
Lebanon/S10_768/2020
Panama/GMI-PACH6313/2020

# Canada Feb 2020 dates; probably misdated; Qatar over diverged; see https://bedfordlab.slack.com/archives/CTZKJC7PZ/p1619464498366900
Qatar/QA-QU_18-10-B12/2020
Qatar/QA-QU_18-10-E12/2020
Canada/QC-L00324380001/2020
Canada/QC-L00324383001/2020
Canada/QC-L00324385001/2020
Canada/QC-L00324388001/2020
Canada/QC-L00324389001/2020
Canada/QC-L00324391001/2020
Canada/QC-L00324397001/2020
Canada/QC-L00324399001/2020
Canada/QC-L00324401001/2020
Canada/QC-L00324403001/2020

# Date too early for clade, see https://bedfordlab.slack.com/archives/CTZKJC7PZ/p1619678934393000
Germany/BY-MVP-000004014/2020
Poland/WGS-CoV_PZH-LUM-0035/2021
Poland/WGS-CoV_PZH-LUM-0036/2021

# Divergence; see https://bedfordlab.slack.com/archives/CTZKJC7PZ/p1619654818389300
Kazakhstan/123641/2020
Kazakhstan/125372/2020
Kazakhstan/125377/2020
France/PAC-IHUCOVID-2800/2020
Switzerland/GE-ETHZ-200011/2020
Egypt/MASRI-C4-025/2020
Gambia/22138/2020
Ireland/G-NVRL-72IRL10884/2020

# Date before clade
USA/CA-SEARCH-17627/2020

# Duplicate
EPI_ISL_1804614

# divergence; see https://bedfordlab.slack.com/archives/CTZKJC7PZ/p1620068808435700
Indonesia/SG-NIHRD-PME21007997/2020
Morocco/ouar254/2020
USA/CA-CDC-1/2020
USA/CO-CDPHE-2007152328/2020

# divergence; see https://bedfordlab.slack.com/archives/CTZKJC7PZ/p1620169932446500
Germany/BAV-PL-virotum_B6HEM/2020
SaudiArabia/545/2020
Senegal/THI-KHO-0333/2020
Ireland/D-NVRL-g20IRL77933/2020
CzechRepublic/VIR-64/2021
Netherlands/ZH-EMC-1943/2020

# duplicate determined from additional info: Australia/QLD1516/2021  EPI_ISL_1803794 additional_host_info: Specimen source - original patient sample sequence EPI_ISL_1300524, sequence hCoV-19/Australia/QLD1496/2021
Australia/QLD1516/2021

# divergence; see https://bedfordlab.slack.com/archives/CTZKJC7PZ/p1620344639478100
Senegal/SN-TH-TIV-2176/2021
Germany/SL-SU-10428084/2020
Ireland/LH-NVRL-g20IRL08005/2020
Germany/SL-SU-10427230/2020
USA/NV-NSPHL-357909/2020
USA/TX-HMH-1344/2020

# Sample date before clade
USA/TN-UT2050/2020
USA/TN-UT2063/2020
Japan/Donner380/2020

# The following additional info was interpreted to mean that each of these sequences was a duplicate (second sample):
# Brazil/GO-HLAGYN-1354344_R2/2021 EPI_ISL_2017447 additional_host_info: infection case second episode / first sample (P. 1169409) - exclude "second sample" (same date)
Brazil/GO-HLAGYN-1354344_R2/2021
# Brazil/GO-HLAGYN-1520715_R2/2021 EPI_ISL_2017324 additional_host_info: infection case second episode / first sample (P.1088252) - exclude "second sample" (same date)
Brazil/GO-HLAGYN-1520715_R2/2021
# Brazil/GO-HLAGYN-1586463_R2/2021 EPI_ISL_2017282 additional_host_info: infection case second episode / first sample (1031607) - exclude 1586463 due to later date
Brazil/GO-HLAGYN-1586463_R2/2021
# Brazil/GO-HLAGYN-1623988_R2/2021	EPI_ISL_2187985	additional_host_info: Post-vaccination reinfection, infection case seconde episode / first sample (855822) - exclude 855822 due to later date
Brazil/GO-HLAGYN-855822/2021

# Sample date before clade
Spain/VC-IBV-99028301/2020
Spain/VC-IBV-99028305/2020
USA/TX-CDC-4061563-001/2020

# Divergence; see https://bedfordlab.slack.com/archives/CTZKJC7PZ/p1620967910048000
Japan/Donner381/2020
Australia/SA0633/2020
Panama/GMI-PACH6448/2020
Brazil/SP-2388/2020
Brazil/SP-2389/2020

# Divergence
USA/WA-UW-488/2020
Germany/SL-SU-10427535/2020

# S1 mutations; see https://bedfordlab.slack.com/archives/CTZKJC7PZ/p1621370263017600
USA/TX-HMH-MCoV-25244/2021

# Divergence; see https://bedfordlab.slack.com/archives/CTZKJC7PZ/p1621459450055600
Ecuador/USFQ-1325/2021
India/GJ-ICMR-NIV-INSACOG-GSEQ-92/2021
Indonesia/JK-NIHRD-MI2104087/2021
Gambia/19140/2021
India/GJ-GBRC522b/2020
Latvia/445/2021
Japan/Donner379/2020
Japan/Donner382/2020

# wrong date probably; see https://bedfordlab.slack.com/archives/CTZKJC7PZ/p1621533304060300
Poland/NIPH-NIH_ECDC-4488/2021

# duplicates; see additional info below.
# Japan/TY10-395-P1/2021 EPI_ISL_2158612 additional_host_info: Accession ID of original sequence is EPI_ISL_1927433.$
Japan/TY10-395-P1/2021
# Japan/TY11-330-P1/2021 EPI_ISL_2158613 additional_host_info: Accession ID of original sequence is EPI_ISL_1927438.$
Japan/TY11-330-P1/2021
# Japan/TY11-908-P1/2021 EPI_ISL_2158614 additional_host_info: Accession ID of original sequence is EPI_ISL_1927417.$
Japan/TY11-908-P1/2021
# Japan/TY11-912-P1/2021 EPI_ISL_2158615 additional_host_info: Accession ID of original sequence is EPI_ISL_1927845.$
Japan/TY11-912-P1/2021
# Japan/TY11-917-P1/2021 EPI_ISL_2158616 additional_host_info: Accession ID of original sequence is EPI_ISL_1927423.$
Japan/TY11-917-P1/2021
# Japan/TY11-927-P1/2021 EPI_ISL_2158617 additional_host_info: Accession ID of original sequence is EPI_ISL_1927424.$
Japan/TY11-927-P1/2021
# Japan/TY8-005-P0/2021 EPI_ISL_2158606 additional_host_info: Accession ID of original sequence is EPI_ISL_1128142.$
Japan/TY8-005-P0/2021
# Japan/TY8-008-P0/2021 EPI_ISL_2158607 additional_host_info: Accession ID of original sequence is EPI_ISL_1128143.$
Japan/TY8-008-P0/2021
# Japan/TY8-187-P0/2021 EPI_ISL_2158608 additional_host_info: Accession ID of original sequence is EPI_ISL_1131135.$
Japan/TY8-187-P0/2021
# Japan/TY8-689-P0/2021 EPI_ISL_2158605 additional_host_info: Accession ID of original sequence is EPI_ISL_1425704.$
Japan/TY8-689-P0/2021
# Japan/TY8-995-P0/2021 EPI_ISL_2158609 additional_host_info: Accession ID of original sequence is EPI_ISL_1198824.$
Japan/TY8-995-P0/2021
# Japan/TY9-344-P0/2021 EPI_ISL_2158610 additional_host_info: Accession ID of original sequence is EPI_ISL_1425611$
Japan/TY9-344-P0/2021
# Japan/TY9-435-P0/2021 EPI_ISL_2158611 additional_host_info: Accession ID of original sequence is EPI_ISL_1926894.$
Japan/TY9-435-P0/2021

# divergence, odd mutations; see https://bedfordlab.slack.com/archives/CTZKJC7PZ/p1621572185067000
Togo/C5951/2021
Togo/C6149/2021
Australia/VIC16342/2020
Australia/VIC7953/2020

# excess S1 mutations; see https://bedfordlab.slack.com/archives/CTZKJC7PZ/p1621627646088600
SriLanka/KDU8760/2021

# divergence; see https://bedfordlab.slack.com/archives/CTZKJC7PZ/p1621628225089500
Germany/BY-ChVir-1019/2020
India/GJ-GBRC213a/2020
India/HP-278/2020
Indonesia/GO-NIHRD-PME20210/2020
Indonesia/NB-NIHRD-WGS02319/2021
Panama/GMI-PA911/2020
Tunisia/COV1339/2020

# mutations don't make sense; https://bedfordlab.slack.com/archives/CTZKJC7PZ/p1621879481099500
USA/TX-HMH-MCoV-40892/2020
USA/TX-HMH-MCoV-40893/2020
USA/TX-HMH-MCoV-40917/2020
USA/TX-HMH-MCoV-40977/2020
USA/TX-HMH-MCoV-41485/2020
USA/TX-HMH-MCoV-44272/2020

# divergence, see https://bedfordlab.slack.com/archives/CTZKJC7PZ/p1621927155107400 and https://bedfordlab.slack.com/archives/CTZKJC7PZ/p1621927177108000
USA/TX-HMH-MCoV-40956/2020
USA/WA-UW-4130/2020

# Date
USA/IL-RIPHL_30044_G/2021

# divergence; see https://bedfordlab.slack.com/archives/CTZKJC7PZ/p1621963221128700
USA/WA-UW-24920/2020
USA/MDH-7761/2020
Australia/VIC16738/2020
SouthKorea/KDCA3594/2020

# Sample date before clade; see https://bedfordlab.slack.com/archives/CTZKJC7PZ/p1622040744137600
NorthAmerica/USA/IL-RED-FUL-39828238/2020
Switzerland/SO-UHB-42850063/2021
USA/KS-KHEL-1913/2020

# Suspiciously early for clade
England/LCST-24DE3CC/2020

# Sample date before clade (see https://bedfordlab.slack.com/archives/CTZKJC7PZ/p1622107826150400):
Italy/CAM-TIGEM-IZSM-COLLI-14397/2021
Qatar/QA.QU_18.10.B12/2020
Qatar/QA.QU_18.10.E12/2020
USA/UT-UPHL-2104759182/2020
SouthAfrica/NICD-N3820/2021
Spain/MD-HRYC-71299296/2020

# https://bedfordlab.slack.com/archives/CTZKJC7PZ/p1622214173170700
Mongolia/3622/2020

# Sample date before clade
SouthKorea/KDCA4115/2020
USA/LA-EVTL2775/2021
USA/LA-EVTL2776/2021

# Divergence
Iran/T11514/2021
USA/LA-EVTL2492/2021
Brazil/PB-BA1200-250009713/2020
Brazil/RJ-FIOCRUZ-2188-1P/2020
Spain/MD-IBV-99018541/2020
Italy/CAM-TIGEM-IZSM-COLLI-14404/2021
Italy/CAM-TIGEM-IZSM-COLLI-14404/2021
USA/WA-UW-2105/2020
India/MH-ICMR-NIV-INSAGOG-GSEQ-2375/2020
India/TG-CDFD-N5400/2020

# Date
Switzerland/VD-CHUV-GEN2474/2020

# Misdated; https://bedfordlab.slack.com/archives/CTZKJC7PZ/p1622739851264500
USA/MI-MDHHS-SC28884/2021
USA/MI-MDHHS-SC28909/2021

# divergence; see https://bedfordlab.slack.com/archives/CTZKJC7PZ/p1622670440258000
Colombia/COR-U24/2020
Iran/Esf-11-169/2021
Panama/GMI-PABT2504/2020
Spain/AN-ISCIII-201636/2020
USA/TX-HMH-MCoV-41494/2020
USA/WA-UW-1972/2020

# misdated; see https://bedfordlab.slack.com/archives/CTZKJC7PZ/p1622745640267300
USA/TX-HMH-MCoV-40911/2020
USA/TX-HMH-MCoV-40926/2020

# Divergence; see https://bedfordlab.slack.com/archives/CTZKJC7PZ/p1622798726274300
Belgium/MBLGc7385/2020

# Divergence; see https://bedfordlab.slack.com/archives/CTZKJC7PZ/p1622804065277800 and following threads
Iran/T11877/2021
India/UP-CCMB-CIA1758/2021
Egypt/NRC-5918/2020
Iran/T11529/2021
Mongolia/3624/2020
CzechRepublic/VIR-196/2021

# s1 mutations - possible bioinformatic issue; see https://bedfordlab.slack.com/archives/CTZKJC7PZ/p1622838574295600
India/GA-NCCS-169260/2021
India/GA-NCCS-NS2561/2021
India/GA-NCCS-NS2566/2021
India/MH-NCCS-2748700441970/2021
India/MH-NCCS-2749001147276/2021
India/MH-NCCS-2749001185481/2021
India/MH-NCCS-AFMC-45271/2021

#divergence; see https://bedfordlab.slack.com/archives/CTZKJC7PZ/p1622838574295600
Brazil/SP-L112-CD4087/2020
USA/TX-HMH-MCoV-41509/2020

# date
Norway/7651/2020

# Divergence (see https://bedfordlab.slack.com/archives/CTZKJC7PZ/p1623136183316600 and following threads)
Paraguay/PY45/2021
Mongolia/3001/2020
Ireland/LH-NVRL-g20IRL08001/2020
Latvia/229/2021
NorthMacedonia/29934/2021
SriLanka/CDR107/2021
Indonesia/SS-NIHRD-WGS002222/2021
Egypt/NRC-6781/2020
Italy/CAM-TIGEM-IZSM-COLLI-14403/2021
USA/CA-CSMC110/2020
Turkey/HSGM-10611/2021
India/UP-CCMB-CIA1728/2021
Egypt/NRC-6781/2020
Egypt/NRC-6792/2020
Brazil/RS-LMM48674/2021

# deletion in ORF1a
India/MH-NCCS-2748000335553/2021

# Divergence (see https://bedfordlab.slack.com/archives/CTZKJC7PZ/p1623221408342400 and following threads)
Botswana/CV1507452/2021
Netherlands/NB-EMC-813/2020
Iran/Hormozgan/2021
USA/WA-UW-12659/2020
Panama/GMI-PA352445/2020
USA/TX-HMH-MCoV-34797/2020
Slovakia/UVZ_PL11_G3_8404/2021
USA/WA-UW306/2020
USA/WA-UW-9190/2020


# Recombinant (see https://bedfordlab.slack.com/archives/CTZKJC7PZ/p1623222061345400)
USA/MN-CDC-LC0060370/2021

# Divergence (see https://bedfordlab.slack.com/archives/CTZKJC7PZ/p1623306212359300 and following threads)
Mongolia/29432/2020
Mongolia/7908/2020
Mongolia/Imp3989/2020
Kazakhstan/KUS-NRL-602S/2021
India/ILSGS00941/2020
USA/WA-UW-12935/2020
USA/TX-HMH-MCoV-40904/2020
Peru/LIM-INS-768/2020
Mongolia/7908/2020
India/MH-NIV-8404/2020
Panama/GMI-PACNB11556/2020

# Sampling date and clock deviation, see https://bedfordlab.slack.com/archives/CTZKJC7PZ/p1623307741362800
India/MP-NCDC-2509230/2020

# duplicates; see https://bedfordlab.slack.com/archives/CTZKJC7PZ/p1623704938385700
# additional_host_info: Traveller from São Paulo - Same patient from São Paulo, Brazil - hCoV-19/Brazil/SP-2898/2021 - EPI_ISL_2274979
Brazil/RJ-FIOCRUZ-25683/2021
# EPI_ISL_2466267 additional_host_info: virus isolated from hCoV-19/Brazil/AM-FIOCRUZ-20141493LR/2020 - EPI_ISL_1068092
Brazil/AM-FIOCRUZ-34074-1P/2020
# EPI_ISL_2466266 additional_host_info: virus isolated from hCoV-19/Brazil/AM-FIOCRUZ-20140452MJ-R1/2020 - EPI_ISL_1034305
Brazil/AM-FIOCRUZ-34075-R1-1P/2020
# EPI_ISL_2466265 additional_host_info: virus isolated from hCoV-19/Brazil/AM-FIOCRUZ-20897269OP/2020 - EPI_ISL_1068256
Brazil/AM-FIOCRUZ-34077-1P/2020

# sample date before clade; see https://bedfordlab.slack.com/archives/CTZKJC7PZ/p1623710029387300
Canada/BC-BCCDC-14365/2020
Canada/BC-BCCDC-14366/2020
Canada/BC-BCCDC-14367/2020
Canada/BC-BCCDC-14368/2020
Canada/BC-BCCDC-14369/2020
Canada/BC-BCCDC-14457/2020
Canada/BC-BCCDC-14458/2020
Canada/BC-BCCDC-14459/2020
Canada/BC-BCCDC-14460/2020
Canada/BC-BCCDC-14461/2020
Canada/BC-BCCDC-14462/2020
Canada/BC-BCCDC-14463/2020
Canada/BC-BCCDC-15192/2020
Canada/BC-BCCDC-15474/2020
Canada/BC-BCCDC-15475/2020
Canada/BC-BCCDC-9651/2020
Canada/BC-BCCDC-9652/2020
Canada/BC-BCCDC-9653/2020
Canada/BC-BCCDC-9659/2020
France/IDF-HB_112010000864/2020
France/IDF-HB_112010003918/2020
France/IDF-HB_112010005538/2020
France/IDF-HB_112010014593/2020
France/IDF-HB_112010016977/2020
Zimbabwe/CERI-KRISP-K011643/2020
Zimbabwe/CERI-KRISP-K011662/2020

# sample date before clade; see https://bedfordlab.slack.com/archives/CTZKJC7PZ/p1623865783396900
USA/SC-DHEC-1826/2020

# s1 muts; see https://bedfordlab.slack.com/archives/CTZKJC7PZ/p1623806802393700
India/MH-NCCS-AFMC-48121/2021

# misdated; see https://bedfordlab.slack.com/archives/CTZKJC7PZ/p1623957828406800
Canada/BC-BCCDC-10959/2020
Canada/BC-BCCDC-11421/2020
Canada/BC-BCCDC-11422/2020
Canada/BC-BCCDC-11602/2020
Canada/BC-BCCDC-12035/2020
Canada/BC-BCCDC-12786/2020
Canada/BC-BCCDC-12881/2020
Canada/BC-BCCDC-13443/2020
Canada/BC-BCCDC-13444/2020
Canada/BC-BCCDC-13632/2020
Canada/BC-BCCDC-14740/2020
Canada/BC-BCCDC-9093/2020

# divergence; see https://bedfordlab.slack.com/archives/CTZKJC7PZ/p1624039632415600?thread_ts=1623985379.410600&cid=CTZKJC7PZ
USA/TX-HMH-MCoV-40953/2020

# divergence; see https://bedfordlab.slack.com/archives/CTZKJC7PZ/p1624292300423100?thread_ts=1624066497.419400&cid=CTZKJC7PZ
Panama/GMI-PACNB11547/2020

# sample date before clade; see https://bedfordlab.slack.com/archives/CTZKJC7PZ/p1624294011425500
Brazil/GO-2732R1/2021
USA/IN-ISDHQ396/2020
USA/IN-ISDHQ397/2020
USA/IN-ISDHQ400/2020
USA/IN-ISDHQ401/2020
USA/IN-ISDHQ403/2020
USA/IN-ISDHQ404/2020
USA/IN-ISDHQ405/2020
USA/IN-ISDHQ407/2020
USA/IN-ISDHQ409/2020

# Divergence, see https://bedfordlab.slack.com/archives/CTZKJC7PZ/p1624363917438400 and following threads
CzechRepublic/188478-21cs/2021
Angola/CERI-KRISP-K013679/2020
Angola/CERI-KRISP-K013671/2020
Italy/CAM-TIGEM-1667/2020
env/Austria/CeMM2655/2021
Turkey/HSGM-7131/2021
Kazakhstan/ATY-NRL-499S/2021
Angola/CERI-KRISP-K012644/2021
Kazakhstan/KAR-NRL-9038S/2021
Egypt/CCHE57357_Wave_3_A_005/2021

# Divergence, see https://bedfordlab.slack.com/archives/CTZKJC7PZ/p1624438598456300 and following threads
Brazil/RS-LMM52659/2021
Botswana/R17B49_BHP_000467827/2021
USA/MS-CDC-LC0068937/2021
Egypt/NRC-5980/2020
Bangladesh/BCSIR-NILMRC-769/2021
India/CT-ILSGS00433/2021
Brazil/RJ-FUNED-330107714/2020
Taiwan/TSGH-30/2020
Egypt/NRC-6102/2020
USA/TX-HMH-MCoV-27396/2021
Armenia/IMB3-6/2021
Brazil/PR-FIOCRUZ-5241/2021
Egypt/NRC-5863/2020

# sample date before clade; see https://bedfordlab.slack.com/archives/CTZKJC7PZ/p1624560747464200
Poland/KCZ_1.73/2020
USA/SEARCH-101973/2020
USA/SEARCH-101987/2020
USA/SEARCH-101991/2020
USA/SEARCH-101999/2020
USA/SEARCH-102007/2020
USA/SEARCH-102015/2020

# probably misdated, 20B clade
Japan/20200409-129/2020

# duplicates; see https://bedfordlab.slack.com/archives/CTZKJC7PZ/p1624647415473100
# additional_host_info: Same host as sample hCoV-19/Mauritius/104633/2021
Mauritius/102293/2021
# additional_host_info: Same host as sample hCoV-19/Mauritius/77706/2021
Mauritius/104670/2021
# additional_host_info: Same host as sample hCoV-19/Mauritius/88835/2021
Mauritius/131631/2021
# additional_host_info: Same host as sample hCoV-19/Mauritius/98032/2021
Mauritius/50585/2021
# additional_host_info: Same host as sample hCoV-19/Mauritius/104643/2021
Mauritius/81784/2021

#s1 mutations; https://bedfordlab.slack.com/archives/CTZKJC7PZ/p1624653775475600?thread_ts=1624585918.467900&cid=CTZKJC7PZ
India/MH-NCCS-2749001178208/2021

# too early for clade v1; https://bedfordlab.slack.com/archives/CTZKJC7PZ/p1624653775475600?thread_ts=1624585918.467900&cid=CTZKJC7PZ
USA/TX-HMH-MCoV-40964/2020

# Too early for clade
Thailand/Songkhla-CONI-0807/2020
Thailand/Songkhla-CONI-0808/2020
USA/DC-DFS-PHL-0666/2021
USA/NY-COV-1352/2020

# Divergence, see https://bedfordlab.slack.com/archives/CTZKJC7PZ/p1624863126484500
USA/LA-EVTL3005/2021
Iran/Krj-12-107/2021
CzechRepublic/191056-21cs/2021
Kuwait/JAH2380/2021
India/GJ-GBRC327b/2020

# s1 muts
India/GA-NCCS-NS2567/2021
USA/TX-HMH-MCoV-44161/2021

# VeroE6 Passaged
Japan/RB21-15-002/2020
Japan/RB21-15-003/2020
Japan/RB21-15-007/2020
Japan/RB21-15-012/2020
Japan/RB21-15-015/2020
Japan/RB21-15-022/2020
Japan/RB21-15-024/2020
Japan/RB21-15-025/2020
Japan/RB21-15-028/2020
Japan/RB21-15-030/2020
Japan/RB21-15-031/2020
Japan/RB21-15-033/2020
Japan/RB21-15-038/2020
Japan/RB21-15-039/2020
Japan/RB21-15-041/2020
Japan/RB21-15-043/2020
Japan/RB21-15-044/2020
Japan/RB21-15-046/2020
Japan/RB21-15-049/2020


# Excluded for cell passage, animal adapted, or unclear passage history
Russia/Nsk-FRCFTM-1-16a/2020
mouse/Wuhan/WBP-1/2020
France/OCC-IHAP-VIR12/2020
Taiwan/NTU01/2020
Taiwan/CGMH-CGU-03/2020
Taiwan/CGMH-CGU-05/2020
Taiwan/CGMH-CGU-02/2020
Taiwan/CGMH-CGU-06/2020
Taiwan/CGMH-CGU-09/2020
Taiwan/CGMH-CGU-10/2020
Taiwan/CGMH-CGU-12/2020
Taiwan/CGMH-CGU-13/2020
Taiwan/CGMH-CGU-14/2020
Taiwan/CGMH-CGU-15/2020
Taiwan/CGMH-CGU-16/2020
Taiwan/CGMH-CGU-17/2020
Taiwan/CGMH-CGU-18/2020
Taiwan/CGMH-CGU-25/2020
USA/FL-UF4/2020
USA/FL-UF-4/2020
Russia/Nsk-FRCFTM-1-17a/2020
South Africa/KRISP-K003667/2020
South Africa/KRISP-K003668/2020
South Africa/KRISP-K003669/2020
South Africa/KRISP-K003670/2020
South Africa/KRISP-K003671/2020
South Africa/KRISP-K003672/2020
South Africa/KRISP-K003673/2020
South Africa/KRISP-K003674/2020
Germany/NRW-Dusseldorf-B117-G1/2021
Germany/NRW-Dusseldorf-B1351-S11/2021
Kazakhstan/KazNAU-NSCEDI-7/2020
mouse/USA/IA-N501Y-MA30/2021
Russia/MOW-PMVL-47/2021
Russia/MOW-PMVL-48/2021
USA/WA-UW-C/2021
Taiwan/3/2020
Taiwan/4/2020
Jingzhou/HBCDC-HB-01/2020
South Korea/KCDC12/2020
Wuhan/HBCDC-HB-05/2020
South Korea/KCDC2001/2020
South Korea/KCDC2003/2020
South Korea/KCDC2003/2020
Germany/HE-FFM1/2020
Germany/HE-FFM3/2020
Germany/HE-FFM4/2020
Germany/HE-FFM5/2020
Germany/HE-FFM6/2020
Germany/HE-FFM7/2020
England/IC19/2020
France/ARA-08938-isl/2020
France/ARA-09112-isl/2020
Botswana/CV1404955/2021
Brazil/RJ-9055PL04/2020
Brazil/RJ-9055PL01/2020
Brazil/RJ-9055PL03/2020
Brazil/RJ-9055PL02/2020
Brazil/RJ-NIL4PL02/2020
Brazil/RJ-9052PL02/2020
Brazil/RJ-9052PL03/2020
Brazil/RJ-NIL4PL04/2020
Brazil/RJ-NIL4PL03/2020
Brazil/RJ-NIL4PL01/2020
Brazil/RJ-9052PL01/2020
Brazil/RJ-9052PL04/2020
Brazil/RJ-9054PL01/2020
Brazil/RJ-9054PL03/2020
Brazil/RJ-NIL3PL03/2020
Brazil/RJ-NIL3PL02/2020
Brazil/RJ-9053PL01/2020
Brazil/RJ-9054PL02/2020
Brazil/RJ-9054PL04/2020
Brazil/RJ-NIL2PL01/2020
Brazil/RJ-9051PL04/2020
Brazil/RJ-9051PL01/2020
Brazil/RJ-9051PL02/2020
Brazil/RJ-NIL2PL03/2020
Brazil/RJ-NIL2PL02/2020
Brazil/RJ-NIL5PL03/2020
Brazil/RJ-NIL5PL01/2020
Brazil/RJ-NIL5PL02/2020
Brazil/RJ-NIL3PL04/2020
Brazil/RJ-NIL2PL04/2020
Brazil/RJ-NIL3PL01/2020
Brazil/RJ-NIL1PL04/2020
Brazil/RJ-NIL1PL01/2020
Brazil/RJ-NIL1PL03/2020
Russia/MOW-PMVL-31/2020
Russia/MOW-PMVL-32/2020
Russia/MOW-PMVL-33/2020
Russia/MOW-PMVL-34/2020
Russia/MOW-PMVL-35/2020
Russia/MOW-PMVL-36/2020
Russia/MOW-PMVL-37/2021
Russia/MOW-PMVL-38/2021
Russia/MOW-PMVL-39/2021
Russia/MOW-PMVL-40/2021
Russia/MOW-PMVL-41/2021
Russia/MOW-PMVL-42/2021
Russia/MOW-PMVL-43/2021
Russia/MOW-PMVL-44/2021
Russia/MOW-PMVL-45/2021
Russia/MOW-PMVL-46/2021
USA/CT-Yale-3362/2021
USA/CT-Yale-3363/2021
USA/CT-Yale-3365/2021
South Africa/Yale-3366/2020
Austria/Graz-MUG20/2020
England/360655_A5_P1/2021
Netherlands/Leiden-0001/2020
#Tb1Lu
Russia/Nsk-FRCFTM-1-15a/2020
#V76/2
mink/USA/OR-20-034329-010/2020
mink/Poland/01965-9/2023
mink/Poland/01965-12/2023
#V1
Russia/SPE-RII-33958V/2020
Russia/NVS-RII-MH1097V/2020
#P4
Brazil/AM-CD1739/2020
India/HR-THSTI2010A/2020
India/HR-THSTI2010B/2020
India/HR-THSTI2010C/2020
India/HR-THSTI2010D/2020
#P2
France/BRE-IPP04392i/2021
French Guiana/IPP03772i/2021
#SPEV
Russia/Nsk-FRCFTM-1-18a/2020
Russia/OMS-ORINFI-4761V-10K/2020
Russia/OMS-ORINFI-4761V-11K/2020
Russia/OMS-ORINFI-4768V-12K/2020
#P3
Jiangsu/JS02/2020
#P5
Turkey/ETLKVET3/2020
# viral culture
Wuhan/IVDC-HB-01/2019
Germany/BY-BIM-Pat2/2020
Germany/BY-BIM-Pat3/2020
Germany/BY-UHR-1ZK/2020
Germany/BY-UHR-2ZK/2020
Germany/BY-UHR-3ZK/2020
Germany/BY-UHR-4ZK/2020
Germany/BY-UHR-5ZK/2020
Germany/BY-UHR-6ZK/2020
Germany/BY-UHR-7ZK/2020
Germany/BY-UHR-8ZK/2020
Germany/BY-UHR-9ZK/2020
Germany/BY-UHR-10ZK/2020
Germany/BAV-PL-virotum_8uyc/2020
Germany/BAV-PL-virotum_jvlo/2020
USA/MA-CDC-9TWO-1383/2020
USA/MA-CDC-9TWQ-1385/2020
USA/MA-CDC-9TWS-1387/2020
USA/FL-CDC-9TWU-1389/2020

# Excluded for cell-passage history, with specific mention of Vero cells
India/un-NIV_P1_2020Q100/2020
India/un-NIV_P2_2020Q100/2020
India/un-NIV_P1_2020Q111/2020
India/un-NIV_P2_2020Q111/2020
Romania/IsolateALADd/2020
Romania/IIsolate3247BLVL/2020
Japan/TY8-612-P0/2021
France/IDF-IPP11324i/2020
USA/NY-MSHSPSP-PV14252-p2/2020
Brazil/RJ-FIOCRUZ-4368A1-1P/2020
Italy/APU-IZSPB-820PT/2021
Italy/APU-IZSPB-821PT/2021
Italy/APU-IZSPB-874PT/2021
Indonesia/RSDS-RCVTD-UNAIR-6B/2020
France/OCC-269/2021
Italy/UNIBS-MB61-P1V/2020
Italy/LOM-UNIBS-DB00-P1V/2020
Italy/UNIBS-MG73-P1V/2021
Italy/LOM-UNIBS-KA93-P1V/2021
Brazil/PB-FIOCRUZ-33096-1P/2020
Brazil/RJ-FIOCRUZ-2624-1P/2021
Brazil/AM-FIOCRUZ-3521-1P/2021
Brazil/SP-L10-CAMPI26I/2020
Brazil/SP-L10-CAMPI220I/2020
Taiwan/NTU58/2021
Slovenia/vero-61741-3p/2021
Slovenia/vero-65006-3p/2021
Slovenia/vero-68981-3p/2021
Slovenia/vero-65882-3p/2021
Slovenia/vero-65882-1p/2021
Slovenia/vero-30946-3p/2021
Slovenia/vero-36119-3p/2021
Slovenia/vero-22057-3p/2021
Slovenia/vero-20021-3p/2021
Slovenia/vero-87088-3p/2021
France/ARA-isl135/2020
France/ARA-isl136/2020
France/ARA-isl137/2020
France/ARA-isl138/2020
Brazil/AM-L11-CAMPI230I/2020
Brazil/AM-M1-CAMPI231I/2020
Malaysia/NPHL_100768/2020
Malaysia/NPHL_100760/2020
Malaysia/NPHL_13958/2020
Malaysia/NPHL_14272/2020
Malaysia/NPHL_19269/2020
Malaysia/NPHL_20820/2020
Malaysia/NPHL_21106/2020
Malaysia/NPHL_19105/2020
Malaysia/NPHL_13499/2020
India/WB-ICMR-30500903_P2/2021
India/WB-ICMR-30500032_P2/2021
India/WB-ICMR-30500460_P2/2021
India/TG-ICMR-32001642_P2/2021
India/TN-ICMR-NSTI113_P2/2021
India/TN-ICMR-NSTI411_P2/2021
India/TN-ICMR-NSTI437_P2/2021
India/TN-ICMR-NSTI888_P2/2021
India/TN-ICMR-NSTI216_P2/2021
India/TN-ICMR-CHD268_P2/2021
India/MH-ICMR-C80820_P2/2021
India/MH-ICMR-C83319_P2/2021
India/MH-ICMR-C83408_P2/2021
India/MH-ICMR-C83823_P2/2021
India/MH-ICMR-C85394_P2/2021
India/MH-ICMR-22368_P2/2021
India/MH-ICMR-DHB67849_P2/2021
India/DL-ICMR-210562284_P3/2021
India/DL-ICMR-210620796_P3/2021
India/DL-ICMR-210692429_P2/2021
India/DL-ICMR-210710633_P3/2021
India/DL-ICMR-30100082R_P2/2021
India/DL-ICMR-30100657MD_P2/2021
Brazil/RJ-FIOCRUZ-2188-1P/2020
Brazil/RJ-FIOCRUZ-27541-1P/2020
Brazil/RJ-FIOCRUZ-30991-1P/2020
Japan/NIID-patho-20-294-1P0/2020
Japan/NIID-patho-20-301-1P0/2020
Japan/NIID-patho-20-301-2P0/2020
Japan/NIID-patho-20-312-32P0/2020
Japan/NIID-patho-20-312-37P0/2020
Japan/NIID-patho-20-314-41P0/2020
Japan/NIID-patho-20-317-53P0/2020
Japan/NIID-patho-20-285-2P0/2020
Japan/NIID-patho-20-286-1P0/2020
Japan/NIID-patho-20-294-8P0/2020
Italy/LOM-UniMI32/2021
Italy/LOM-UniMI33/2021
Italy/LOM-UniMI34/2021
Italy/LOM-UNIBS-MB61-Day125/2020
Japan/NIID-patho-21-65-1P0/2021
Japan/NIID-patho-21-65-2P0/2021
Japan/NIID-patho-21-65-3P0/2021
South Korea/KUMC04/2020
South Korea/KUMC06/2020
Taiwan/NTU03/2020
USA/FL-UFL-UF1/2020
Turkey/ERAGEM-001/2020
Spain/MD-FISABIO-Vircell001/2020
Russia/StPetersburg-RII4712V/2020
Russia/StPetersburg-RII5017V/2020
Russia/Ulan-Ude-RII4562V/2020
Turkey/VETAL1902_1/2020
France/IDF-CIBU200107/2020
France/HDF-CIBU200132/2020
Vietnam/IBT-14Mar/2020
Croatia/ZG-297-20/2020
Thailand/Nonthaburi_2982/2020
Thailand/Phatum thani_2980/2020
Thailand/Bangkok_2974/2020
Thailand/Bangkok_2972/2020
Thailand/Nakhonnayok_2829/2020
Thailand/Trang_5008/2020
Harbin/HRB-25/2020
Wuhan/ZY38-1/2020
Germany/NI-HCRI-BrZK-1/2020
South Korea/CBNU-nCoV01/2020
Russia/StPetersburg-RII10066V/2020
Russia/StPetersburg-RII11149V/2020
South Korea/KCDC2343/2020
Spain/CT-IrsiCaixa-2020030095/2020
Russia/SPE-RII-10152V/2020
Russia/SPE-RII-10167V/2020
Russia/SPE-RII-10325V/2020
Russia/SPE-RII-11036V/2020
Russia/SPE-RII-11688V/2020
South Korea/IHC3127/2020
Norway/Bergen-01/2020
Gansu/NPRC0003/2020
Beijing/NPRC0004/2020
Switzerland/ZH-UZH-IMV1/2020
Switzerland/ZH-UZH-IMV2/2020
Switzerland/ZH-UZH-IMV3/2020
Switzerland/ZH-UZH-IMV4/2020
Switzerland/ZH-UZH-IMV5/2020
Switzerland/ZH-UZH-IMV6/2020
Switzerland/ZH-UZH-IMV7/2020
Switzerland/ZH-UZH-IMV8/2020
Switzerland/ZH-UZH-IMV9/2020
Switzerland/TG-UZH-IMV10/2020
Switzerland/AG-UZH-IMV11/2020
Switzerland/AG-UZH-IMV12/2020
Switzerland/AG-UZH-IMV13/2020
Switzerland/ZH-UZH-IMV14/2020
Italy/APU-IZSPB-193APT/2020
France/NAQ-isl1/2020
France/NAQ-isl2/2020
Malaysia/IMR-WI194/2020
Malaysia/IMR-W195I/2020
Malaysia/IMR-WI196/2020
Malaysia/IMR-WI205/2020
Malaysia/IMR-WI200/2020
Malaysia/IMR-WI212/2020
Malaysia/IMR-WI213/2020
Germany/BY-IMB11525/2020
Japan/TY7-501/2021
Taiwan/812/2021
Germany/NW-IMB14646/2020
Germany/NW-IMB14660/2020
Germany/NW-IMB14747/2020
Germany/NW-IMB14764/2020
Germany/NW-IMB14752/2020
Germany/NW-IMB14742/2020
Germany/NW-IMB14753/2020
Germany/NW-IMB14644/2020
Germany/NW-IMB14682/2020
Germany/NW-IMB14676/2020
Germany/NW-IMB14754/2020
Germany/NW-IMB14770/2020
Germany/NW-IMB14772/2020
Germany/NW-IMB14657/2020
Germany/NW-IMB14658/2020
Germany/NW-IMB14662/2020
Japan/TY7-503/2021
Germany/NRW-Dusseldorf-B117-G1/2021
Germany/NRW-Dusseldorf-B1351-S11/2021
Beijing/IVDC-Wu-BJ35T/2020
USA/NY-PV08449-P5/2020
France/IDF-0372-P5/2020
USA/CA-SEARCH-5574-P2/2020
USA/CA-SEARCH-5574-P3/2020
Italy/LOM-UNIBS-AP66-P1V/2020
Italy/LOM-UniSR2/2020
Taiwan/NTU59/2021
Taiwan/NTU60/2021
Taiwan/NTU61/2021
Taiwan/NTU62/2021
Russia/MOW-Moscow_PMVL-1-P6/2020
hamster/Russia/MOW-Moscow_PMVL-1-B1/2020
hamster/Russia/MOW-Moscow_PMVL-1-B2/2020
Russia/MOW-Moscow_GGA/2020
Russia/MOW-Moscow_75/2020
Russia/MOW-Moscow_1877/2020
Russia/MOW-Moscow_1569/2020
Russia/MOW-Moscow_1364/2020
Russia/MOW-Moscow_2415/2021
Russia/MOW-Moscow_S/2021
Russia/MOW-Moscow_PS/2020
Spain/CT-IrsiCaixaR014SL1F10/2021
Uruguay/CHY-M531/2021
Malaysia/NPHL_37335/2020
Malaysia/NPHL_14249/2020
USA/PA-VSP1973/2021
USA/PA-VSP1974/2021
USA/PA-VSP1975/2021
Argentina/PAIS-G0234/2021
Brazil/RS-LMM6378/2020
Brazil/RS-LMM14497/2020
Brazil/RS-LMM17042/2020
Brazil/RS-LMM11934/2020
France/OCC-IHAP-VIR12/2020
India/HR-THSTI_UKVTM02/2021
India/HR-THSTI_556/2021
India/HR-THSTI_618/2021
India/HR-THSTI_637/2021
India/HR-THSTI_164566/2021
Brazil/AL-FIOCRUZ-30270-1P/2020
Brazil/AL-FIOCRUZ-33444-1P/2020
Germany/un-FLI-B.1.351/2021
USA/WA-UW-J/2021
Australia/NSW02/2020
Vietnam/19-02S/2020
Vietnam/19-01S/2020
Australia/WA06/2020
Slovenia/808/2020
India/UN-2020763/2020
India/UN-2020770/2020
India/UN-2020772/2020
India/UN-2020773/2020
India/UN-2020777/2020
India/UN-2020781/2020
India/UN-2020c32/2020
Fujian/IM3520002T/2020
Fujian/IM3520003T/2020
Australia/QLDID935/2020
Australia/QLDID936/2020
Turkey/HSGM-674/2020
Turkey/HSGM-1418/2020
Turkey/HSGM-1450/2020
Turkey/HSGM-439/2020
Turkey/HSGM-515/2020
Turkey/HSGM-1049/2020
Turkey/HSGM-1081/2020
Turkey/HSGM-1428/2020
Turkey/HSGM-1468/2020
Turkey/HSGM-302/2020
Turkey/HSGM-510/2020
Turkey/HSGM-942/2020
Turkey/HSGM-1004/2020
Turkey/HSGM-1027/2020
Turkey/HSGM-1444/2020
Turkey/HSGM-1490/2020
Turkey/HSGM-1492/2020
Turkey/HSGM-1497/2020
Turkey/HSGM-1009/2020
Turkey/HSGM-1481/2020
Turkey/HSGM-1476/2020
Turkey/HSGM-1495/2020
Turkey/HSGM-1432/2020
Turkey/HSGM-1458/2020
Turkey/HSGM-7668/2020
Turkey/HSGM-6204/2020
Turkey/HSGM-1452/2020
Turkey/HSGM-1014/2020
Turkey/HSGM-4698/2020
Turkey/HSGM-11640/2020
Turkey/HSGM-10232/2020
Turkey/HSGM-12059/2020
Norway/Trondheim-S4/2020
Norway/Trondheim-S5/2020
Norway/Trondheim-S10/2020
Norway/Trondheim-S12/2020
Norway/Trondheim-S15/2020
Norway/Trondheim-E9/2020
Norway/Trondheim-E10/2020
USA/un-NR-52282/2020
Turkey/Istanbul-BezmCoV1/2020
Russia/Moscow_PMVL-7/2020
Russia/Moscow_PMVL-8/2020
Russia/Moscow_PMVL-9/2020
Russia/Moscow_PMVL-10/2020
Russia/Moscow_PMVL-11/2020
Netherlands/Leiden-0008/2020
Taiwan/NCKUH-008/2020
Brazil/RJ-DCV05/2020
Brazil/RJ-DCV1/2020
Brazil/RJ-DCV3/2020
Brazil/RJ-DCV5/2020
Brazil/RJ-DCVTV507Q/2020
Brazil/RJ-DCVN5/2020
Brazil/RJ-DCVN4/2020
South Korea/KCDC2203/2020
South Korea/KCDC2292/2020
South Korea/KCDC2298/2020
Kazakhstan/KazNAU-NSCEDI-5/2020
Thailand/Bangkok_3001/2020
Thailand/NIH-3013/2020
Thailand/Bangkok_3049/2020
Thailand/Bangkok_3051/2020
Thailand/Bangkok_3055/2020
Thailand/Nonthaburi_3059/2020
Thailand/Nonthaburi_2953/2020
Thailand/Nonthaburi_2966/2020
Thailand/Bangkok_2848/2020
Thailand/Bangkok_2854/2020
Thailand/Bangkok_2857/2020
Thailand/Bangkok_2864/2020
Thailand/Bangkok_2866/2020
Thailand/Bangkok_2867/2020
Reunion/RUN-PIMIT20/2020
Reunion/RUN-PIMIT8/2020
USA/NY-MSK-1Ai/2020
USA/NY-MSK-2Ai/2020
Slovenia/751/2020
Slovenia/810/2020
Slovenia/874/2020
Slovenia/2209/2020
Slovenia/4265/2020
Slovenia/914/2020
Italy/BAS-IZSPB-173APT/2020
South Korea/YS006/2020
South Korea/YS008/2020
Russia/SPE-RII-30769V/2020
India/un-NIV_P1_20203522/2020
India/un-NIV_P1_20203522-1/2020
India/un-NIV_P1_20203523/2020
India/un-NIV_P1_20203524/2020
India/un-NIV_P1_20203545/2020
France/NOR-UCN1/2020
Hungary/532_25/2020
Hungary/532_26/2020
Hungary/534_15/2020
Hungary/533_15/2020
Hungary/533_25/2020
Hungary/534_21/2020
Hungary/534_24/2020
Hungary/534_30/2020
Hungary/79_11/2020
USA/GA-DTVL-4/2020
Taiwan/792/2020
Slovenia/111658_vero/2021
India/TG-CCMB-BB649-P1/2020
Malaysia/IMR_WI040/2021
France/ARA-CHUST-GIMAP-03/2020
France/ARA-CHUST-GIMAP-09/2020
France/ARA-CHUST-GIMAP-10/2020
France/ARA-CHUST-GIMAP-01/2020
France/ARA-CHUST-GIMAP-05/2020
France/ARA-CHUST-GIMAP-06/2020
France/ARA-CHUST-GIMAP-04/2020
France/ARA-CHUST-GIMAP-02/2020
France/ARA-CHUST-GIMAP-08/2020
France/PAC-1299/2021
Malaysia/NPHL_28716/2020
Malaysia/NPHL_19843/2020
Malaysia/IMR_WI072/2021
Malaysia/IMR_WI071/2021
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Hong Kong/HKU-210604-002/2021
Hong Kong/HKU-210604-003/2021
Hong Kong/HKU-210604-004/2021
mink/Belarus/RRPCEM-VIS_2210O/2021
India/AS-DIB_10072/2020
mink/Belarus/RRPCEM-VIS_2216O/2021
Australia/VIC01/2020
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Taiwan/CGMH-CGU-11/2020
Japan/UT-NCGM02/2020
Fujian/IM3520004T/2020
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India/TG-CCMB-L276-P1/2020
India/TG-CCMB-L301-P1/2020
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Russia/Moscow_PMVL-5/2020
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Indonesia/JI-ITD-7061V/2020
Indonesia/JI-ITD-12202V/2020
Spain/MD-H12-52/2020
Spain/MD-H12-53/2020
Spain/MD-H12-54/2020
Italy/LOM-INMI-10734/2020
Italy/PIE-SLL-MS45/2020
Italy/PIE-SLL-MS46/2020
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Mexico/BCN-CICESE-BC2/2020
Mexico/BCN-CICESE-BC5/2020
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South Korea/Chosun-CoV01_NP/2020
South Korea/Chosun-CoV14_NP/2020
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Hungary/2359_5/2020
Hungary/2388_4/2020
Hungary/2407_8/2020
Hungary/2410_23/2020
Hungary/5098_23/2020
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Hungary/5311_24/2020
Hungary/5320_13/2020
Hungary/5298_7/2020
Hungary/5332_30/2020
Hungary/5316_13/2020
Hungary/5319_1/2020
Hungary/5329_4/2020
Hungary/44_3-2/2020
Hungary/2248_18/2020
Hungary/2235_10/2020
Hungary/2214_11/2020
Hungary/2196_22/2020
Hungary/2168_27/2020
Hungary/2149_27/2020
Hungary/2150_12/2020
Hungary/472_11/2020
Hungary/473_31/2020
Hungary/533_14/2020
USA/WA-FIL-0684-NU-1/2020
Malaysia/IMR_WI016/2020
Malaysia/IMR_WI019/2021
Malaysia/IMR_WI021/2021
Slovenia/11454/2021
Russia/MOW-4/2020
Russia/MOW-3272/2020
France/PAC-IHU-2177/2020
Taiwan/CGMH-CGU-59/2021
India/DL-ICMR-210562284_P4/2021
India/DL-ICMR-210710633_P4/2021
India/DL-ICMR-210562284_P5/2021
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India/MH-ICMR-141439869_ISO/2021
India/MH-ICMR-MC40561033_ISO/2021
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Brazil/RJ-FIOCRUZ-31519-1P/2020
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Japan/TY7-937-P0/2021
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South Korea/IHC1215/2020
South Korea/IHC1217/2020
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Henan/HN04/2020
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Vietnam/PIHCM-634/2020
Vietnam/PIHCM-320/2020
Vietnam/PIHCM-457/2020
Vietnam/22/2020
Vietnam/36/2020
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Italy/APU-IZSPB-330PT/2020
Italy/APU-IZSPB-334PT/2020
Italy/APU-IZSPB-335PT/2020
Italy/APU-IZSPB-331PT/2020
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Russia/Moscow_PMVL-18/2020
Russia/Moscow_PMVL-20/2020
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Russia/Moscow_PMVL-22/2020
Russia/Moscow_PMVL-23/2020
Russia/Moscow_PMVL-24/2020
Russia/Moscow_PMVL-25/2020
Russia/Moscow_PMVL-26/2020
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Italy/CAM-INMI-118isl/2020
Taiwan/NTU56/2021
Taiwan/NTU57/2021
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Russia/MOS-RII-MH2803V/2020
Japan/TY8-689-P0/2021
Japan/TY8-005-P0/2021
Japan/TY8-008-P0/2021
Japan/TY8-187-P0/2021
Japan/TY8-995-P0/2021
Japan/TY9-344-P0/2021
Japan/TY9-435-P0/2021
Japan/TY10-395-P1/2021
Japan/TY11-330-P1/2021
Japan/TY11-908-P1/2021
Japan/TY11-912-P1/2021
Japan/TY11-917-P1/2021
Japan/TY11-927-P1/2021
Taiwan/CGMH-CGU-60/2021
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Hangzhou/ZJU-04/2020
Hangzhou/ZJU-06/2020
Thailand/Nonthaburi_3481/2020
Thailand/Nonthaburi_3480/2020
Thailand/Nonthaburi_3479/2020
Thailand/Nonthaburi_3478/2020
Thailand/Nonthaburi_3472/2020
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Thailand/Bangkok_2420/2020
Thailand/Nonthaburi_2472/2020
Thailand/Bangkok_2488/2020
Thailand/Bangkok_2489/2020
Thailand/Bangkok_2504/2020
Thailand/Bangkok_2295/2020
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Italy/TUS-DBM-2/2020
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Turkey/ETLKVET2/2020
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Vietnam/PIHCM-304/2020
Vietnam/PIHCM-321/2020
Vietnam/PIHCM-322/2020
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Vietnam/PIHCM-406/2020
Vietnam/PIHCM-459/2020
Vietnam/PIHCM-461/2020
Thailand/Bangkok-PT388/2020
Thailand/Phuket-SQ-AS23/2020
Thailand/Phuket-SQ-JS21/2020
Thailand/Chonburi-SQ-KC0001/2020
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Thailand/phitsanulok-NT0076/2020
Thailand/phitsanulok-MT0115/2020
Thailand/Bangkok-PH7928/2020
Thailand/Bangkok-Ge04/2020
Thailand/Bangkok-14712/2020
Thailand/Bangkok-14918/2020
Thailand/Bangkok-15401/2020
Thailand/Bangkok-14765/2020
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Thailand/Bangkok-Am01/2020
Thailand/Bangkok-Rat02/2020
Thailand/Bangkok-Ja08/2020
Thailand/Bangkok-Tho07/2020
Thailand/Bangkok-Geo05/2020
Thailand/Bangkok-Ger09/2020
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Taiwan/NTU51/2021
Taiwan/NTU53/2021
Taiwan/NTU55/2021
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Hungary/2597_28/2020
Hungary/2593_3/2020
Hungary/2629_17/2020
Armenia/IMB1-1/2021
Armenia/IMB1-2/2021
Hungary/7216_5/2021
Hungary/7219_5/2021
Hungary/7179_29/2021
Hungary/7119_2/2021
Hungary/7002_5/2021
Hungary/7002_15/2021
Hungary/7204_27/2021
Hungary/6520_14/2020
Russia/Omsk202118_1707/2020
India/OR-ILS06/2020
Hungary/6889_13/2021
Indonesia/JI-RSDS-RCVTD-UNAIR-35-A/2020
Indonesia/JI-RSDS-RCVTD-UNAIR-35-B/2020
Indonesia/JI-RSDS-RCVTD-UNAIR-35-C/2020
Belgium/UGent-509/2020
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Slovenia/57573_VERO/2021
Slovenia/71693_VERO/2021
Slovenia/65882_VERO/2021
Malaysia/IMR_WI048/2021
Netherlands/ZH-EMC-2498/2020
Malaysia/IMR_WI051/2021
Malaysia/IMR_WI057/2021
Belgium/S1871/2020
Italy/LOM-UNIBS-UOI-20210122-PV/2021
France/ARA-CHUST-GIMAP-07/2020
Australia/QLD1672/2021
Malaysia/NPHL_166154/2020
India/DL-ICMR-30100647IST_P2/2021
India/DL-ICMR-PCB2301011CCM_P2/2021
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Brazil/SC-FIOCRUZ-11049-1P/2021
Brazil/AM-FIOCRUZ-34077-1P/2020
Brazil/AM-FIOCRUZ-34075-R1-1P/2020
Brazil/AM-FIOCRUZ-34074-1P/2020
Brazil/BA-FIOCRUZ-33640-1P/2020
India/MH-ICMR-202356035_isolate/2021
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Singapore/4/2020
Singapore/5/2020
Singapore/6/2020
pangolin/Guangxi/P2V/2017
Italy/LAZ-INMI1-isl/2020
France/IDF-0571/2020
France/IDF-0386-islP1/2020
France/IDF-0386-islP3/2020
Italy/FVG-ICGEB-S1/2020
Italy/FVG-ICGEB-S5/2020
Italy/FVG-ICGEB-S8/2020
Italy/FVG-ICGEB-S9/2020
Hong Kong/XM-PII-S4/2020
Italy/LOM-UniMI01/2020
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Malaysia/IMR_WC458/2020
Malaysia/IMR_WC1114/2020
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Germany/NW-IMVUM_FI1103201/2020
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Russia/SPE-RII-9364V/2020
Russia/BA-RII-12-5800V/2020
Russia/BA-RII-21-5809V/2020
Russia/BA-RII-5-5798V/2020
Italy/CAM-CEINGE-5/2020
South Africa/KRISP-K003666/2020
England/2/2020
Germany/BY-ER-1/2020
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Taiwan/CGMH-CGU-31/2020
Taiwan/CGMH-CGU-32/2020
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Malaysia/IMR-WI101/2020
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Malaysia/IMR-WI109/2020
Malaysia/IMR-WI203/2020
Malaysia/IMR-WI206/2020
Thailand/Bangkok_29/2020
Japan/QK002/2020
Japan/QK003/2020
Turkey/HSGM-29784/2020
Turkey/HSGM-29790/2020
Turkey/HSGM-31185/2020
Turkey/HSGM-31227/2020
Turkey/HSGM-31242/2020
Turkey/HSGM-30307/2020
Italy/LAZ-INMI-24/2020
Italy/LAZ-INMI-82isl/2020
Italy/ABR-IZSGC-353970/2020
Italy/MAR-ISS-2302/2020
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Germany/BY-Bochum-1/2020
Indonesia/SU-USU-15NTv/2020
Indonesia/SU-USU-20NTv/2020
Indonesia/SU-USU-22NTv/2020
Indonesia/SU-USU-23NTv/2020
Indonesia/SU-USU-27NTv/2020
Indonesia/SU-USU-31NTv/2020
Indonesia/SU-USU-37NTv/2020
Indonesia/SU-USU-40NTv/2020
Indonesia/SU-USU-41NTv/2020
Indonesia/SU-USU-42NTv/2020
Indonesia/SU-USU-43NTv/2020
Belgium/UGent-506/2020
Belgium/UGent-507/2020
Belgium/UGent-508/2020
Hungary/7081_4/2021
Hungary/7080_21/2021
Hungary/7075_14/2021
Hungary/7065_8/2021
Hungary/7001_12/2021
Hungary/7338_13/2021
Hungary/7295_22/2021
Hungary/6986_24/2021
Hungary/6973_2/2021
Hungary/6939_7/2021
Hungary/6910_6/2021
Hungary/6910_17/2021
Hungary/7134_18/2021
Hungary/7115_4/2021
Hungary/7263_12/2021
Hungary/7262_23/2021
Hungary/7115_7/2021
Hungary/7223_27/2021
Hungary/7204_13/2021
Hungary/7204_11/2021
Hungary/7450_5/2021
Hungary/7443_3/2021
Hungary/7386_27/2021
Hungary/7263_6/2021
Hungary/7287_29/2021
Hungary/7299_18/2021
Hungary/7314_3/2021
Hungary/7337_24/2021
Hungary/7338_9/2021
Malaysia/NPHL_166127/2020
Malaysia/NPHL_166134/2020
Israel/ICVL-12806/2021
Israel/ICVL-12804/2021
Italy/MAR-UnivPM11_64079/2020
Italy/MAR-UnivPM42_47548/2020
Italy/MAR-UnivPM43_47659/2020
Italy/MAR-UnivPM44_49590/2020
Italy/MAR-UnivPM45_52784/2020
Italy/MAR-UnivPM46_56668/2020
Italy/MAR-UnivPM47_55995/2020
Italy/MAR-UnivPM48_31499/2020
Italy/MAR-UnivPM49_36954/2020
Italy/MAR-UnivPM50_37542/2020
Italy/MAR-UnivPM51_38537/2020
Italy/MAR-UnivPM52_39710/2020
Brazil/RS-FIOCRUZ-15291-1P/2020
Brazil/RJ-FIOCRUZ-477i/2020
Russia/StPetersburg-RII4308V/2020
Russia/StPetersburg-RII4382V/2020
Russia/StPetersburg-RII4384V/2020
Russia/StPetersburg-RII4386V/2020
Russia/StPetersburg-RII4532V/2020
Russia/StPetersburg-RII4546V/2020
Spain/CT-IrsiCaixa-JP/2020
Russia/NVS-RII-MH1087V/2020
Italy/APU-IZSPB-98APT/2020
Italy/APU-IZSPB-170APT/2020
Italy/APU-IZSPB-172APT/2020
Taiwan/NTU31/2020
Taiwan/NTU32/2020
Taiwan/NTU33/2020
Taiwan/NTU34/2020
Taiwan/NTU35/2020
Chile/RM-88166-TC1/2020
Italy/MAR-UNIVPM101-75155/2020
Italy/MAR-UNIVPM100-77710/2020
Russia/MOS-PMVL-19/2020
Taiwan/NTU50/2021
Taiwan/NTU52/2021
Indonesia/JI-ITD-25302Nv/2020
Indonesia/JI-ITD-28656Nv/2020
Indonesia/JI-ITD-29089NTv/2020
Indonesia/JI-ITD-29375NTv/2020
Indonesia/JI-ITD-29881NTv/2020
Indonesia/JI-ITD-30338NTv/2020
Indonesia/JI-ITD-30604Nv/2020
Indonesia/JI-ITD-30833Nv/2020
Indonesia/JI-ITD-31235NTv/2020
Hungary/7216_19/2021
Hungary/7216_23/2021
Hungary/7216_4/2021
Hungary/7203_22/2021
Hungary/7205_27/2021
Hungary/7117_3/2021
Hungary/7245_25/2021
Hungary/7224_7/2021
India/OR-ILS03/2020
Henan/HN07/2020
Italy/UMB-IZSGC-130930.1.66/2021
Hong Kong/HKPU-00014/2021
Hong Kong/HKPU-00015/2021
Australia/QLD02-2/2020
Belgium/MBLGcultGD6/2020
cat/Belarus/RRPCEM-VIS_1884O/2021
Taiwan/CGMH-CGU-53/2021
Brazil/SP-L20-CAMPI283/2021
Italy/MAR-UnivPM27_67453/2020
Beijing/WH-09/2020
Russia/Moscow_PMVL-1/2020
South Korea/KCDC2005/2020
South Korea/KCDC2006/2020
South Korea/KCDC2009/2020
South Korea/KCDC2011/2020
South Korea/KCDC2013/2020
South Korea/KCDC2014/2020
France/OCC-5/2020
USA/FL-UF1/2020
Austria/CeMM0358/2020
Austria/CeMM0359/2020
Austria/CeMM0360/2020
Austria/CeMM0362/2020
Austria/CeMM0363/2020
Austria/CeMM0364/2020
Austria/CeMM0365/2020
Thailand/Nonthaburi_59/2020
Thailand/Nonthaburi_68/2020
Thailand/Nonthaburi_193/2020
Thailand/Bangkok_237/2020
Thailand/Bangkok_238/2020
Thailand/Phuket_247/2020
Thailand/Bangkok_269/2020
Thailand/Bangkok_323/2020
Thailand/Nonthaburi_363/2020
Thailand/Bangkok_580/2020
Thailand/Samut prakarn_840/2020
Thailand/Bangkok_1716/2020
Thailand/Bangkok_2294/2020
Harbin/HRB-26/2020
mouse/Harbin/HRB-26m/2020
France/IDF-211-80/2020
France/IDF-221-61/2020
France/IDF-220-95/2020
India/TG-CCMB-J812-P2/2020
India/TG-CCMB-L040-P3/2020
Argentina/PAIS-G0001/2020
USA/FL-UF-5/2020
South Korea/IHC2681/2020
South Korea/IHC3486/2020
env/Qingdao/IVDC-011-10/2020
Beijing/CQ003F/2020
Beijing/HB002F/2020
Beijing/HLJ002F/2020
Beijing/SC012F/2020
Beijing/SC013F/2020
Beijing/SX008F/2020
Beijing/SX009F/2020
Beijing/SX011F/2020
Iran/NIV-P1-Q100/2020
Iran/NIV-P2-Q100/2020
Iran/NIV-P1-Q111/2020
Iran/NIV-P2-Q111/2020
Japan/YCU01/2020
Japan/YCU02/2020
Thailand/Phuket_SQ_AR0013/2020
Thailand/Bangkok_PT386/2020
Taiwan/NTU36/2020
Taiwan/NTU38/2020
Japan/QHN001/2020
Japan/QHN002/2020
Italy/CAM-ISS-2369/2020
France/OCC-IHUCOVID-1647/2020
France/OCC-IHUCOVID-1648/2020
Indonesia/JI-ITDua-8967NTv/2020
Indonesia/JI-ITDua-11000NTv/2020
Indonesia/JI-ITDua-12009NTv/2020
Indonesia/JI-ITDua-12663Nv/2020
Indonesia/JI-ITDua-13686NTv/2020
Indonesia/JI-ITDua-17563Nv/2020
Indonesia/JI-ITDua-18214NTv/2020
Indonesia/JI-ITDua-6647NTv/2020
Indonesia/JI-ITDua-9627NTv/2020
Indonesia/JI-ITDua-12418Nv/2020
Indonesia/JI-ITDua-16761NTv/2020
Indonesia/JI-ITDua-17047NTv/2020
Taiwan/CGMH-CGU-37/2020
Taiwan/CGMH-CGU-38/2020
Taiwan/CGMH-CGU-39/2020
Taiwan/CGMH-CGU-40/2020
Taiwan/CGMH-CGU-41/2020
Taiwan/CGMH-CGU-42/2020
Taiwan/CGMH-CGU-43/2020
Taiwan/CGMH-CGU-44/2020
Taiwan/CGMH-CGU-45/2020
Taiwan/CGMH-CGU-47/2021
Cambodia/1775/2020
Cambodia/1821/2020
Cambodia/1875/2020
Cambodia/1876/2020
Cambodia/2004/2020
Cambodia/2018/2020
Brazil/RJ-9055PL04/2020
Brazil/RJ-9055PL01/2020
Brazil/RJ-9055PL03/2020
Brazil/RJ-9055PL02/2020
Brazil/RJ-NIL4PL02/2020
Brazil/RJ-9052PL02/2020
Brazil/RJ-9052PL03/2020
Brazil/RJ-NIL4PL04/2020
Brazil/RJ-NIL4PL03/2020
Brazil/RJ-NIL4PL01/2020
Brazil/RJ-9052PL01/2020
Brazil/RJ-9052PL04/2020
Brazil/RJ-9054PL01/2020
Brazil/RJ-9054PL03/2020
Brazil/RJ-NIL3PL03/2020
Brazil/RJ-NIL3PL02/2020
Brazil/RJ-9053PL01/2020
Brazil/RJ-9054PL02/2020
Brazil/RJ-9054PL04/2020
Brazil/RJ-NIL2PL01/2020
Brazil/RJ-9051PL04/2020
Brazil/RJ-9051PL01/2020
Brazil/RJ-9051PL02/2020
Brazil/RJ-NIL2PL03/2020
Brazil/RJ-NIL2PL02/2020
Brazil/RJ-NIL5PL03/2020
Brazil/RJ-NIL5PL01/2020
Brazil/RJ-NIL5PL02/2020
Brazil/RJ-NIL3PL04/2020
Brazil/RJ-NIL2PL04/2020
Brazil/RJ-NIL3PL01/2020
Brazil/RJ-NIL1PL04/2020
Brazil/RJ-NIL1PL01/2020
Brazil/RJ-NIL1PL03/2020
Indonesia/SU-USU-16NTv/2020
South Korea/NMC-nCoV02/2020
Japan/TY8-612-P1/2021
Indonesia/JI-ITD-19903NTv/2020
Indonesia/JI-ITD-21907NTv/2020
Indonesia/JI-ITD-24254NTv/2020
Indonesia/JI-ITD-26463NTv/2020
Indonesia/JI-ITD-26529NTv/2020
Indonesia/JI-ITD-19882Nv/2020
Indonesia/JI-ITD-25612Nv/2020
Japan/TY8-065-P0/2021
Brazil/RS-FIOCRUZ-31532-1P/2020
Brazil/RJ-FIOCRUZ-9094-1P/2020
Slovenia/vero-65748-3p/2021
Indonesia/JI-ITD-28533NTv/2020
Indonesia/JI-ITD-28759NTv/2020
Indonesia/JI-ITD-31548NTv/2020
Indonesia/JI-ITD-32113NTv/2020
Indonesia/JI-ITD-36311NTv/2021
Indonesia/JI-ITD-37257NTv/2021
Indonesia/JI-ITD-37619NTv/2021
Indonesia/JI-ITD-38076NTv/2021
Indonesia/JI-ITD-32118NTv/2020
Indonesia/JI-ITD-32173NTv/2020
Indonesia/JI-ITD-32681NTv/2020
Indonesia/JI-ITD-33091Nv/2020
Indonesia/JI-ITD-33120NTv/2020
Indonesia/JI-ITD-34777NTv/2020
Indonesia/JI-ITD-35608Nv/2020
Indonesia/JI-ITD-35800NTv/2020
USA/NJ-NYGC-CVD-110-ICU-436-496/2020
USA/NJ-NYGC-CVD-121-Quest-Pool-1/2020
USA/NJ-NYGC-CVD-122-Quest-Pool-2/2020
USA/NJ-NYGC-CVD-123-Quest-4/2020
USA/NJ-NYGC-CVD-124-Quest-8/2020
Malaysia/NPHL_163809/2020
Malaysia/NPHL_163831/2020
Malaysia/NPHL_165585/2020
Malaysia/NPHL_166119/2020
Taiwan/CGMH-CGU-51/2020
Taiwan/CGMH-CGU-52/2021
Indonesia/JI-ITD-32011NTv/2020
Indonesia/JI-ITD-43158Nv/2021
Indonesia/JI-ITD-41307NTv/2021
Turkey/Istanbul-BezmCoV2/2021
Brazil/SP-L20-CAMPI284/2021
India/MH-ICMR-203520280_isolate/2021
India/MH-ICMR-203512977_isolate/2021
Italy/LOM-UniSR10/2021
Dominican Republic/21877-1P/2021
Dominican Republic/21878-2P/2021
Dominican Republic/21892-2P/2021
Bolivia/15649-3P/2021
Bolivia/15673-3P/2021
Taiwan/NTU02/2020
Guangzhou/IQTC01/2020
Guangzhou/IQTC02/2020
Italy/LOM-ASST-CDG1/2020
Italy/LAZ-INMI-SPL1/2020
Hangzhou/ZJU-07/2020
Vietnam/38142/2020
Vietnam/39607/2020
Vietnam/CM99/2020
Vietnam/CM295/2020
Vietnam/CM296/2020
Hangzhou/ZJU-08/2020
Hangzhou/ZJU-09/2020
Poland/PL_P1/2020
Taiwan/CGMH-CGU-19/2020
Taiwan/8/2020
Taiwan/5/2020
Taiwan/78/2020
Taiwan/58/2020
USA/FL-UF5/2020
Taiwan/CGMH-CGU-26/2020
Taiwan/CGMH-CGU-27/2020
Russia/Moscow_PMVL-6/2020
Taiwan/CGMH-CGU-28/2020
Taiwan/CGMH-CGU-29/2020
Taiwan/CGMH-CGU-30/2020
Brazil/RJ-DCVN3/2020
tiger/USA/NY-P3/2020
tiger/USA/NY-P4/2020
Italy/LOM-UniMI-ICCS1/2020
Italy/LOM-UniMI-ICCS2/2020
Italy/LOM-UniMI-vir1/2020
Italy/LOM-UniMI-ICCS3/2020
Russia/NVS-RII-MH1159V/2020
Russia/MOW-RII-MH1679V/2020
Russia/CE-RII-MH2523V/2020
Russia/CE-RII-MH2636V/2020
Russia/STA-RII-MH2776V/2020
Indonesia/JI-ITDua-4437NTv/2020
Indonesia/JI-ITDua-5235NTv/2020
Indonesia/JI-ITDua-5392NTv/2020
Indonesia/JI-ITDua-5748NTv/2020
Indonesia/JI-ITDua-998NTv/2020
Indonesia/JI-ITDua-16792Nv/2020
Indonesia/JI-ITDua-1006NTv/2020
Indonesia/JI-ITDua-4134NTv/2020
Indonesia/JI-ITDua-12323Nvv/2020
Indonesia/JI-ITDua-6033NTv/2020
Indonesia/JI-ITDua-2858NTv/2020
Indonesia/JI-ITDua-966NTv/2020
Indonesia/JI-ITDua-1609Nv/2020
France/PAC-7b-exUK/2021
Cambodia/2099/2020
Cambodia/2126/2020
Cambodia/2265/2020
Cambodia/2266/2020
Cambodia/2310/2020
Cambodia/2690/2020
Cambodia/2928/2020
Cambodia/3286/2020
Cambodia/3473/2020
Cambodia/3475/2020
Cambodia/5401/2020
Cambodia/5403/2020
Hungary/5168_8/2020
Hungary/5223_3/2020
Hungary/5232_21/2020
Hungary/5177_19/2020
Hungary/5241_20/2020
Hungary/5241_25/2020
Hungary/5244_17/2020
Hungary/4977_1/2020
Hungary/5242_8/2020
Hungary/4944_16/2020
Hungary/5222_4/2020
Hungary/4964_18/2020
Hungary/5216_26/2020
Hungary/4940_30/2020
Hungary/4965_13/2020
Hungary/5190_26/2020
Hungary/5199_24/2020
Hungary/4987_27/2020
Hungary/5181_11/2020
Hungary/5181_12/2020
Hungary/5210_18/2020
Hungary/5217_9/2020
Hungary/5225_29/2020
Hungary/5228_17/2020
Hungary/4987_24/2020
Japan/TY7-338-P1/2020
Japan/TY7-416-P1/2020
Japan/TY7-417-P1/2020
Japan/TY7-999-P0/2021
Japan/TY8-043-P0/2021
Japan/TY8-072-P0/2021
Japan/TY8-112-P0/2021
Japan/TY8-493-P0/2021
Japan/TY8-494-P0/2021
Japan/TY8-496-P0/2021
Japan/TY8-524-P0/2021
Japan/TY8-609-P0/2021
Japan/TY8-886-P0/2021
Japan/TY8-886-P1/2021
cat/Japan/VetC1/2020
Australia/QLD1516/2021
Italy/LOM-UniSR7/2021
Malaysia/NPHL_155020/2020
India/MH-ICMR-184222581/2021
India/un-NCVTC-P50/2020
India/un-NCVTC-P70/2020
India/un-NCVTC-P29/2020
Taiwan/CGMH-CGU-54/2021
Taiwan/CGMH-CGU-55/2021
Taiwan/CGMH-CGU-56/2021
Taiwan/CGMH-CGU-57/2021
Taiwan/CGMH-CGU-58/2021
USA/TX-DSHS-000501/2020
USA/TX-DSHS-000502/2020
USA/TX-DSHS-000503/2020
USA/TX-DSHS-000504/2020
India/DL-ICMR-30100647IST_P_2/2021
India/DL-ICMR-30100647IST_P3/2021
Germany/BY-BHFSA-210226_P12/2020
Germany/BY-BHFSA-210226_P2/2021
Germany/BY-BHFSA-210226_P4/2021
Brazil/RJ-FIOCRUZ-25683-2P/2021
Japan/TY-WK-012/2020
Japan/TY-WK-501/2020
Japan/TY-WK-521/2020
Vietnam/VR03-38142/2020
Japan/KY-V-029/2020
France/IDF-0515-isl/2020
Slovakia/SK-BMC1/2020
Slovakia/SK-BMC2/2020
Slovakia/SK-BMC5/2020
Slovakia/SK-BMC6/2020
Taiwan/NTU04/2020
Taiwan/NTU05/2020
Taiwan/NTU06/2020
Taiwan/NTU07/2020
Taiwan/NTU08/2020
Taiwan/NTU09/2020
Taiwan/NTU11/2020
Taiwan/NTU12/2020
Taiwan/NTU13/2020
Taiwan/NTU14/2020
Taiwan/NTU15/2020
Taiwan/NTU16/2020
Taiwan/NTU17/2020
Taiwan/NTU19/2020
Taiwan/NTU20/2020
Taiwan/NTU21/2020
Zhejiang/HZ103/2020
Taiwan/CGMH-CGU-20/2020
Canada/ON_ON-VIDO-01-2/2020
Brazil/DF-FIOCRUZ-615i/2020
Brazil/DF-FIOCRUZ-619i/2020
Taiwan/299/2020
Taiwan/108/2020
Taiwan/284/2020
Taiwan/NTU10/2020
Taiwan/NTU18/2020
Taiwan/NTU22/2020
Taiwan/NTU23/2020
Taiwan/NTU24/2020
Taiwan/NTU25/2020
Taiwan/NTU26/2020
Taiwan/NTU27/2020
Taiwan/NTU28/2020
Thailand/Bangkok_168/2020
Thailand/Nonthaburi_2520/2020
South Korea/KCDC2061/2020
South Korea/KCDC2062/2020
South Korea/KCDC2063/2020
South Korea/KCDC2064/2020
South Korea/KCDC2065/2020
South Korea/KCDC2066/2020
South Korea/KCDC2074/2020
South Korea/KCDC2095/2020
South Korea/KCDC2097/2020
Italy/APU-UniMI-123PT/2020
Japan/QH-329-037/2020
Brazil/RJ-DCVN2/2020
Spain/MD-HLP-114/2020
Taiwan/NTU30/2020
South Korea/CNUHV03-CA22/2020
Taiwan/NTU37/2020
Germany/BW-Ulm-01/2020
Germany/BW-Ulm-02/2020
Taiwan/NTU54/2021
Wuhan/WH-CD/2020
Hungary/41_4/2020
Hungary/44_3/2020
Hungary/67_9/2020
Hungary/67_13/2020
Thailand/Chiang Rai_AACR7/2021
Thailand/Chiang Rai_TACR10/2021
Thailand/Chiang Rai_TCCR13/2021
Thailand/Chiang Rai_BMCR8/2021
Thailand/Chiang Rai_MSCR15/2021
Italy/LAZ-INMI-216isl/2021
Italy/LAZ-INMI-129isl/2020
Indonesia/RSDS-RCVTD-UNAIR-54-A/2021
Indonesia/RSDS-RCVTD-UNAIR-49-A/2021
Indonesia/RSDS-RCVTD-UNAIR-42-A/2021
Iran/AK-SARS-A7/2020
Indonesia/JB-WJHL-ITB-B24362/2021
France/HDF-SOUCHE01VIRO-LILLE/2020
France/HDF-SOUCHE02VIRO-LILLE/2021
France/HDF-SOUCHE03VIRO-LILLE/2021
Malaysia/NPHL_20015/2020
Malaysia/NPHL_21063/2020
India/MH-ICMR-184222581-P1multiplex/2021
South Korea/Chosun-CoV320_NP-C/2020
South Korea/Chosun-CoV620_SP-C/2020
South Korea/Chosun-CoV635_SP-C/2020
South Korea/Chosun-CoV779_NP-C/2020
South Korea/Chosun-CoV15_NP-C/2021
South Korea/Chosun-CoV58_NP-C/2021
USA/TX-DSHS-000505/2020
USA/TX-DSHS-000506/2020
USA/TX-DSHS-000507/2020
USA/TX-DSHS-000508/2020
USA/TX-DSHS-000509/2020
USA/TX-DSHS-000510/2020
USA/TX-DSHS-000511/2020
USA/TX-DSHS-000512/2020
USA/TX-DSHS-000513/2020
USA/TX-DSHS-000514/2020
USA/TX-DSHS-000515/2020
USA/TX-DSHS-000516/2020
Indonesia/JI-ITD-43153Nv/2021
Indonesia/JI-ITD-43154Nv/2021
Indonesia/JI-ITD-43155Nv/2021
Indonesia/JI-ITD-43156Nv/2021
Indonesia/JI-ITD-43157Nv/2021
Indonesia/JI-ITD-1038NTv/2020
Indonesia/JI-ITD-32072NTv/2020
Indonesia/JI-ITD-39066NTv/2021
Indonesia/JI-ITD-39254NTv/2021
Indonesia/JI-ITD-39660NTv/2021
Indonesia/JI-ITD-39869NTv/2021
Indonesia/JI-ITD-39945NTv/2021
Indonesia/JI-ITD-40187NTv/2021
Indonesia/JI-ITD-40538NTv/2021
Indonesia/JI-ITD-40544NTv/2021
Indonesia/JI-ITD-40618NTv/2021
Indonesia/JI-ITD-43159Nv/2021
Malaysia/WI069/2021
Guangzhou/Zhang Huan/2020
Croatia/4606/2021
Hangzhou/ZJU-01/2020
Hangzhou/ZJU-05/2020
Taiwan/CGMH-CGU-04/2020
Fujian/IM3520001T/2020
Taiwan/CGMH-CGU-21/2020
Taiwan/CGMH-CGU-22/2020
Taiwan/CGMH-CGU-23/2020
Taiwan/CGMH-CGU-24/2020
Russia/StPetersburg-RII6704V/2020
Russia/StPetersburg-RII6790V/2020
Russia/StPetersburg-RII6846V/2020
Russia/Kipen-RII6907V/2020
Russia/StPetersburg-RII7039V/2020
Russia/StPetersburg-RII7318V/2020
Russia/StPetersburg-RII7319V/2020
Russia/StPetersburg-RII7321V/2020
Russia/StPetersburg-RII7340V/2020
Italy/TAA-AMVRC-2629/2020
Italy/SIC-AMVRC-4411/2020
Italy/AVA-AMVRC-4875/2020
Italy/MOL-AMVRC-2389/2020
Italy/AVA-AMVRC-4870/2020
Italy/BAS-UniMI-5062/2020
Italy/ABR-IZSGC-484/2020
Japan/NGS-IA-1/2020
Japan/NGS-IB-2/2020
Japan/NGS-SC-1/2020
Japan/NGS-CD-010/2020
Japan/NGS-CD-024/2020
Japan/NGS-CD-107/2020
Japan/NGS-CD-235/2020
Japan/NGS-CD-292/2020
Japan/NGS-CD-361/2020
Japan/NGS-CD-365/2020
Taiwan/NCKUH-005/2020
Taiwan/NCKUH-006/2020
Taiwan/NCKUH-007/2020
Taiwan/NCKUH-009/2020
Taiwan/NCKUH-010/2020
Taiwan/NCKUH-012/2020
Taiwan/NCKUH-013/2020
Taiwan/NCKUH-014/2020
Taiwan/NCKUH-015/2020
Turkey/ACUTG-1/2020
Turkey/ACUTG-2/2020
Turkey/ACUTG-3/2020
Turkey/ACUTG-4/2020
Turkey/ACUTG-5/2020
Turkey/ACUTG-10/2020
Thailand/NIH_3752/2020
Thailand/NIH_3623/2020
Thailand/NIH_3710/2020
Thailand/NIH_3713/2020
Thailand/NIH_3744/2020
Thailand/NIH-3083/2020
Brazil/RJ-LVM161-2/2020
France/PDL-IPP01065i/2021
Brazil/RJ-FIOCRUZ-5027-1P/2020
Brazil/RJ-FIOCRUZ-2045-1P/2020
Beijing/IVDC-Wu-BJ56Y/2020
Changde/IVDC-Wu-HN97Y/2020
Harbin/IVDC-Wu-Harbin834BY/2020
Belgium/MBLGc7367/2021
Belgium/MBLGc7385/2020
Indonesia/JK-NIHRD-MI01541/2021
Indonesia/JK-NIHRD-C0007980/2021
Indonesia/JK-NIHRD-C0029698/2021
Indonesia/JK-NIHRD-C00102109/2021
Indonesia/JK-NIHRD-MI97501/2021
Indonesia/JI-ITD-38310Nv/2021
Malaysia/NPHL_22444/2020
Malaysia/NPHL_58530/2020
Malaysia/NPHL_14135/2020
Malaysia/NPHL_32884/2020
Malaysia/NPHL_61091/2020
Malaysia/NPHL_98435/2020
Malaysia/NPHL_15210/2020
Italy/LOM-UNIMI2/2021
India/MH-ICMR-184222581_P1/2021
India/MH-ICMR-184222581_P2/2021
India/MH-ICMR-184222581_P3/2021
India/MH-ICMR-184222581_P4/2021
India/GJ-ICMR-2446200029475_P1/2021
India/GJ-ICMR-2446200029475_P2/2021
India/GJ-ICMR-2446200029475_P3/2021
France/PAC-4700/2021
Australia/QLD1894C/2021
Australia/QLD1895C/2020
Australia/QLD1893C/2021
India/MH-ICMR-GSEQ20_P2/2021
India/MH-ICMR-GSEQ287_P2/2021
India/MH-ICMR-GSEQ289_P2/2021
India/MH-ICMR-INT212_P2/2021
India/MH-ICMR-207114583_P2/2021
India/DL-ICMR-210753041_P2/2021
India/MH-ICMR-Int540_ISO/2021
India/MH-ICMR-Gseq474_P2/2021
India/MH-ICMR-Gseq290_P2/2021
India/MH-ICMR-Gseq39_P2/2021
India/MH-ICMR-Gseq34_P2/2021
India/WB-ICMR-224726_P2/2021
India/WB-ICMR-224746_P2/2021
Taiwan/1078/2021
Taiwan/3445/2021
Taiwan/2262/2021
Brazil/AM-M2-CAMPI311/2021
Japan/AI-I-004/2020
France/IDF-0372-isl/2020
Shanghai/SH01/2020
USA/UT-01/2020
USA/UT-03/2020
USA/UT-04/2020
USA/UT-05/2020
USA/UT-06/2020
Malaysia/MKAK-CL-2020-5045/2020
Malaysia/MKAK-CL-2020-5047/2020
Malaysia/MKAK-CL-2020-5049/2020
Malaysia/MKAK-CL-2020-5096/2020
Malaysia/MKAK-CL-2020-6430/2020
Singapore/22/2020
Singapore/23/2020
Singapore/24/2020
Singapore/25/2020
Singapore/26/2020
Singapore/27/2020
Singapore/32/2020
Singapore/33/2020
Russia/Moscow-25I/2020
Russia/Moscow-35I/2020
Italy/FVG-ICGEB-S14/2020
Italy/FVG-ICGEB-S18/2020
Russia/Moscow-62505/2020
Russia/Moscow-62501/2020
Russia/Moscow-62506/2020
Russia/Moscow-62508/2020
Russia/Moscow-62502/2020
Russia/Lipetsk-62704/2020
Russia/Lipetsk-62707/2020
Russia/Krasnodar-63401/2020
Russia/StPetersburg-64304/2020
Russia/Moscow_64405/2020
Russia/Moscow-64601/2020
Russia/Krasnoyarsk-66501/2020
Russia/Moscow-71605/2020
Russia/Sverdlovsk-71904/2020
Russia/Yakutia-73709/2020
Russia/Moscow-67117/2020
Russia/Moscow-71604/2020
Russia/Moscow-71602/2020
Russia/Omsk-89001/2020
Russia/Sverdlovsk-71905/2020
Russia/Khabarovsk-71403/2020
Russia/Moscow-67142/2020
Russia/Moscow-67609/2020
Russia/StPetersburg-73603/2020
Russia/Moscow-77627/2020
Russia/Samara-73406/2020
Russia/Samara-73403/2020
Russia/Moscow-77610/2020
Russia/Yakutia-73703/2020
Russia/Moscow-77620/2020
Russia/Sverdlovsk-71903/2020
Russia/Yakutia-83301/2020
Russia/Krasnodar-80902/2020
Russia/Kabardino-Balkaria-80501/2020
Russia/Buryatia-84506/2020
Russia/Perm-82707/2020
Russia/Vector_84801/2020
Russia/StPetersburg-82005/2020
Russia/Kabardino-Balkaria-80503/2020
Russia/Buryatia-86204/2020
Italy/EMR-AMVRC-206/2020
Malaysia/IMR_WC2423/2020
Malaysia/IMR_WC2453/2020
Malaysia/IMR_WC2665/2020
India/TG-CCMB-L276-P3/2020
India/TG-CCMB-L301-P3/2020
India/TG-CCMB-O2-P4M/2020
India/TG-CCMB-O2-P4S/2020
Hungary/SRC_isolate_2/2020
Italy/CAM-INMI-32798-45/2020
Italy/CAM-INMI-32803-66/2020
Italy/CAM-IZSM-52479-129/2020
Russia/OMS-ORINFI-4761V/2020
Australia/QLD1520/2020
Brazil/RJ-FIOCRUZ-20136-1P/2020
France/OCC-265/2021
France/OCC-266/2021
France/OCC-267/2021
France/OCC-268/2021
Indonesia/RSDS-RCVTD-UNAIR-11-B/2020
Indonesia/RSDS-RCVTD-UNAIR-35-C/2020
Indonesia/RSDS-RCVTD-UNAIR-33-B/2020
Italy/LOM-Pavia-VR10833/2020
Italy/LOM-Pavia-VR10860/2021
Italy/LOM-Pavia-VR10856/2021
USA/PA-VSP0180/2020
USA/PA-VSP0181/2020
USA/PA-VSP0182/2020
USA/PA-VSP0183/2020
USA/PA-VSP0262/2020
USA/PA-VSP0263/2020
Spain/CT-IrsiCaixaR008CC8H2/2021
Spain/CT-IrsiCaixaR008CC8A3/2021
Spain/CT-IrsiCaixaR008CC8B3/2021
Indonesia/JB-IRCVS-IAARD-KSN/2020
India/DL-ICMR-210562284/2021
India/DL-ICMR-210620796/2021
India/DL-ICMR-210710633/2021
India/DL-ICMR-210684403/2021
Taiwan/CGMH-CGU-61/2021
Taiwan/CGMH-CGU-62/2021
Taiwan/CGMH-CGU-63/2021
India/MH-ICMR-LTMGH211643_ISO/2021
India/MH-ICMR-11495446_P1/2021
India/MH-ICMR-GSEQ143_P2/2021
India/MH-ICMR-GSEQ422_P2/2021
India/MH-ICMR-GSEQ424_P2/2021
India/MH-ICMR-GSEQ16_P2/2021
Mexico/BCN-CICESE-ALN/2021
Mexico/BCN-CICESE-M1409/2021
Mexico/BCN-CICESE-M1411/2021
Mexico/BCN-CICESE-V1702/2021
Mexico/BCN-CICESE-V1708/2021
Taiwan/1079/2021
Japan/RB21-15-002/2020
Japan/RB21-15-003/2020
Japan/RB21-15-007/2020
Japan/RB21-15-012/2020
Japan/RB21-15-015/2020
Japan/RB21-15-022/2020
Japan/RB21-15-024/2020
Japan/RB21-15-025/2020
Japan/RB21-15-028/2020
Japan/RB21-15-030/2020
Japan/RB21-15-031/2020
Japan/RB21-15-033/2020
Japan/RB21-15-038/2020
Japan/RB21-15-039/2020
Japan/RB21-15-041/2020
Japan/RB21-15-043/2020
Japan/RB21-15-044/2020
Japan/RB21-15-046/2020
Japan/RB21-15-049/2020
South Korea/KCDC03/2020
USA/WA1-A12/2020
USA/WA1-F6/2020
Canada/ON_VIDO-01/2020
South Korea/KUMC02/2020
Singapore/12/2020
Singapore/13/2020
Singapore/14/2020
Malaysia/MKAK-CL-2020-7554/2020
Israel/ISR_IT0320/2020
Israel/ISR_JP0320/2020
Russia/Moscow-80112/2020
Crimea/SRC-80603/2020
Russia/Orenburg-80305/2020
Russia/Primorskiy-79001/2020
Russia/Vector_77628/2020
Russia/Moscow-80402/2020
Russia/Buryatia-84504/2020
Russia/Sakha-89702/2020
Russia/Pskov-83602/2020
Russia/Chechenya-83801/2020
Russia/Khabarovsk-88201/2020
Russia/Buryatia-88903/2020
Russia/Sakhalin-84401/2020
Russia/Buryatia-84508/2020
Russia/Buryatia-87104/2020
Russia/Sverdlovsk-82904/2020
Russia/Chechenya-83803/2020
Russia/Tatarstan-82208/2020
Russia/Novosibirsk-84101/2020
Russia/Buryatia-87106/2020
Russia/Buryatia-87105/2020
Russia/Tver-72601/2020
Russia/Sverdlovsk-86704/2020
Russia/Sverdlovsk-84302/2020
Russia/Chelyabinsk-85311/2020
Thailand/Samut Songkhram-0942/2020
Malaysia/IMR-WC9205/2020
Malaysia/IMR-WC9174/2020
Malaysia/IMR-WC9185/2020
Thailand/MUMT-3/2020
Thailand/MUMT-4/2020
Taiwan/NCKUH-002/2020
Taiwan/NCKUH-003/2020
Turkey/Pen07-2/2020
USA/LA-CDC-1264/2020
USA/LA-CDC-1265/2020
USA/LA-CDC-1266/2020
USA/LA-CDC-1267/2020
USA/LA-CDC-1268/2020
USA/LA-CDC-1269/2020
USA/LA-CDC-1270/2020
USA/LA-CDC-1271/2020
USA/LA-CDC-1272/2020
USA/LA-CDC-1273/2020
USA/LA-CDC-1274/2020
USA/LA-CDC-1275/2020
USA/LA-CDC-1276/2020
USA/LA-CDC-1277/2020
USA/LA-CDC-1278/2020
USA/LA-CDC-1279/2020
USA/LA-CDC-1280/2020
USA/LA-CDC-1281/2020
USA/LA-CDC-1282/2020
USA/LA-CDC-1283/2020
USA/LA-CDC-1284/2020
USA/LA-CDC-1285/2020
USA/LA-CDC-1286/2020
USA/LA-CDC-1287/2020
USA/LA-CDC-1288/2020
USA/LA-CDC-1289/2020
USA/LA-CDC-1290/2020
USA/LA-CDC-1291/2020
USA/LA-CDC-1292/2020
USA/LA-CDC-1293/2020
USA/LA-CDC-1294/2020
USA/LA-CDC-1295/2020
USA/LA-CDC-1296/2020
USA/LA-CDC-1297/2020
USA/LA-CDC-1298/2020
USA/LA-CDC-1299/2020
Italy/CAM-IZSM-32830/2020
Russia/Moscow-PMVL-12/2020
South Africa/KRISP-K002868/2020
Italy/ABR-IZSGC-TE100258/2020
France/HDF-IPL/2020
France/PAC-IHU-3113i/2020
France/PAC-IHU-3126i/2020
France/PAC-IHU-3076i/2021

# 3535 French sequences excluded for being passaged through cells
France/HDF-100001685693/2021
France/HDF-100001682857/2021
France/HDF-100001698460/2021
France/HDF-100001683681/2021
France/HDF-100001691104/2021
France/HDF-100001698802/2021
France/HDF-100001684110/2021
France/HDF-100001685687/2021
France/HDF-100001683617/2021
France/HDF-881046350185/2021
France/HDF-100001685112/2021
France/HDF-100001698607/2021
France/HDF-100001638103/2021
France/HDF-100001691294/2021
France/HDF-100001640686/2021
France/HDF-100001693756/2021
France/HDF-100001684429/2021
France/HDF-100001697779/2021
France/HDF-100001684768/2021
France/HDF-881046170234/2021
France/HDF-100001685653/2021
France/HDF-100001698809/2021
France/HDF-100001698790/2021
France/HDF-100001691018/2021
France/HDF-100001693768/2021
France/HDF-100001683517/2021
France/HDF-100001691261/2021
France/HDF-100001683746/2021
France/HDF-100001701918/2021
France/HDF-100001691267/2021
France/HDF-100001689744/2021
France/HDF-100001697406/2021
France/HDF-100001691314/2021
France/HDF-100001691313/2021
France/HDF-100001698536/2021
France/HDF-100001691003/2021
France/HDF-100001691006/2021
France/HDF-100001860848/2021
France/HDF-100001872121/2021
France/HDF-100001873811/2021
France/HDF-100001860792/2021
France/HDF-100001860929/2021
France/HDF-881061350351/2021
France/HDF-100001877214/2021
France/HDF-100001877431/2021
France/HDF-100001877181/2021
France/HDF-100001872040/2021
France/HDF-100001877257/2021
France/HDF-100001877205/2021
France/HDF-100001874640/2021
France/HDF-100001860884/2021
France/HDF-100001877242/2021
France/HDF-100001860828/2021
France/HDF-881062350059/2021
France/HDF-100001860959/2021
France/HDF-100001877177/2021
France/HDF-100001877193/2021
France/HDF-100001875381/2021
France/HDF-100001860783/2021
France/HDF-100001860883/2021
France/HDF-100001872996/2021
France/HDF-100001877253/2021
France/HDF-100001877195/2021
France/HDF-100001860867/2021
France/HDF-100001877207/2021
France/HDF-100001875379/2021
France/HDF-100001877176/2021
France/HDF-100001877258/2021
France/HDF-100001877212/2021
France/HDF-100001860870/2021
France/HDF-100001860827/2021
France/HDF-100001873812/2021
France/HDF-100001877180/2021
France/HDF-100001871997/2021
France/HDF-100001860865/2021
France/HDF-100001860850/2021
France/HDF-100001877240/2021
France/HDF-100001876900/2021
France/HDF-100001875394/2021
France/HDF-100001860793/2021
France/HDF-881061350355/2021
France/HDF-100001872106/2021
France/HDF-881061350091/2021
France/HDF-100001877194/2021
France/HDF-881061350356/2021
France/HDF-100001877197/2021
France/HDF-100001875399/2021
France/HDF-100001854558/2021
France/HDF-100001854531/2021
France/HDF-100001877218/2021
France/HDF-100001854549/2021
France/HDF-100001877434/2021
France/HDF-100001877228/2021
France/HDF-100001860936/2021
France/HDF-100001877210/2021
France/HDF-100001872142/2021
France/HDF-100001872043/2021
France/HDF-100001877426/2021
France/HDF-100001875382/2021
France/HDF-100001876946/2021
France/HDF-100001860785/2021
France/HDF-100001877165/2021
France/HDF-100001860866/2021
France/HDF-100001858436/2021
France/HDF-100001860840/2021
France/HDF-100001860855/2021
France/HDF-100001860958/2021
France/HDF-100001860854/2021
France/HDF-20210322v2h11/2021
France/HDF-20210322v2g6/2021
France/HDF-20210322v2e9/2021
France/HDF-20210322v1d4/2021
France/HDF-20210322v1b7/2021
France/HDF-20210322v3e9/2021
France/HDF-20210322v1a6/2021
France/HDF-20210322v4g4/2021
France/HDF-20210322v1e11/2021
France/HDF-20210322v1h8/2021
France/HDF-20210322v2h7/2021
France/HDF-20210322v4e10/2021
France/HDF-20210322v2b2/2021
France/HDF-20210322v2h6/2021
France/HDF-20210322v4h10/2021
France/HDF-20210322v2f1/2021
France/HDF-20210322v1f9/2021
France/HDF-20210322v3c7/2021
France/HDF-20210322v2g8/2021
France/HDF-20210322v3f8/2021
France/HDF-20210322v1g6/2021
France/HDF-20210322v3h10/2021
France/HDF-20210322v1b6/2021
France/HDF-20210322v1d3/2021
France/HDF-20210322v2f7/2021
France/HDF-20210322v2e6/2021
France/HDF-20210322v2b4/2021
France/HDF-20210322v4f2/2021
France/HDF-20210322v3a6/2021
France/HDF-20210322v2b6/2021
France/HDF-20210322v3c2/2021
France/HDF-20210322v4a5/2021
France/HDF-20210322v4c10/2021
France/HDF-20210322v3g2/2021
France/HDF-20210322v4h2/2021
France/HDF-20210322v2d5/2021
France/HDF-20210322v4a11/2021
France/HDF-20210322v4e11/2021
France/HDF-20210322v3e12/2021
France/HDF-20210322v1b4/2021
France/HDF-20210322v1b5/2021
France/HDF-20210322v3d8/2021
France/HDF-20210322v4d12/2021
France/HDF-20210322v1a10/2021
France/HDF-20210322v4d4/2021
France/HDF-20210322v2d11/2021
France/HDF-20210322v4g7/2021
France/HDF-20210322v4h7/2021
France/HDF-20210322v4g6/2021
France/HDF-20210322v2h10/2021
France/HDF-20210322v2f9/2021
France/HDF-20210322v1e10/2021
France/HDF-20210322v4h8/2021
France/HDF-20210322v1g2/2021
France/HDF-20210322v4e9/2021
France/HDF-20210322v2h9/2021
France/HDF-20210322v2a2/2021
France/HDF-20210322v1g3/2021
France/HDF-20210322v2b9/2021
France/HDF-20210322v1e4/2021
France/HDF-20210322v1e7/2021
France/HDF-20210322v1g9/2021
France/HDF-20210322v2g3/2021
France/HDF-100001860834/2021
France/HDF-100001860835/2021
France/HDF-100001685099/2021
France/HDF-100001685527/2021
France/HDF-100001877211/2021
France/HDF-881061350365/2021
France/HDF-100001877203/2021
France/HDF-100001854590/2021
France/HDF-100001594009/2021
France/HDF-100001601123/2021
France/HDF-100001617289/2021
France/HDF-881039170135/2021
France/HDF-100001691014/2021
France/HDF-100001684510/2021
France/HDF-100001689057/2021
France/HDF-100001683533/2021
France/HDF-100001683536/2021
France/HDF-100001703059/2021
France/HDF-100001685208/2021
France/HDF-100001691263/2021
France/HDF-100001685078/2021
France/HDF-100001696433/2021
France/HDF-100001698678/2021
France/HDF-100001685120/2021
France/HDF-100001693760/2021
France/HDF-100001685192/2021
France/HDF-100001685757/2021
France/HDF-100001691262/2021
France/HDF-100001691283/2021
France/HDF-100001702752/2021
France/HDF-100001691013/2021
France/HDF-100001683697/2021
France/HDF-100001691271/2021
France/HDF-881046170374/2021
France/HDF-100001685082/2021
France/HDF-100001684686/2021
France/HDF-100001691293/2021
France/HDF-100001876893/2021
France/HDF-100001859901/2021
France/HDF-100001875384/2021
France/HDF-100001860615/2021
France/HDF-100001860528/2021
France/HDF-100001877222/2021
France/HDF-100001860933/2021
France/HDF-100001874652/2021
France/HDF-100001860836/2021
France/HDF-100001859899/2021
France/HDF-100001877182/2021
France/HDF-100001854505/2021
France/HDF-100001860932/2021
France/HDF-100001854483/2021
France/HDF-100001877225/2021
France/HDF-100001872165/2021
France/HDF-100001872146/2021
France/HDF-100001876952/2021
France/HDF-100001877174/2021
France/HDF-100001860787/2021
France/HDF-100001860832/2021
France/HDF-100001877135/2021
France/HDF-20210322v1h10/2021
France/HDF-20210322v4b12/2021
France/HDF-20210322v3b12/2021
France/HDF-20210322v2f6/2021
France/HDF-20210322v1h1/2021
France/HDF-20210322v1g12/2021
France/HDF-20210322v1h12/2021
France/HDF-20210322v1e9/2021
France/HDF-20210322v4e4/2021
France/HDF-20210322v1d5/2021
France/HDF-20210322v2d9/2021
France/HDF-20210322v4f7/2021
France/HDF-20210322v3g9/2021
France/HDF-20210322v2c10/2021
France/HDF-20210322v4a4/2021
France/HDF-20210322v2f2/2021
France/HDF-20210322v4f1/2021
France/HDF-20210322v2g9/2021
France/HDF-20210322v2a4/2021
France/HDF-20210322v4h11/2021
France/HDF-20210322v4g9/2021
France/HDF-20210322v2f10/2021
France/HDF-20210322v1f1/2021
France/HDF-20210322v2a10/2021
France/HDF-20210322v2a5/2021
France/HDF-20210322v4b3/2021
France/HDF-20210322v2e3/2021
France/HDF-20210322v2h1/2021
France/HDF-20210322v1c11/2021
France/HDF-20210322v3f1/2021
France/HDF-20210322v1e6/2021
France/HDF-20210322v3d5/2021
France/HDF-20210322v2g2/2021
France/HDF-20210322v4h3/2021
France/HDF-20210322v1d12/2021
France/HDF-20210322v1d1/2021
France/HDF-20210322v1b9/2021
France/HDF-20210322v3g1/2021
France/HDF-20210322v3f7/2021
France/HDF-20210322v2d10/2021
France/HDF-20210322v1h2/2021
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France/HDF-100002521346/2021
France/HDF-100002521347/2021
France/HDF-100002521348/2021
France/HDF-100002521349/2021
France/HDF-100002521351/2021
France/HDF-100002521353/2021
France/HDF-100002521356/2021
France/HDF-100002521359/2021
France/HDF-100002521363/2021
France/HDF-100002521365/2021
France/HDF-100002521369/2021
France/HDF-100002525726/2021
France/HDF-100002532600/2021
France/HDF-100002532601/2021
France/HDF-100002532617/2021
France/HDF-100002532634/2021
France/HDF-100002532635/2021
France/HDF-100002532637/2021
France/HDF-100002532642/2021
France/HDF-100002532649/2021
France/HDF-100002532651/2021
France/HDF-100002532654/2021
France/HDF-100002533932/2021
France/HDF-100002533960/2021
France/HDF-100002533986/2021
France/HDF-100002533990/2021
France/HDF-100002533996/2021
France/HDF-100002534095/2021
France/HDF-100002534096/2021
France/HDF-100002534097/2021
France/HDF-100002534098/2021
France/HDF-100002534099/2021
France/HDF-100002535693/2021
France/HDF-100002535694/2021
France/HDF-100002535695/2021
France/HDF-100002535697/2021
France/HDF-100002535698/2021
France/HDF-100002535699/2021
France/HDF-100002535700/2021
France/HDF-100002535701/2021
France/HDF-100002535702/2021
France/HDF-100002535703/2021
France/HDF-100002535704/2021
France/HDF-100002535705/2021
France/HDF-100002535706/2021
France/HDF-100002535707/2021
France/HDF-100002535708/2021
France/HDF-100002535709/2021
France/HDF-100002535710/2021
France/HDF-100002535711/2021
France/HDF-100002535712/2021
France/HDF-100002535713/2021
France/HDF-100002535714/2021
France/HDF-100002535715/2021
France/HDF-100002535716/2021
France/HDF-100002535717/2021
France/HDF-100002535719/2021
France/HDF-100002535720/2021
France/HDF-100002535721/2021
France/HDF-100002535722/2021
France/HDF-100002535724/2021
France/HDF-100002535725/2021
France/HDF-100002535726/2021
France/HDF-100002535727/2021
France/HDF-100002535729/2021
France/HDF-100002535731/2021
France/HDF-100002535732/2021
France/HDF-100002535733/2021
France/HDF-100002535734/2021
France/HDF-100002535735/2021
France/HDF-100002535756/2021
France/HDF-100002535757/2021
France/HDF-100002535758/2021
France/HDF-100002535759/2021
France/HDF-100002535760/2021
France/HDF-100002535780/2021
France/HDF-1118016738/2021
France/HDF-1118107274/2021
France/HDF-1118016956/2021
France/HDF-100002707109/2021
France/HDF-100002707654/2021
France/HDF-100002701764/2021
France/HDF-100002726111/2021
France/HDF-1118016932/2021
France/HDF-1118017173/2021
France/HDF-100002718115/2021
France/HDF-100002719735/2021
France/HDF-100002726108/2021
France/HDF-1118050214/2021
France/HDF-1068042207/2021
France/HDF-100002725392/2021
France/HDF-100002707122/2021
France/HDF-100002707641/2021
France/HDF-1118034095/2021
France/HDF-1118017280/2021
France/HDF-100002707718/2021
France/HDF-100002707569/2021
France/HDF-100002701771/2021
France/HDF-100002701778/2021
France/HDF-100002717881/2021
France/HDF-100002719687/2021
France/HDF-100002724204/2021
France/HDF-100002726150/2021
France/HDF-100002719681/2021
France/HDF-1118016749/2021
France/HDF-100002706938/2021
France/HDF-100002706940/2021
France/HDF-1117107197/2021
France/HDF-100002726087/2021
France/HDF-100002701819/2021
France/HDF-1117022783/2021
France/HDF-100002701742/2021
France/HDF-100002701837/2021
France/HDF-100002701850/2021
France/HDF-100002701862/2021
France/HDF-100002701927/2021
France/HDF-100002704778/2021
France/HDF-100002704779/2021
France/HDF-100002704780/2021
France/HDF-100002706941/2021
France/HDF-100002707114/2021
France/HDF-100002707127/2021
France/HDF-100002707367/2021
France/HDF-100002707369/2021
France/HDF-100002707370/2021
France/HDF-100002707563/2021
France/HDF-100002707571/2021
France/HDF-100002707597/2021
France/HDF-100002707604/2021
France/HDF-100002707623/2021
France/HDF-100002707653/2021
France/HDF-100002707702/2021
France/HDF-100002707704/2021
France/HDF-100002707709/2021
France/HDF-100002707710/2021
France/HDF-100002707712/2021
France/HDF-100002710933/2021
France/HDF-100002710944/2021
France/HDF-100002710978/2021
France/HDF-100002711009/2021
France/HDF-100002711066/2021
France/HDF-100002711100/2021
France/HDF-100002711252/2021
France/HDF-100002711350/2021
France/HDF-100002711382/2021
France/HDF-100002711404/2021
France/HDF-100002711411/2021
France/HDF-100002711599/2021
France/HDF-100002717877/2021
France/HDF-100002717889/2021
France/HDF-100002718052/2021
France/HDF-100002718063/2021
France/HDF-100002718071/2021
France/HDF-100002718088/2021
France/HDF-100002718093/2021
France/HDF-100002718099/2021
France/HDF-100002718111/2021
France/HDF-100002719645/2021
France/HDF-100002719670/2021
France/HDF-100002719671/2021
France/HDF-100002719682/2021
France/HDF-100002719722/2021
France/HDF-100002719738/2021
France/HDF-100002722963/2021
France/HDF-100002723099/2021
France/HDF-100002725118/2021
France/HDF-100002725394/2021
France/HDF-100002726092/2021
France/HDF-100002726097/2021
France/HDF-100002726101/2021
France/HDF-100002726102/2021
France/HDF-100002726103/2021
France/HDF-100002726104/2021
France/HDF-100002726105/2021
France/HDF-100002726145/2021
France/HDF-100002726152/2021
France/HDF-100002726155/2021
France/HDF-100002726156/2021
France/HDF-1065040861/2021
France/HDF-1066041140/2021
France/HDF-1069018590/2021
France/HDF-1118016744/2021
France/HDF-1118016870/2021
France/HDF-1118016872/2021
France/HDF-1118016931/2021
France/HDF-1118016937/2021
France/HDF-1118016968/2021
France/HDF-1118016980/2021
France/HDF-eluvcriblage06052021c1/2021
France/HDF-eluvcriblage06052021c2/2021
France/HDF-eluvcriblage06052021d10/2021
France/HDF-eluvcriblage06052021d11/2021
France/HDF-eluvcriblage06052021d1/2021
France/HDF-eluvcriblage06052021d3/2021
France/HDF-eluvcriblage06052021d9/2021
France/HDF-eluvcriblage06052021e8/2021
France/HDF-eluvcriblage06052021e9/2021
France/HDF-eluvcriblage06052021f11/2021
France/HDF-eluvcriblage06052021f12/2021
France/HDF-eluvcriblage06052021f9/2021
France/HDF-eluvcriblage06052021g11/2021
France/HDF-eluvcriblage06052021g2/2021
France/HDF-eluvcriblage06052021g5/2021
France/HDF-eluvcriblage06052021g9/2021
France/HDF-eluvcriblage06052021h11/2021
France/HDF-100002806450/2021
France/HDF-100002810754/2021
France/HDF-100002810999/2021
France/HDF-100002823063/2021
France/HDF-100002809183/2021
France/HDF-100002804985/2021
France/HDF-100002810750/2021
France/HDF-100002796914/2021
France/HDF-100002811068/2021
France/HDF-100002811112/2021
France/HDF-100002816539/2021
France/HDF-100002816555/2021
France/HDF-eluvcriblage06052021f10/2021
France/HDF-eluvcriblage06052021f7/2021
France/HDF-100002793228/2021
France/HDF-100002793239/2021
France/HDF-100002793258/2021
France/HDF-100002793275/2021
France/HDF-100002796826/2021
France/HDF-100002796900/2021
France/HDF-100002799482/2021
France/HDF-100002802964/2021
France/HDF-100002802969/2021
France/HDF-100002802970/2021
France/HDF-100002802976/2021
France/HDF-100002802982/2021
France/HDF-100002802983/2021
France/HDF-100002802988/2021
France/HDF-100002802992/2021
France/HDF-100002802995/2021
France/HDF-100002803728/2021
France/HDF-100002806421/2021
France/HDF-100002806431/2021
France/HDF-100002806435/2021
France/HDF-100002806438/2021
France/HDF-100002807506/2021
France/HDF-100002810747/2021
France/HDF-100002810755/2021
France/HDF-100002810757/2021
France/HDF-100002810993/2021
France/HDF-100002810995/2021
France/HDF-100002810996/2021
France/HDF-100002810997/2021
France/HDF-100002811003/2021
France/HDF-100002811004/2021
France/HDF-100002811038/2021
France/HDF-100002811040/2021
France/HDF-100002811044/2021
France/HDF-100002811045/2021
France/HDF-100002811060/2021
France/HDF-100002811061/2021
France/HDF-100002811069/2021
France/HDF-100002811079/2021
France/HDF-100002811082/2021
France/HDF-100002811088/2021
France/HDF-100002811091/2021
France/HDF-100002811117/2021
France/HDF-100002816486/2021
France/HDF-100002816488/2021
France/HDF-100002816534/2021
France/HDF-100002816536/2021
France/HDF-100002816540/2021
France/HDF-100002816543/2021
France/HDF-100002816546/2021
France/HDF-100002818575/2021
France/HDF-100002823057/2021
France/HDF-100002823058/2021
France/HDF-100002823077/2021
France/HDF-100002823079/2021
France/HDF-100002823091/2021
France/HDF-100002823092/2021
France/HDF-100002828212/2021
France/HDF-100002828217/2021
France/HDF-100002828220/2021
France/HDF-100002828228/2021
France/HDF-100002828229/2021
France/HDF-100002828234/2021
France/HDF-100002828237/2021
France/HDF-100002828241/2021
France/HDF-100002828247/2021
France/HDF-100002828248/2021
France/HDF-eluvcriblage06052021a12/2021
France/HDF-eluvcriblage06052021a5/2021
France/HDF-eluvcriblage06052021b6/2021
France/HDF-eluvcriblage06052021b7/2021
France/HDF-eluvcriblage06052021b9/2021
France/HDF-eluvcriblage06052021c12/2021
France/HDF-eluvcriblage06052021d12/2021
France/HDF-eluvcriblage06052021d5/2021
France/HDF-eluvcriblage06052021d8/2021
France/HDF-eluvcriblage06052021e1/2021
France/HDF-eluvcriblage06052021e2/2021
France/HDF-eluvcriblage06052021f1/2021
France/HDF-eluvcriblage06052021f3/2021
France/HDF-eluvcriblage06052021f5/2021
France/HDF-eluvcriblage06052021h5/2021
France/HDF-eluvcriblage06052021h8/2021
France/HDF-100002806428/2021
France/HDF-100002810758/2021
France/HDF-100002811002/2021
France/HDF-100002823105/2021
France/HDF-100002796835/2021
France/HDF-100002811089/2021
France/HDF-100002811118/2021
France/HDF-100002811119/2021
France/HDF-100002811120/2021
France/HDF-100002828214/2021
France/HDF-100002828255/2021
France/HDF-100002828256/2021
France/HDF-100002809186/2021
France/HDF-100002809184/2021
France/HDF-100002828239/2021
France/HDF-100002804975/2021
France/HDF-100002804964/2021
France/HDF-100002793226/2021
France/HDF-100002809188/2021
France/HDF-100002807093/2021
France/HDF-100002796869/2021
France/HDF-eluvcriblage06052021h12/2021
France/HDF-100002796853/2021
France/HDF-100002804967/2021
France/HDF-eluvcriblage06052021h1/2021
France/HDF-100002804966/2021
France/HDF-100002797017/2021
France/HDF-100002811075/2021
France/HDF-eluvcriblage06052021c8/2021
France/HDF-eluvcriblage06052021h6/2021
France/HDF-100002796866/2021
France/HDF-eluvcriblage06052021h10/2021
France/HDF-100002823145/2021
France/HDF-100002828244/2021
France/HDF-100002978750/2021
France/HDF-100002978764/2021
France/HDF-100002978766/2021
France/HDF-100002978767/2021
France/HDF-100002978768/2021
France/HDF-100002978771/2021
France/HDF-100002979614/2021
France/HDF-100002979615/2021
France/HDF-100002979616/2021
France/HDF-100002979617/2021
France/HDF-100002979646/2021
France/HDF-100002980975/2021
France/HDF-100002980977/2021
France/HDF-100002980980/2021
France/HDF-100002980981/2021
France/HDF-100002980983/2021
France/HDF-100002980986/2021
France/HDF-100002980988/2021
France/HDF-100002981550/2021
France/HDF-100002981552/2021
France/HDF-100002981553/2021
France/HDF-100002981554/2021
France/HDF-100002981555/2021
France/HDF-100002981557/2021
France/HDF-100002981558/2021
France/HDF-100002981559/2021
France/HDF-100002981560/2021
France/HDF-100002981561/2021
France/HDF-100002981565/2021
France/HDF-100002981568/2021
France/HDF-100002981575/2021
France/HDF-100002981576/2021
France/HDF-100002981577/2021
France/HDF-100002981578/2021
France/HDF-100002981579/2021
France/HDF-100002981581/2021
France/HDF-100002981582/2021
France/HDF-100002981584/2021
France/HDF-100002981586/2021
France/HDF-100002981588/2021
France/HDF-100002981589/2021
France/HDF-100002981806/2021
France/HDF-100002981807/2021
France/HDF-100002981808/2021
France/HDF-100002981809/2021
France/HDF-100002981810/2021
France/HDF-100002981812/2021
France/HDF-100002981813/2021
France/HDF-100002981815/2021
France/HDF-100002982070/2021
France/HDF-100002982071/2021
France/HDF-100002982072/2021
France/HDF-100002982073/2021
France/HDF-100002982074/2021
France/HDF-100002982075/2021
France/HDF-100002982076/2021
France/HDF-100002982077/2021
France/HDF-100002982078/2021
France/HDF-100002982079/2021
France/HDF-100002982080/2021
France/HDF-100002982081/2021
France/HDF-100002982082/2021
France/HDF-100002982083/2021
France/HDF-100002982084/2021
France/HDF-100002982085/2021
France/HDF-100002982086/2021
France/HDF-100002982094/2021
France/HDF-100002982095/2021
France/HDF-100002982098/2021
France/HDF-100002982099/2021
France/HDF-100002982101/2021
France/HDF-100002982105/2021
France/HDF-100002982107/2021
France/HDF-100002982108/2021
France/HDF-100002982109/2021
France/HDF-100002982115/2021
France/HDF-100002982117/2021
France/HDF-100002982118/2021
France/HDF-100002982119/2021
France/HDF-100002982124/2021
France/HDF-100002982125/2021
France/HDF-100002982126/2021
France/HDF-100002982127/2021
France/HDF-100002982129/2021
France/HDF-100002982130/2021
France/HDF-100002982131/2021
France/HDF-100002982132/2021
France/HDF-100002982133/2021
France/HDF-100002982134/2021
France/HDF-100002982135/2021
France/HDF-100002984931/2021
France/HDF-100002984956/2021
France/HDF-100002984961/2021
France/HDF-100002984988/2021
France/HDF-100002985000/2021
France/HDF-100002985027/2021
France/HDF-100002985045/2021
France/HDF-100002985122/2021
France/HDF-100002985166/2021
France/HDF-100002988278/2021

# passaged; see https://bedfordlab.slack.com/archives/CTZKJC7PZ/p1624988310016900?thread_ts=1624986578.014900&cid=CTZKJC7PZ
Germany/un-FLI-B.1.351/2021

# Divergence, see https://bedfordlab.slack.com/archives/CTZKJC7PZ/p1625040602026000 and following threads
Angola/CERI-KRISP-K013423/2020
Mozambique/CERI-KRISP-K015076/2021
Mozambique/INS-K011777/2020
SouthAfrica/NICD-N3577/2021
USA/LA-EVTL2810/2021
Angola/CERI-KRISP-K013705/2020
USA/LA-EVTL3006/2021
Brazil/AL-FIOCRUZ-33813/2020
Ireland/G-NVRL-g20IRL11348/2020

# date before clade; see https://bedfordlab.slack.com/archives/CTZKJC7PZ/p1625159929044000
HongKong/HKPU-00083/2020
HongKong/HKPU-00084/2020
SierraLeone/SL10/2020
SierraLeone/SL21/2020
USA/AK-PHL6693/2021
USA/AK-PHL6694/2021

# date before clade
Spain/CL-IBV-98029694/2020
Spain/CL-IBV-98029695/2020
Spain/CL-IBV-98029696/2020
Spain/CL-IBV-98029697/2020

# s1 muts
India/MH-NCCS-136584/2021

# divergence; https://bedfordlab.slack.com/archives/CTZKJC7PZ/p1625271629065000
SouthAfrica/NICD-N8965/2021
Iran/T11094/2020
Iran/T11095/2020

# Date, see https://bedfordlab.slack.com/archives/CTZKJC7PZ/p1625466519073100
India/un-IRSHA-CD210871/2020
India/un-IRSHA-CD210927/2020
India/un-IRSHA-CD210929/2020
Japan/PG-50814/2020
Japan/PG-50815/2020
Japan/PG-50816/2020
Japan/PG-50817/2020
Japan/PG-50818/2020
Japan/PG-50819/2020
Japan/PG-50820/2020
USA/CA-CZB-32337/2020
Japan/PG-54688/2020

# Time-series samples, possible duplicates; see https://bedfordlab.slack.com/archives/CTZKJC7PZ/p1625466645073800
Israel/CVL_S11-2/2020
Israel/CVL_S13-2/2020
Israel/CVL_S14-2/2020
Israel/CVL_S15-2/2020
Israel/CVL_S15-3/2020
Israel/CVL_S16-2/2020
Israel/CVL_S16-3/2020
Israel/CVL_S5-2/2020
Israel/CVL_S8-3/2020

# Divergence, see https://bedfordlab.slack.com/archives/CTZKJC7PZ/p1625550603094100
Bulgaria/21BG-EU_003246_Pl29/2021
Bulgaria/21BG-EU_003284_Pl29/2021
Bulgaria/21BG-EU_002988_Pl27/2021
Bulgaria/21BG-EU_003283_Pl29/2021
env/Austria/CeMM3279/2021
Venezuela/LaG6888/2021
France/IDF_HB_112003050333/2020

# Interpreted as duplicates, see https://bedfordlab.slack.com/archives/CTZKJC7PZ/p1625638215114700
Israel/CVL_S1-3/2020
Israel/CVL_S4-3/2020
Israel/CVL_S2-3/2020
Japan/TY5-254-P0/2020
Japan/TY5-258-P0/2020
Japan/TY5-265-P0/2020
Japan/TY5-267-P0/2020
Japan/TY5-268-P0/2020
Japan/TY5-274-P0/2020
Japan/TY5-307-P0/2020
Japan/TY5-329-P0/2020
Japan/TY5-332-P0/2020
Japan/TY5-339-P0/2020
Japan/TY5-340-P0/2020
Japan/TY5-348-P0/2020
Japan/TY5-349-P0/2020
Japan/TY5-356-P0/2020
Japan/TY5-362-P0/2020
Japan/TY5-363-P0/2020
Japan/TY5-364-P0/2020
Japan/TY5-366-P0/2020
Japan/TY5-370-P0/2020
Japan/TY5-372-P0/2020
Japan/TY5-374-P0/2020
Japan/TY5-382-P0/2020
Japan/TY5-388-P0/2020
Japan/TY5-393-P0/2020
Japan/TY5-395-P0/2020

# Date
Niger/16250/2020
USA/CA-SEARCH-103149/2020

# Divergence, see https://bedfordlab.slack.com/archives/CTZKJC7PZ/p1625807838145400
Mozambique/INS-K011813/2020
SouthAfrica/NHLS-UCT-GS-1395-KRISP/2020
SriLanka/CDR132/2021
UnitedArabEmirates/4305/2020
Switzerland/GE-32813021/2020
Mozambique/INS-K011819/2020
Mozambique/INS-K011825/2020
USA/UT-UPHL-2101451232/2020
Spain/MD-IBV-97010024/2020
USA/OH-ODH-SC021545/2020
Bulgaria/21BG-EU_003298_Pl29/2021
Indonesia/SS-NIHRD-WGS002218/2021

# likely wrong year; see https://bedfordlab.slack.com/archives/CTZKJC7PZ/p1626130161190900
Netherlands/ZH-EMC-2817/2020
Netherlands/ZH-EMC-2818/2020
Netherlands/ZH-EMC-2819/2020
Netherlands/ZH-EMC-2820/2020
Netherlands/ZH-EMC-2821/2020

# underdiverged; see https://bedfordlab.slack.com/archives/CTZKJC7PZ/p1626141561192400
Pakistan/JRCGR-KHI20/2020

#divergence; see https://bedfordlab.slack.com/archives/CTZKJC7PZ/p1626219973209600
Denmark/DCGC-63189/2021
USA/TX-HMH-MCoV-34746/2020
USA/TX-HMH-MCoV-34785/2020
USA/TX-HMH-MCoV-34935/2020
hCoV-19/USA/TX-HMH-MCoV-35115/2020
hCoV-19/USA/TX-HMH-MCoV-40891/2020
hCoV-19/Iran/Urmia-931U/2020

# Sample date before clade; see https://bedfordlab.slack.com/archives/CTZKJC7PZ/p1626283782219300
Spain/ML-ISCIII-214384/2020
Sweden/01_SE100_21CS503247/2020

# divergence; see https://bedfordlab.slack.com/archives/CTZKJC7PZ/p1626284382219900
Switzerland/BE-ETHZ-550001/2020
India/WB-1931500893545/2021
hCoV-19/Latvia/906/2020

# mutations; see https://bedfordlab.slack.com/archives/CSKMU6YUC/p1626345645156400
Egypt/CCHE57357-A-13/2020

# divergence see https://bedfordlab.slack.com/archives/CTZKJC7PZ/p1626374502230900
Kuwait/KCCC-90880-3327303/2021
Belgium/UMONS-P02-03101-01/2021
Scotland/QEUH-141F19B/2021

# divergence see https://bedfordlab.slack.com/archives/C0159227X7Y/p1626374687105600
USA/NMDOH-2021083688/2020

# divergence; see https://bedfordlab.slack.com/archives/CTZKJC7PZ/p1626454009239100
India/WB-IICB-027/2020
Brazil/RJ-FUNED-330105720/2020

# dates likely inaccurate; see https://bedfordlab.slack.com/archives/CTZKJC7PZ/p1626714429010200 and https://bedfordlab.slack.com/archives/CTZKJC7PZ/p1627305676060000
France/PAC-IHU-14282-Nova1E/2021
France/PAC-IHU-14283-Nova1E/2021
France/PAC-IHU-14284-Nova1E/2021
France/PAC-IHU-14286-Nova1E/2021
France/PAC-IHU-14288-Nova1E/2021
France/PAC-IHU-14289-Nova1E/2021
France/PAC-IHU-14290-Nova1E/2021
France/PAC-IHU-14291-Nova1E/2021
France/PAC-IHU-14292-Nova1E/2021
France/PAC-IHU-14293-Nova1E/2021
France/PAC-IHU-14294-Nova1E/2021
France/PAC-IHU-14294-Nova2E/2021
France/PAC-IHU-14296-Nova1E/2021
France/PAC-IHU-14298-Nova1E/2021
France/PAC-IHU-14299-Nova1E/2021
France/PAC-IHU-14300-Nova1E/2021
France/PAC-IHU-14301-Nova1E/2021
France/PAC-IHU-14302-Nova1E/2021
France/PAC-IHU-14303-Nova1E/2021
France/PAC-IHU-14304-Nova1E/2021
France/PAC-IHU-14305-Nova1E/2021
France/PAC-IHU-14306-Nova1E/2021
France/PAC-IHU-14307-Nova1E/2021
France/PAC-IHU-14308-Nova1E/2021
France/PAC-IHU-14309-Nova1E/2021
France/PAC-IHU-14310-Nova1E/2021
France/PAC-IHU-14311-Nova1E/2021
France/PAC-IHU-14312-Nova1E/2021
France/PAC-IHU-14314-Nova1E/2021
France/PAC-IHU-14316-Nova1E/2021
France/PAC-IHU-14317-Nova1E/2021
France/PAC-IHU-14318-Nova1E/2021
France/PAC-IHU-14319-Nova1E/2021
France/PAC-IHU-14320-Nova1E/2021
France/PAC-IHU-14321-Nova1E/2021
France/PAC-IHU-14322-Nova1E/2021
France/PAC-IHU-14323-Nova1E/2021
France/PAC-IHU-14324-Nova1E/2021
France/PAC-IHU-14327-Nova1E/2021
France/PAC-IHU-14328-Nova1E/2021
France/PAC-IHU-14329-Nova1E/2021
France/PAC-IHU-14330-Nova1E/2021
France/PAC-IHU-14331-Nova1E/2021
France/PAC-IHU-14332-Nova1E/2021
France/PAC-IHU-14333-Nova1E/2021
France/PAC-IHU-14334-Nova1E/2021
France/PAC-IHU-14335-Nova1E/2021
France/PAC-IHU-14337-Nova1E/2021
France/PAC-IHU-14338-Nova1E/2021
France/PAC-IHU-14339-Nova1E/2021
France/PAC-IHU-14340-Nova1E/2021
France/PAC-IHU-14341-Nova1E/2021
France/PAC-IHU-14341-Nova2E/2021
France/PAC-IHU-14342-Nova2E/2021
France/PAC-IHU-14343-Nova1E/2021
France/PAC-IHU-14345-Nova1E/2021
France/PAC-IHU-14347-Nova1E/2021
France/PAC-IHU-14348-Nova1E/2021
France/PAC-IHU-14349-Nova1E/2021
France/PAC-IHU-14350-Nova1E/2021
France/PAC-IHU-14353-Nova1E/2021
France/PAC-IHU-14355-Nova1E/2021
France/PAC-IHU-14356-Nova1E/2021
France/PAC-IHU-14357-Nova1E/2021
France/PAC-IHU-14358-Nova1E/2021
France/PAC-IHU-14360-Nova1E/2021
France/PAC-IHU-14361-Nova1E/2021
France/PAC-IHU-14362-Nova1E/2021
France/PAC-IHU-14363-Nova1E/2021
France/PAC-IHU-14364-Nova1E/2021
France/PAC-IHU-14365-Nova1E/2021
France/PAC-IHU-14366-Nova1E/2021
France/PAC-IHU-14367-Nova1E/2021
France/PAC-IHU-14368-Nova1E/2021
France/PAC-IHU-14369-Nova1E/2021
France/PAC-IHU-14370-Nova1E/2021
France/PAC-IHU-14373-Nova1E/2021
France/PAC-IHU-14373-Nova2E/2021
France/PAC-IHU-14374-Nova1E/2021
France/PAC-IHU-14375-Nova1E/2021
France/PAC-IHU-14376-Nova1E/2021
France/PAC-IHU-14377-Nova1E/2021
France/PAC-IHU-14378-Nova1E/2021
France/PAC-IHU-14379-Nova1E/2021
France/PAC-IHU-14381-Nova1E/2021
France/PAC-IHU-14382-Nova1E/2021
France/PAC-IHU-14383-Nova1E/2021
France/PAC-IHU-14384-Nova1E/2021
France/PAC-IHU-14385-Nova1E/2021
France/PAC-IHU-14386-Nova1E/2021
France/PAC-IHU-14387-Nova1E/2021
France/PAC-IHU-14388-Nova1E/2021
France/PAC-IHU-14389-Nova1E/2021
France/PAC-IHU-14389-Nova2E/2021
France/PAC-IHU-14393-Nova1E/2021
France/PAC-IHU-14394-Nova1E/2021
France/PAC-IHU-14395-Nova1E/2021
France/PAC-IHU-14396-Nova1E/2021
France/PAC-IHU-14398-Nova1E/2021
France/PAC-IHU-14469-Nova1E/2021
France/PAC-IHU-14470-Nova1E/2021
France/PAC-IHU-14471-Nova1E/2021
France/PAC-IHU-14472-Nova1E/2021
France/PAC-IHU-14473-Nova1E/2021
France/PAC-IHU-14474-Nova1E/2021
France/PAC-IHU-14475-Nova1E/2021
France/PAC-IHU-14477-Nova1E/2021
France/PAC-IHU-14478-Nova1E/2021
France/PAC-IHU-14479-Nova1E/2021
France/PAC-IHU-14480-Nova1E/2021
France/PAC-IHU-14481-Nova1E/2021
France/PAC-IHU-14482-Nova1E/2021
France/PAC-IHU-14483-Nova1E/2021
France/PAC-IHU-14484-Nova1E/2021
France/PAC-IHU-14486-Nova1E/2021
France/PAC-IHU-14487-Nova1E/2021
France/PAC-IHU-14488-Nova1E/2021
France/PAC-IHU-14489-Nova1E/2021
France/PAC-IHU-14490-Nova1E/2021
France/PAC-IHU-14491-Nova1E/2021
France/PAC-IHU-14492-Nova1E/2021
France/PAC-IHU-14493-Nova1E/2021
France/PAC-IHU-14494-Nova1E/2021
France/PAC-IHU-14495-Nova1E/2021
France/PAC-IHU-14497-Nova1E/2021
France/PAC-IHU-14498-Nova1E/2021
France/PAC-IHU-14500-Nova1E/2021
France/PAC-IHU-14502-Nova1E/2021
France/PAC-IHU-14503-Nova1E/2021
France/PAC-IHU-14504-Nova1E/2021
France/PAC-IHU-14505-Nova1E/2021
France/PAC-IHU-14506-Nova1E/2021
France/PAC-IHU-14507-Nova1E/2021
France/PAC-IHU-14508-Nova1E/2021
France/PAC-IHU-14509-Nova1E/2021
France/PAC-IHU-14510-Nova1E/2021
France/PAC-IHU-14511-Nova1E/2021
France/PAC-IHU-14512-Nova1E/2021
France/PAC-IHU-14513-Nova1E/2021
France/PAC-IHU-14514-Nova1E/2021
France/PAC-IHU-14515-Nova1E/2021
France/PAC-IHU-14516-Nova1E/2021
France/PAC-IHU-14517-Nova1E/2021
France/PAC-IHU-14518-Nova1E/2021
France/PAC-IHU-14519-Nova1E/2021
France/PAC-IHU-14520-Nova1E/2021
France/PAC-IHU-14521-Nova1E/2021
France/PAC-IHU-14522-Nova1E/2021
France/PAC-IHU-14523-Nova1E/2021
France/PAC-IHU-14524-Nova1E/2021
France/PAC-IHU-14525-Nova1E/2021
France/PAC-IHU-14526-Nova1E/2021
France/PAC-IHU-14527-Nova1E/2021
France/PAC-IHU-14529-Nova1E/2021
France/PAC-IHU-14530-Nova1E/2021
France/PAC-IHU-14531-Nova1E/2021
France/PAC-IHU-14532-Nova1E/2021
France/PAC-IHU-14533-Nova1E/2021
France/PAC-IHU-14534-Nova1E/2021
France/PAC-IHU-14535-Nova1E/2021
France/PAC-IHU-14536-Nova1E/2021
France/PAC-IHU-14537-Nova1E/2021
France/PAC-IHU-14538-Nova1E/2021
France/PAC-IHU-14539-Nova1E/2021
France/PAC-IHU-14540-Nova1E/2021
France/PAC-IHU-14541-Nova1E/2021
France/PAC-IHU-14542-Nova1E/2021
France/PAC-IHU-14543-Nova1E/2021
France/PAC-IHU-14544-Nova1E/2021
France/PAC-IHU-14545-Nova1E/2021
France/PAC-IHU-14546-Nova1E/2021
France/PAC-IHU-14547-Nova1E/2021
France/PAC-IHU-14548-Nova1E/2021
France/PAC-IHU-14549-Nova1E/2021
France/PAC-IHU-14550-Nova1E/2021
France/PAC-IHU-14551-Nova1E/2021
France/PAC-IHU-14552-Nova1E/2021
France/PAC-IHU-14553-Nova1E/2021
France/PAC-IHU-14555-Nova1E/2021
France/PAC-IHU-14556-Nova1E/2021
France/PAC-IHU-14557-Nova1E/2021
France/PAC-IHU-14558-Nova1E/2021
France/PAC-IHU-14559-Nova1E/2021
France/PAC-IHU-14560-Nova1E/2021
France/PAC-IHU-14561-Nova1E/2021
France/PAC-IHU-14562-Nova1E/2021
France/PAC-IHU-14564-Nova1E/2021
France/PAC-IHU-14565-Nova1E/2021
France/PAC-IHU-14566-Nova1E/2021
France/PAC-IHU-14567-Nova1E/2021
France/PAC-IHU-14568-Nova1E/2021
France/PAC-IHU-14569-Nova1E/2021
France/PAC-IHU-14570-Nova1E/2021
France/PAC-IHU-14571-Nova1E/2021
France/PAC-IHU-14572-Nova1E/2021
France/PAC-IHU-14573-Nova1E/2021
France/PAC-IHU-14574-Nova1E/2021
France/PAC-IHU-14575-Nova1E/2021
France/PAC-IHU-14576-Nova1E/2021
France/PAC-IHU-14577-Nova1E/2021
France/PAC-IHU-14578-Nova1E/2021
France/PAC-IHU-14579-Nova1E/2021
France/PAC-IHU-14580-Nova1E/2021
France/PAC-IHU-14581-Nova1E/2021
France/PAC-IHU-14582-Nova1E/2021
France/PAC-IHU-14583-Nova1E/2021
France/PAC-IHU-14584-Nova1E/2021
France/PAC-IHU-14585-Nova1E/2021
France/PAC-IHU-14586-Nova1E/2021
France/PAC-IHU-14587-Nova1E/2021
France/PAC-IHU-14588-Nova1E/2021
France/PAC-IHU-14589-Nova1E/2021
France/PAC-IHU-14590-Nova1E/2021
France/PAC-IHU-14591-Nova1E/2021
France/PAC-IHU-14592-Nova1E/2021
France/PAC-IHU-14593-Nova1E/2021
France/PAC-IHU-14594-Nova1E/2021
France/PAC-IHU-14595-Nova1E/2021
France/PAC-IHU-14597-Nova1E/2021
France/PAC-IHU-14598-Nova1E/2021
France/PAC-IHU-14599-Nova1E/2021
France/PAC-IHU-14600-Nova1E/2021
France/PAC-IHU-14601-Nova1E/2021
France/PAC-IHU-14602-Nova1E/2021
France/PAC-IHU-14603-Nova1E/2021
France/PAC-IHU-14604-Nova1E/2021
France/PAC-IHU-14605-Nova1E/2021
France/PAC-IHU-14606-Nova1E/2021
France/PAC-IHU-14607-Nova1E/2021
France/PAC-IHU-14609-Nova1E/2021
France/PAC-IHU-14610-Nova1E/2021
France/PAC-IHU-14611-Nova1E/2021
France/PAC-IHU-14613-Nova1E/2021
France/PAC-IHU-14614-Nova1E/2021
France/PAC-IHU-14616-Nova1E/2021
France/PAC-IHU-14617-Nova1E/2021
France/PAC-IHU-14618-Nova1E/2021
France/PAC-IHU-14619-Nova1E/2021
France/PAC-IHU-14620-Nova1E/2021
France/PAC-IHU-14621-Nova1E/2021
France/PAC-IHU-14622-Nova1E/2021
France/PAC-IHU-14623-Nova1E/2021
France/PAC-IHU-14624-Nova1E/2021
France/PAC-IHU-14625-Nova1E/2021
France/PAC-IHU-14626-Nova1E/2021
France/PAC-IHU-14627-Nova1E/2021
France/PAC-IHU-14629-Nova1E/2021
France/PAC-IHU-14630-Nova1E/2021
France/PAC-IHU-14633-Nova1E/2021
France/PAC-IHU-14634-Nova1E/2021
France/PAC-IHU-14635-Nova1E/2021
France/PAC-IHU-14636-Nova1E/2021
France/PAC-IHU-14637-Nova1E/2021
France/PAC-IHU-14638-Nova1E/2021
France/PAC-IHU-14639-Nova1E/2021
France/PAC-IHU-14640-Nova1E/2021
France/PAC-IHU-14641-Nova1E/2021
France/PAC-IHU-14642-Nova1E/2021
France/PAC-IHU-14643-Nova1E/2021
France/PAC-IHU-14645-Nova1E/2021
France/PAC-IHU-14646-Nova1E/2021
France/PAC-IHU-14647-Nova1E/2021
France/PAC-IHU-14648-Nova1E/2021
France/PAC-IHU-14649-Nova1E/2021
France/PAC-IHU-14650-Nova1E/2021
France/PAC-IHU-14651-Nova1E/2021
France/PAC-IHU-14652-Nova1E/2021
France/PAC-IHU-14653-Nova1E/2021
France/PAC-IHU-14654-Nova1E/2021
France/PAC-IHU-14656-Nova1E/2021
France/PAC-IHU-14657-Nova1E/2021
France/PAC-IHU-14658-Nova1E/2021
France/PAC-IHU-14660-Nova1E/2021
France/PAC-IHU-14662-Nova1E/2021
France/PAC-IHU-14663-Nova1E/2021
France/PAC-IHU-14664-Nova1E/2021
France/PAC-IHU-14665-Nova1E/2021
France/PAC-IHU-14666-Nova1E/2021
France/PAC-IHU-14667-Nova1E/2021
France/PAC-IHU-14668-Nova1E/2021
France/PAC-IHU-14670-Nova1E/2021
France/PAC-IHU-14671-Nova1E/2021
France/PAC-IHU-14672-Nova1E/2021
France/PAC-IHU-14673-Nova1E/2021
France/PAC-IHU-14674-Nova1E/2021
France/PAC-IHU-14675-Nova1E/2021
France/PAC-IHU-14676-Nova1E/2021
France/PAC-IHU-14677-Nova1E/2021
France/PAC-IHU-14678-Nova1E/2021
France/PAC-IHU-14679-Nova1E/2021
France/PAC-IHU-14680-Nova1E/2021
France/PAC-IHU-14682-Nova1E/2021
France/PAC-IHU-14683-Nova1E/2021
France/PAC-IHU-14684-Nova1E/2021
France/PAC-IHU-14685-Nova1E/2021
France/PAC-IHU-14687-Nova1E/2021
France/PAC-IHU-14688-Nova1E/2021
France/PAC-IHU-14690-Nova1E/2021
France/PAC-IHU-14691-Nova1E/2021
France/PAC-IHU-14692-Nova1E/2021
France/PAC-IHU-14693-Nova1E/2021
France/PAC-IHU-14694-Nova1E/2021
France/PAC-IHU-14697-Nova1E/2021
France/PAC-IHU-14698-Nova1E/2021
France/PAC-IHU-14699-Nova1E/2021
France/PAC-IHU-14701-Nova1E/2021
France/PAC-IHU-14702-Nova1E/2021
France/PAC-IHU-14703-Nova1E/2021
France/PAC-IHU-14704-Nova1E/2021
France/PAC-IHU-14705-Nova1E/2021
France/PAC-IHU-14707-Nova1E/2021
France/PAC-IHU-14708-Nova1E/2021
France/PAC-IHU-14709-Nova1E/2021
France/PAC-IHU-14710-Nova1E/2021
France/PAC-IHU-14712-Nova1E/2021
France/PAC-IHU-14713-Nova1E/2021
France/PAC-IHU-14714-Nova1E/2021
France/PAC-IHU-14715-Nova1E/2021
France/PAC-IHU-14716-Nova1E/2021
France/PAC-IHU-14719-Nova1E/2021
France/PAC-IHU-14720-Nova1E/2021
France/PAC-IHU-14721-Nova1E/2021
France/PAC-IHU-14722-Nova1E/2021
France/PAC-IHU-14723-Nova1E/2021
France/PAC-IHU-14724-Nova1E/2021
France/PAC-IHU-14725-Nova1E/2021
France/PAC-IHU-14726-Nova1E/2021
France/PAC-IHU-14727-Nova1E/2021
France/PAC-IHU-14728-Nova1E/2021
France/PAC-IHU-14729-Nova1E/2021
France/PAC-IHU-14730-Nova1E/2021
France/PAC-IHU-14731-Nova1E/2021
France/PAC-IHU-14732-Nova1E/2021
France/PAC-IHU-14733-Nova1E/2021
France/PAC-IHU-14734-Nova1E/2021
France/PAC-IHU-14736-Nova1E/2021
France/PAC-IHU-14737-Nova1E/2021
France/PAC-IHU-14738-Nova1E/2021
France/PAC-IHU-14739-Nova1E/2021
France/PAC-IHU-14740-Nova1E/2021
France/PAC-IHU-14741-Nova1E/2021
France/PAC-IHU-14742-Nova1E/2021
France/PAC-IHU-14743-Nova1E/2021
France/PAC-IHU-14744-Nova1E/2021
France/PAC-IHU-14745-Nova1E/2021
France/PAC-IHU-14746-Nova1E/2021
France/PAC-IHU-14747-Nova1E/2021
France/PAC-IHU-14748-Nova1E/2021
France/PAC-IHU-14749-Nova1E/2021
France/PAC-IHU-14750-Nova1E/2021
France/PAC-IHU-14752-Nova1E/2021
France/PAC-IHU-14753-Nova1E/2021
France/PAC-IHU-14754-Nova1E/2021
France/PAC-IHU-14755-Nova1E/2021
France/PAC-IHU-14757-Nova1E/2021
France/PAC-IHU-14758-Nova1E/2021
France/PAC-IHU-14759-Nova1E/2021
France/PAC-IHU-14760-Nova1E/2021
France/PAC-IHU-14761-Nova1E/2021
France/PAC-IHU-14762-Nova1M/2021
France/PAC-IHU-14763-Nova1M/2021
France/PAC-IHU-14764-Nova1M/2021
France/PAC-IHU-14765-Nova1M/2021
France/PAC-IHU-14766-Nova1M/2021
France/PAC-IHU-14767-Nova1M/2021
France/PAC-IHU-14769-Nova1M/2021
France/PAC-IHU-14770-Nova1M/2021
France/PAC-IHU-14771-Nova1M/2021
France/PAC-IHU-14772-Nova1M/2021
France/PAC-IHU-14773-Nova1M/2021
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France/PAC-IHU-16339-Nova1M/2021
France/PAC-IHU-16340-Nova1M/2021
France/PAC-IHU-16341-Nova1M/2021
France/PAC-IHU-16343-Nova1M/2021
France/PAC-IHU-16344-Nova1M/2021
France/PAC-IHU-16345-Nova1M/2021
France/PAC-IHU-16346-Nova1M/2021
France/PAC-IHU-16347-Nova1M/2021
France/PAC-IHU-16348-Nova1M/2021
France/PAC-IHU-16349-Nova1M/2021
France/PAC-IHU-16350-Nova1M/2021
France/PAC-IHU-16351-Nova1M/2021
France/PAC-IHU-16352-Nova1M/2021
France/PAC-IHU-16353-Nova1M/2021
France/PAC-IHU-16354-Nova1M/2021
France/PAC-IHU-16355-Nova1M/2021
France/PAC-IHU-16356-Nova1M/2021
France/PAC-IHU-16357-Nova1M/2021
France/PAC-IHU-16358-Nova1M/2021
France/PAC-IHU-16359-Nova1M/2021
France/PAC-IHU-16360-Nova1M/2021
France/PAC-IHU-16361-Nova1M/2021
France/PAC-IHU-16362-Nova1M/2021
France/PAC-IHU-16363-Nova1M/2021
France/PAC-IHU-16364-Nova1M/2021
France/PAC-IHU-16365-Nova1M/2021
France/PAC-IHU-16366-Nova1M/2021
France/PAC-IHU-16367-Nova1M/2021
France/PAC-IHU-16368-Nova1M/2021
France/PAC-IHU-16369-Nova1M/2021
France/PAC-IHU-16370-Nova1M/2021
France/PAC-IHU-16371-Nova1M/2021
France/PAC-IHU-16372-Nova1M/2021
France/PAC-IHU-16373-Nova1M/2021
France/PAC-IHU-16374-Nova1M/2021
France/PAC-IHU-16375-Nova1M/2021
France/PAC-IHU-16376-Nova1M/2021
France/PAC-IHU-16377-Nova1M/2021
France/PAC-IHU-16378-Nova1M/2021
France/PAC-IHU-16379-Nova1M/2021
France/PAC-IHU-16380-Nova1M/2021
France/PAC-IHU-16381-Nova1M/2021
France/PAC-IHU-16382-Nova1M/2021
France/PAC-IHU-16383-Nova1M/2021
France/PAC-IHU-16384-Nova1M/2021
France/PAC-IHU-16385-Nova1M/2021
France/PAC-IHU-16386-Nova1M/2021
France/PAC-IHU-16387-Nova1M/2021
France/PAC-IHU-16388-Nova1M/2021
France/PAC-IHU-16389-Nova1M/2021
France/PAC-IHU-16390-Nova1M/2021
France/PAC-IHU-16391-Nova1M/2021
France/PAC-IHU-16392-Nova1M/2021
France/PAC-IHU-16393-Nova1M/2021
France/PAC-IHU-16394-Nova1M/2021
France/PAC-IHU-16395-Nova1M/2021
France/PAC-IHU-16396-Nova1M/2021
France/PAC-IHU-16397-Nova1M/2021
France/PAC-IHU-16398-Nova1M/2021
France/PAC-IHU-16399-Nova1M/2021
France/PAC-IHU-16400-Nova1M/2021
France/PAC-IHU-16401-Nova1M/2021
France/PAC-IHU-16402-Nova1M/2021
France/PAC-IHU-16403-Nova1M/2021
France/PAC-IHU-16404-Nova1M/2021
France/PAC-IHU-16405-Nova1M/2021
France/PAC-IHU-16406-Nova1M/2021
France/PAC-IHU-16407-Nova1M/2021
France/PAC-IHU-16408-Nova1M/2021
France/PAC-IHU-16409-Nova1M/2021
France/PAC-IHU-16410-Nova1M/2021
France/PAC-IHU-16411-Nova1M/2021
France/PAC-IHU-16412-Nova1M/2021
France/PAC-IHU-16413-Nova1M/2021
France/PAC-IHU-16414-Nova1M/2021
France/PAC-IHU-16415-Nova1M/2021
France/PAC-IHU-16416-Nova1M/2021
France/PAC-IHU-16417-Nova1M/2021
France/PAC-IHU-16418-Nova1M/2021
France/PAC-IHU-16419-Nova1M/2021
France/PAC-IHU-16420-Nova1M/2021
France/PAC-IHU-16421-Nova1M/2021
France/PAC-IHU-16422-Nova1M/2021
France/PAC-IHU-16423-Nova1M/2021
France/PAC-IHU-16424-Nova1M/2021
France/PAC-IHU-16425-Nova1M/2021
France/PAC-IHU-16426-Nova1M/2021
France/PAC-IHU-16427-Nova1M/2021
France/PAC-IHU-16428-Nova1M/2021
France/PAC-IHU-16429-Nova1M/2021
France/PAC-IHU-16430-Nova1M/2021
France/PAC-IHU-16431-Nova1M/2021
France/PAC-IHU-16432-Nova1M/2021
France/PAC-IHU-16433-Nova1M/2021
France/PAC-IHU-16434-Nova1M/2021
France/PAC-IHU-16435-Nova1M/2021
France/PAC-IHU-16436-Nova1M/2021
France/PAC-IHU-16437-Nova1M/2021
France/PAC-IHU-16438-Nova1M/2021
France/PAC-IHU-16439-Nova1M/2021
France/PAC-IHU-16440-Nova1M/2021
France/PAC-IHU-16441-Nova1M/2021
France/PAC-IHU-16442-Nova1M/2021
France/PAC-IHU-16443-Nova1M/2021
France/PAC-IHU-16444-Nova1M/2021
France/PAC-IHU-16445-Nova1M/2021
France/PAC-IHU-16446-Nova1M/2021
France/PAC-IHU-16448-Nova1M/2021
France/PAC-IHU-16449-Nova1M/2021
France/PAC-IHU-16450-Nova1M/2021
France/PAC-IHU-16451-Nova1M/2021
France/PAC-IHU-16452-Nova1M/2021
France/PAC-IHU-16453-Nova1M/2021
France/PAC-IHU-16454-Nova1M/2021
France/PAC-IHU-16455-Nova1M/2021
France/PAC-IHU-16456-Nova1M/2021
France/PAC-IHU-16457-Nova1M/2021
France/PAC-IHU-16459-Nova1M/2021
France/PAC-IHU-16460-Nova1M/2021
France/PAC-IHU-16461-Nova1M/2021
France/PAC-IHU-16462-Nova1M/2021
France/PAC-IHU-16463-Nova1M/2021
France/PAC-IHU-16464-Nova1M/2021
France/PAC-IHU-16466-Nova1M/2021
France/PAC-IHU-16467-Nova1M/2021
France/PAC-IHU-16468-Nova1M/2021
France/PAC-IHU-16469-Nova1M/2021
France/PAC-IHU-16470-Nova1M/2021
France/PAC-IHU-16471-Nova1M/2021
France/PAC-IHU-16472-Nova1M/2021
France/PAC-IHU-16473-Nova1M/2021
France/PAC-IHU-16475-Nova1M/2021
France/PAC-IHU-16476-Nova1M/2021
France/PAC-IHU-16477-Nova1M/2021
France/PAC-IHU-16478-Nova1M/2021
France/PAC-IHU-16479-Nova1M/2021
France/PAC-IHU-16480-Nova1M/2021
France/PAC-IHU-16481-Nova1M/2021
France/PAC-IHU-16482-Nova1M/2021
France/PAC-IHU-16483-Nova1M/2021
France/PAC-IHU-16484-Nova1M/2021
France/PAC-IHU-16485-Nova1M/2021
France/PAC-IHU-16486-Nova1M/2021
France/PAC-IHU-16487-Nova1M/2021
France/PAC-IHU-16488-Nova1M/2021
France/PAC-IHU-16489-Nova1M/2021
France/PAC-IHU-16568-Nova1A/2021
France/PAC-IHU-16569-Nova1A/2021
France/PAC-IHU-16570-Nova1A/2021
France/PAC-IHU-16571-Nova1A/2021
France/PAC-IHU-16572-Nova1A/2021
France/PAC-IHU-16573-Nova1A/2021
France/PAC-IHU-16575-Nova1A/2021
France/PAC-IHU-16576-Nova1A/2021
France/PAC-IHU-16577-Nova1A/2021
France/PAC-IHU-16578-Nova1A/2021
France/PAC-IHU-16579-Nova1A/2021
France/PAC-IHU-16580-Nova1A/2021
France/PAC-IHU-16581-Nova1A/2021
France/PAC-IHU-16582-Nova1A/2021
France/PAC-IHU-16583-Nova1A/2021
France/PAC-IHU-16584-Nova1A/2021
France/PAC-IHU-16585-Nova1A/2021
France/PAC-IHU-16586-Nova1A/2021
France/PAC-IHU-16587-Nova1A/2021
France/PAC-IHU-16588-Nova1A/2021
France/PAC-IHU-16589-Nova1A/2021
France/PAC-IHU-16590-Nova1A/2021
France/PAC-IHU-16592-Nova1A/2021
France/PAC-IHU-16593-Nova1A/2021
France/PAC-IHU-16594-Nova1A/2021
France/PAC-IHU-16595-Nova1A/2021
France/PAC-IHU-16596-Nova1A/2021
France/PAC-IHU-16597-Nova1A/2021
France/PAC-IHU-16598-Nova1A/2021
France/PAC-IHU-16599-Nova1A/2021
France/PAC-IHU-16600-Nova1A/2021
France/PAC-IHU-16601-Nova1A/2021
France/PAC-IHU-16602-Nova1A/2021
France/PAC-IHU-16605-Nova1A/2021
France/PAC-IHU-16606-Nova1A/2021
France/PAC-IHU-16607-Nova1A/2021
France/PAC-IHU-16608-Nova1A/2021
France/PAC-IHU-16609-Nova1A/2021
France/PAC-IHU-16610-Nova1A/2021
France/PAC-IHU-16611-Nova1A/2021
France/PAC-IHU-16612-Nova1A/2021
France/PAC-IHU-16613-Nova1A/2021
France/PAC-IHU-16614-Nova1A/2021
France/PAC-IHU-16615-Nova1A/2021
France/PAC-IHU-16616-Nova1A/2021
France/PAC-IHU-16618-Nova1A/2021
France/PAC-IHU-16620-Nova1A/2021
France/PAC-IHU-16621-Nova1A/2021
France/PAC-IHU-16622-Nova1A/2021
France/PAC-IHU-16624-Nova1A/2021
France/PAC-IHU-16626-Nova1A/2021
France/PAC-IHU-16627-Nova1A/2021
France/PAC-IHU-16628-Nova1A/2021
France/PAC-IHU-16630-Nova1A/2021
France/PAC-IHU-16632-Nova1A/2021
France/PAC-IHU-16633-Nova1A/2021
France/PAC-IHU-16634-Nova1A/2021
France/PAC-IHU-16635-Nova1A/2021
France/PAC-IHU-16636-Nova1A/2021
France/PAC-IHU-16638-Nova1A/2021
France/PAC-IHU-16639-Nova1A/2021
France/PAC-IHU-16641-Nova1A/2021
France/PAC-IHU-16642-Nova1A/2021
France/PAC-IHU-16643-Nova1A/2021
France/PAC-IHU-16644-Nova1A/2021
France/PAC-IHU-16645-Nova1A/2021
France/PAC-IHU-16646-Nova1A/2021
France/PAC-IHU-16647-Nova1A/2021
France/PAC-IHU-16648-Nova1A/2021
France/PAC-IHU-16649-Nova1A/2021
France/PAC-IHU-16650-Nova1A/2021
France/PAC-IHU-16653-Nova1A/2021
France/PAC-IHU-16654-Nova1A/2021
France/PAC-IHU-16655-Nova1A/2021
France/PAC-IHU-16656-Nova1A/2021
France/PAC-IHU-16657-Nova1A/2021
France/PAC-IHU-16658-Nova1A/2021
France/PAC-IHU-16660-Nova1A/2021
France/PAC-IHU-16664-Nova1A/2021
France/PAC-IHU-16665-Nova1A/2021
France/PAC-IHU-16666-Nova1A/2021
France/PAC-IHU-16668-Nova1A/2021
France/PAC-IHU-16669-Nova1A/2021
France/PAC-IHU-16671-Nova1A/2021
France/PAC-IHU-16672-Nova1A/2021
France/PAC-IHU-16673-Nova1A/2021
France/PAC-IHU-16675-Nova1A/2021
France/PAC-IHU-16677-Nova1A/2021
France/PAC-IHU-16679-Nova1A/2021
France/PAC-IHU-16680-Nova1A/2021
France/PAC-IHU-16681-Nova1A/2021
France/PAC-IHU-16682-Nova1A/2021
France/PAC-IHU-16683-Nova1A/2021
France/PAC-IHU-16684-Nova1A/2021
France/PAC-IHU-16685-Nova1A/2021
France/PAC-IHU-16686-Nova1A/2021
France/PAC-IHU-16687-Nova1A/2021
France/PAC-IHU-16688-Nova1A/2021
France/PAC-IHU-16689-Nova1A/2021
France/PAC-IHU-16690-Nova1A/2021
France/PAC-IHU-16691-Nova1A/2021
France/PAC-IHU-16692-Nova1A/2021
France/PAC-IHU-16693-Nova1A/2021
France/PAC-IHU-16694-Nova1A/2021
France/PAC-IHU-16695-Nova1A/2021
France/PAC-IHU-16696-Nova1A/2021
France/PAC-IHU-16697-Nova1A/2021
France/PAC-IHU-16698-Nova1A/2021
France/PAC-IHU-16699-Nova1A/2021
France/PAC-IHU-16700-Nova1A/2021
France/PAC-IHU-16701-Nova1A/2021
France/PAC-IHU-16702-Nova1A/2021
France/PAC-IHU-16703-Nova1A/2021
France/PAC-IHU-16704-Nova1A/2021
France/PAC-IHU-16705-Nova1A/2021
France/PAC-IHU-16706-Nova1A/2021
France/PAC-IHU-16707-Nova1A/2021
France/PAC-IHU-16708-Nova1A/2021
France/PAC-IHU-16709-Nova1A/2021
France/PAC-IHU-16710-Nova1A/2021
France/PAC-IHU-16711-Nova1A/2021
France/PAC-IHU-16712-Nova1A/2021
France/PAC-IHU-16713-Nova1A/2021
France/PAC-IHU-16714-Nova1A/2021
France/PAC-IHU-16715-Nova1A/2021
France/PAC-IHU-16716-Nova1A/2021
France/PAC-IHU-16717-Nova1A/2021
France/PAC-IHU-16718-Nova1A/2021
France/PAC-IHU-16719-Nova1A/2021
France/PAC-IHU-16720-Nova1A/2021
France/PAC-IHU-16721-Nova1A/2021
France/PAC-IHU-16722-Nova1A/2021
France/PAC-IHU-16724-Nova1A/2021
France/PAC-IHU-16725-Nova1A/2021
France/PAC-IHU-16726-Nova1A/2021
France/PAC-IHU-16727-Nova1A/2021
France/PAC-IHU-16728-Nova1A/2021
France/PAC-IHU-16729-Nova1A/2021
France/PAC-IHU-16730-Nova1A/2021
France/PAC-IHU-16731-Nova1A/2021
France/PAC-IHU-16733-Nova1A/2021
France/PAC-IHU-16734-Nova1A/2021
France/PAC-IHU-16735-Nova1A/2021
France/PAC-IHU-16736-Nova1A/2021
France/PAC-IHU-16737-Nova1A/2021
France/PAC-IHU-16738-Nova1A/2021
France/PAC-IHU-16739-Nova1A/2021
France/PAC-IHU-16741-Nova1A/2021
France/PAC-IHU-16742-Nova1A/2021
France/PAC-IHU-16743-Nova1A/2021
France/PAC-IHU-16744-Nova1A/2021
France/PAC-IHU-16745-Nova1A/2021
France/PAC-IHU-16746-Nova1A/2021
France/PAC-IHU-16747-Nova1A/2021
France/PAC-IHU-16748-Nova1A/2021
France/PAC-IHU-16749-Nova1A/2021
France/PAC-IHU-16750-Nova1A/2021
France/PAC-IHU-16751-Nova1A/2021
France/PAC-IHU-16752-Nova1A/2021
France/PAC-IHU-16753-Nova1A/2021
France/PAC-IHU-16754-Nova1A/2021
France/PAC-IHU-16755-Nova1A/2021
France/PAC-IHU-16756-Nova1A/2021
France/PAC-IHU-16757-Nova1A/2021
France/PAC-IHU-16758-Nova1A/2021
France/PAC-IHU-16759-Nova1A/2021
France/PAC-IHU-16760-Nova1A/2021
France/PAC-IHU-16761-Nova1A/2021
France/PAC-IHU-16762-Nova1A/2021
France/PAC-IHU-16763-Nova1A/2021
France/PAC-IHU-16764-Nova1A/2021
France/PAC-IHU-16765-Nova1A/2021
France/PAC-IHU-16766-Nova1A/2021
France/PAC-IHU-16767-Nova1A/2021
France/PAC-IHU-16768-Nova1A/2021
France/PAC-IHU-16769-Nova1A/2021
France/PAC-IHU-16770-Nova1A/2021
France/PAC-IHU-16771-Nova1A/2021
France/PAC-IHU-16772-Nova1A/2021
France/PAC-IHU-16773-Nova1A/2021
France/PAC-IHU-16774-Nova1A/2021
France/PAC-IHU-16775-Nova1A/2021
France/PAC-IHU-16777-Nova1A/2021
France/PAC-IHU-16778-Nova1A/2021
France/PAC-IHU-16779-Nova1A/2021
France/PAC-IHU-16780-Nova1A/2021
France/PAC-IHU-16781-Nova1A/2021
France/PAC-IHU-16783-Nova1A/2021
France/PAC-IHU-16784-Nova1A/2021
France/PAC-IHU-16785-Nova1A/2021
France/PAC-IHU-16786-Nova1A/2021
France/PAC-IHU-16787-Nova1A/2021
France/PAC-IHU-16788-Nova1A/2021
France/PAC-IHU-16789-Nova1A/2021
France/PAC-IHU-16790-Nova1A/2021
France/PAC-IHU-16791-Nova1A/2021
France/PAC-IHU-16792-Nova1A/2021
France/PAC-IHU-16794-Nova1A/2021
France/PAC-IHU-16795-Nova1A/2021
France/PAC-IHU-16796-Nova1A/2021
France/PAC-IHU-16797-Nova1A/2021
France/PAC-IHU-16798-Nova1A/2021
France/PAC-IHU-16799-Nova1A/2021
France/PAC-IHU-16800-Nova1A/2021
France/PAC-IHU-16802-Nova1A/2021
France/PAC-IHU-16803-Nova1A/2021

# Divergence; see https://bedfordlab.slack.com/archives/CTZKJC7PZ/p1626872449026600
Malawi/KRISP-K010155/2021
India/DL-NCDC-709382/2020
India/CH-NCDC-180978/2021
India/ILSGS00947/2021
India/OR-ILSGS01254/2021
India/CH-NCDC-2509329/2021
India/ILSGS00720/2021
India/ILSGS00928/2021

# Excess S1 mutations and reversions
Canada/QC-1nIOU-A9012019/2021

# Duplicates, see https://bedfordlab.slack.com/archives/CTZKJC7PZ/p1627287831055900
Brazil/AM-FIOCRUZ-21321-1P/2021
DominicanRepublic/21895-3P/2021
DominicanRepublic/21901-2P/2021
DominicanRepublic/21916-2P/2021
SouthAfrica/Tygerberg_372/2020
SouthAfrica/Tygerberg_374/2020
SouthAfrica/Tygerberg_376/2020
SouthAfrica/Tygerberg_466/2020
SouthAfrica/Tygerberg_468/2020

# Divergence; see https://bedfordlab.slack.com/archives/CTZKJC7PZ/p1627285903050400
Egypt/NRC-6317/2020
Turkey/HSGM-B18711/2021
Niger/ZR-157/2020

# divergence
Canada/QC-1nJWFTV-3643537/2020

# s1 mutations
Netherlands/Flevoland_1/2020

# s1 mutations
Slovenia/296829/2021

# Divergence
EGY/EGY_CCHE57357_A_51/2020
USA/TX-HMH-MCoV-34879/2020

# Divergence
Canada/QC-1nJWFTV-3642019/2020

# Divergence, https://github.com/nextstrain/ncov/issues/704
Egypt/NRC-6631/2020

# Delta clade issue; see https://bedfordlab.slack.com/archives/CSKMU6YUC/p1628621337014100
Turkey/HSGM-B17222/2021
Turkey/HSGM-B18347/2021
Uzbekistan/376/2021

# Duplicates
Japan/TY10-415-P0/2021
Japan/TY10-416-P0/2021
Japan/TY10-417-P0/2021
Japan/TY10-530-P0/2021
Japan/TY10-531-P0/2021
Japan/TY10-532-P0/2021
Japan/TY10-533-P0/2021
Japan/TY11-108-P0/2021
Japan/TY11-109-P0/2021
Japan/TY11-113-P0/2021
Japan/TY11-115-P0/2021
Japan/TY11-117-P0/2021
Japan/TY14-752-P0/2021
Japan/TY14-753-P0/2021
Japan/TY14-758-P0/2021
Japan/TY14-760-P0/2021
Japan/TY14-763-P0/2021
Japan/TY20-994-P0/2021
Japan/TY25-479-P0/2021
Japan/TY25-481-P0/2021
Japan/TY25-485-P0/2021
Japan/TY26-439-P0/2021
Japan/TY26-442-P0/2021
Japan/TY26-452-P0/2021
Japan/TY26-455-P0/2021
Japan/TY26-460-P0/2021
Japan/TY26-464-P0/2021
Japan/TY26-465-P0/2021
Japan/TY26-586-P0/2021
Japan/TY26-587-P0/2021
Japan/TY26-588-P0/2021
Japan/TY26-589-P0/2021
Japan/TY26-595-P0/2021
Japan/TY26-596-P0/2021
Japan/TY26-598-P0/2021
Japan/TY9-677-P0/2021
Japan/TY9-969-P0/2021
Japan/TY9-974-P0/2021
Japan/TY9-975-P0/2021
Japan/TY9-976-P0/2021
Japan/TY9-977-P0/2021

# Divergence
India/DL-ILBS-17395/2020
SouthKorea/KDCA3859/2020
India/MP-NCDC-2509239/2020
India/AS-1829300261090/2021

# divergence; see https://bedfordlab.slack.com/archives/C0159227X7Y/p1629400240054300
IND/RGCB-LMMD-17/2020
IND/RGCB-LMMD-15/2020

# divergence; see https://bedfordlab.slack.com/archives/CTZKJC7PZ/p1629399228069400
Sweden/10048381/2020
Argentina/PAIS-A0394/2020

# Divergence; see https://bedfordlab.slack.com/archives/CTZKJC7PZ/p1629877765090200
Venezuela/LaG1401/2021
Indonesia/JK-FKUI-MKIM30/2020
Indonesia/JK-FKUI-MKIM26/2020
USA/AZ-TG968459/2020
Indonesia/JK-FKUI-MKIM33/2020
USA/AZ-TG968499/2020
Switzerland/VD-ETHZ-500009/2020

# https://bedfordlab.slack.com/archives/CTZKJC7PZ/p1629990683004500
KOR/SNUH-34/2020

# likely misdating, Overdivergent, or stops
Mexico/AGU-InDRE_FB18599_S4467/2020
Senegal/SC20-504/2020
NorthMacedonia/19400-k/2021
NorthMacedonia/20482-k/2021
NorthMacedonia/42455/2021
Venezuela/Mir8310/2021
USA/TX-HMH-MCoV-41496/2020

# Duplicate BioSample additions
IND/GBRC-362b/2020	# Strain has same BioSample accession (SAMN15941280) as IND/GBRC-362a/2020
IND/GBRC-366b/2020	# Strain has same BioSample accession (SAMN15941284) as IND/GBRC-366a/2020
IND/GBRC-368b/2020	# Strain has same BioSample accession (SAMN15941286) as IND/GBRC-368a/2020
IND/GBRC-374b/2020	# Strain has same BioSample accession (SAMN15941292) as IND/GBRC-374a/2020
IND/GBRC-376b/2020	# Strain has same BioSample accession (SAMN15941294) as IND/GBRC-376a/2020
IND/GBRC-377b/2020	# Strain has same BioSample accession (SAMN15941295) as IND/GBRC-377a/2020
IND/GBRC-380b/2020	# Strain has same BioSample accession (SAMN15941298) as IND/GBRC-380a/2020
IND/GBRC-382b/2020	# Strain has same BioSample accession (SAMN15941300) as IND/GBRC-382a/2020
IND/GBRC-383b/2020	# Strain has same BioSample accession (SAMN15941301) as IND/GBRC-383a/2020
IND/GBRC-384b/2020	# Strain has same BioSample accession (SAMN15941302) as IND/GBRC-384a/2020
IND/GBRC-386b/2020	# Strain has same BioSample accession (SAMN15941304) as IND/GBRC-386a/2020
IND/GBRC-389b/2020	# Strain has same BioSample accession (SAMN15941307) as IND/GBRC-389a/2020
IND/GBRC-390b/2020	# Strain has same BioSample accession (SAMN15941308) as IND/GBRC-390a/2020
IND/GBRC-391b/2020	# Strain has same BioSample accession (SAMN15941309) as IND/GBRC-391a/2020
IND/GBRC-392b/2020	# Strain has same BioSample accession (SAMN15941310) as IND/GBRC-392a/2020
IND/GBRC-394b/2020	# Strain has same BioSample accession (SAMN15941312) as IND/GBRC-394a/2020
IND/GBRC-395b/2020	# Strain has same BioSample accession (SAMN15941313) as IND/GBRC-395a/2020
IND/GBRC150b/2020	# Strain has same BioSample accession (SAMN15150574) as IND/GBRC150a/2020
IND/GBRC169b/2020	# Strain has same BioSample accession (SAMN15232865) as IND/GBRC169a/2020
IND/GBRC170b/2020	# Strain has same BioSample accession (SAMN15232866) as IND/GBRC170a/2020
IND/GBRC173b/2020	# Strain has same BioSample accession (SAMN15232869) as IND/GBRC173a/2020
IND/GBRC174b/2020	# Strain has same BioSample accession (SAMN15232870) as IND/GBRC174a/2020
IND/GBRC177b/2020	# Strain has same BioSample accession (SAMN15232873) as IND/GBRC177a/2020
IND/GBRC178b/2020	# Strain has same BioSample accession (SAMN15232874) as IND/GBRC178a/2020
IND/GBRC179b/2020	# Strain has same BioSample accession (SAMN15232875) as IND/GBRC179a/2020
IND/GBRC180b/2020	# Strain has same BioSample accession (SAMN15232876) as IND/GBRC180a/2020
IND/GBRC181b/2020	# Strain has same BioSample accession (SAMN15232877) as IND/GBRC181a/2020
IND/GBRC182b/2020	# Strain has same BioSample accession (SAMN15232878) as IND/GBRC182a/2020
IND/GBRC183b/2020	# Strain has same BioSample accession (SAMN15232879) as IND/GBRC183a/2020
IND/GBRC185b/2020	# Strain has same BioSample accession (SAMN15312003) as IND/GBRC185a/2020
IND/GBRC186b/2020	# Strain has same BioSample accession (SAMN15312004) as IND/GBRC186a/2020
IND/GBRC187b/2020	# Strain has same BioSample accession (SAMN15312005) as IND/GBRC187a/2020
IND/GBRC191b/2020	# Strain has same BioSample accession (SAMN15312009) as IND/GBRC191a/2020
IND/GBRC193b/2020	# Strain has same BioSample accession (SAMN15312011) as IND/GBRC193a/2020
IND/GBRC194b/2020	# Strain has same BioSample accession (SAMN15355114) as IND/GBRC194a/2020
IND/GBRC195b/2020	# Strain has same BioSample accession (SAMN15312012) as IND/GBRC195a/2020
IND/GBRC201b/2020	# Strain has same BioSample accession (SAMN15312018) as IND/GBRC201a/2020
IND/GBRC203b/2020	# Strain has same BioSample accession (SAMN15355102) as IND/GBRC203a/2020
IND/GBRC204b/2020	# Strain has same BioSample accession (SAMN15355103) as IND/GBRC204a/2020
IND/GBRC205b/2020	# Strain has same BioSample accession (SAMN15355104) as IND/GBRC205a/2020
IND/GBRC207b/2020	# Strain has same BioSample accession (SAMN15355106) as IND/GBRC207a/2020
IND/GBRC208b/2020	# Strain has same BioSample accession (SAMN15355107) as IND/GBRC208a/2020
IND/GBRC209b/2020	# Strain has same BioSample accession (SAMN15355108) as IND/GBRC209a/2020
IND/GBRC210b/2020	# Strain has same BioSample accession (SAMN15355109) as IND/GBRC210a/2020
IND/GBRC213b/2020	# Strain has same BioSample accession (SAMN15355112) as IND/GBRC213a/2020
IND/GBRC214b/2020	# Strain has same BioSample accession (SAMN15355113) as IND/GBRC214a/2020
IND/GBRC216b/2020	# Strain has same BioSample accession (SAMN15355116) as IND/GBRC216a/2020
IND/GBRC217b/2020	# Strain has same BioSample accession (SAMN15355117) as IND/GBRC217a/2020
IND/GBRC218b/2020	# Strain has same BioSample accession (SAMN15355118) as IND/GBRC218a/2020
IND/GBRC219b/2020	# Strain has same BioSample accession (SAMN15355119) as IND/GBRC219a/2020
IND/GBRC222b/2020	# Strain has same BioSample accession (SAMN15394126) as IND/GBRC222a/2020
IND/GBRC223b/2020	# Strain has same BioSample accession (SAMN15394127) as IND/GBRC223a/2020
IND/GBRC224b/2020	# Strain has same BioSample accession (SAMN15394128) as IND/GBRC224a/2020
IND/GBRC225b/2020	# Strain has same BioSample accession (SAMN15394129) as IND/GBRC225a/2020
IND/GBRC228b/2020	# Strain has same BioSample accession (SAMN15394132) as IND/GBRC228a/2020
IND/GBRC229b/2020	# Strain has same BioSample accession (SAMN15394133) as IND/GBRC229a/2020
IND/GBRC231b/2020	# Strain has same BioSample accession (SAMN15394135) as IND/GBRC231a/2020
IND/GBRC232b/2020	# Strain has same BioSample accession (SAMN15394136) as IND/GBRC232a/2020
IND/GBRC233b/2020	# Strain has same BioSample accession (SAMN15394137) as IND/GBRC233a/2020
IND/GBRC235b/2020	# Strain has same BioSample accession (SAMN15394139) as IND/GBRC235a/2020
IND/GBRC237b/2020	# Strain has same BioSample accession (SAMN15394141) as IND/GBRC237a/2020
IND/GBRC238b/2020	# Strain has same BioSample accession (SAMN15394142) as IND/GBRC238a/2020
IND/GBRC248b/2020	# Strain has same BioSample accession (SAMN15488410) as IND/GBRC248a/2020
IND/GBRC249b/2020	# Strain has same BioSample accession (SAMN15488411) as IND/GBRC249a/2020
IND/GBRC250b/2020	# Strain has same BioSample accession (SAMN15488412) as IND/GBRC250a/2020
IND/GBRC251b/2020	# Strain has same BioSample accession (SAMN15488413) as IND/GBRC251a/2020
IND/GBRC253b/2020	# Strain has same BioSample accession (SAMN15488415) as IND/GBRC253a/2020
IND/GBRC254b/2020	# Strain has same BioSample accession (SAMN15488416) as IND/GBRC254a/2020
IND/GBRC255b/2020	# Strain has same BioSample accession (SAMN15488417) as IND/GBRC255a/2020
IND/GBRC256b/2020	# Strain has same BioSample accession (SAMN15488418) as IND/GBRC256a/2020
IND/GBRC257b/2020	# Strain has same BioSample accession (SAMN15488419) as IND/GBRC257a/2020
IND/GBRC258b/2020	# Strain has same BioSample accession (SAMN15488420) as IND/GBRC258a/2020
IND/GBRC261b/2020	# Strain has same BioSample accession (SAMN15488423) as IND/GBRC261a/2020
IND/GBRC263b/2020	# Strain has same BioSample accession (SAMN15488425) as IND/GBRC263a/2020
IND/GBRC264b/2020	# Strain has same BioSample accession (SAMN15488426) as IND/GBRC264a/2020
IND/GBRC267b/2020	# Strain has same BioSample accession (SAMN15488429) as IND/GBRC267a/2020
IND/GBRC268b/2020	# Strain has same BioSample accession (SAMN15488430) as IND/GBRC268a/2020
IND/GBRC271b/2020	# Strain has same BioSample accession (SAMN15488433) as IND/GBRC271a/2020
IND/GBRC272b/2020	# Strain has same BioSample accession (SAMN15488434) as IND/GBRC272a/2020
IND/GBRC273b/2020	# Strain has same BioSample accession (SAMN15488435) as IND/GBRC273a/2020
IND/GBRC275b/2020	# Strain has same BioSample accession (SAMN15488437) as IND/GBRC275a/2020
IND/GBRC277b/2020	# Strain has same BioSample accession (SAMN15488439) as IND/GBRC277a/2020
IND/GBRC278b/2020	# Strain has same BioSample accession (SAMN15637005) as IND/GBRC278a/2020
IND/GBRC290b/2020	# Strain has same BioSample accession (SAMN15637017) as IND/GBRC290a/2020
IND/GBRC292b/2020	# Strain has same BioSample accession (SAMN15637019) as IND/GBRC292a/2020
IND/GBRC293b/2020	# Strain has same BioSample accession (SAMN15637020) as IND/GBRC293a/2020
IND/GBRC296b/2020	# Strain has same BioSample accession (SAMN15637023) as IND/GBRC296a/2020
IND/GBRC298b/2020	# Strain has same BioSample accession (SAMN15637025) as IND/GBRC298a/2020
IND/GBRC299b/2020	# Strain has same BioSample accession (SAMN15637026) as IND/GBRC299a/2020
IND/GBRC300b/2020	# Strain has same BioSample accession (SAMN15637027) as IND/GBRC300a/2020
IND/GBRC301b/2020	# Strain has same BioSample accession (SAMN15637028) as IND/GBRC301a/2020
IND/GBRC302b/2020	# Strain has same BioSample accession (SAMN15637029) as IND/GBRC302a/2020
IND/GBRC303b/2020	# Strain has same BioSample accession (SAMN15637030) as IND/GBRC303a/2020
IND/GBRC304b/2020	# Strain has same BioSample accession (SAMN15637031) as IND/GBRC304a/2020
IND/GBRC306b/2020	# Strain has same BioSample accession (SAMN15637033) as IND/GBRC306a/2020
IND/GBRC307b/2020	# Strain has same BioSample accession (SAMN15637034) as IND/GBRC307a/2020
IND/GBRC309b/2020	# Strain has same BioSample accession (SAMN15637036) as IND/GBRC309a/2020
IND/GBRC310b/2020	# Strain has same BioSample accession (SAMN15637037) as IND/GBRC310a/2020
IND/GBRC311b/2020	# Strain has same BioSample accession (SAMN15637038) as IND/GBRC311a/2020
IND/GBRC312b/2020	# Strain has same BioSample accession (SAMN15637039) as IND/GBRC312a/2020
IND/GBRC315b/2020	# Strain has same BioSample accession (SAMN15637042) as IND/GBRC315a/2020
IND/GBRC316b/2020	# Strain has same BioSample accession (SAMN15637043) as IND/GBRC316a/2020
IND/GBRC318b/2020	# Strain has same BioSample accession (SAMN15637045) as IND/GBRC318a/2020
IND/GBRC323b/2020	# Strain has same BioSample accession (SAMN15637050) as IND/GBRC323a/2020
IND/GBRC332b/2020	# Strain has same BioSample accession (SAMN15783379) as IND/GBRC332a/2020
IND/GBRC334b/2020	# Strain has same BioSample accession (SAMN15783381) as IND/GBRC334a/2020
IND/GBRC335b/2020	# Strain has same BioSample accession (SAMN15783382) as IND/GBRC335a/2020
IND/GBRC338b/2020	# Strain has same BioSample accession (SAMN15783385) as IND/GBRC338a/2020
IND/GBRC342b/2020	# Strain has same BioSample accession (SAMN15903660) as IND/GBRC342a/2020
IND/GBRC343b/2020	# Strain has same BioSample accession (SAMN15903661) as IND/GBRC343a/2020
IND/GBRC347b/2020	# Strain has same BioSample accession (SAMN15903665) as IND/GBRC347a/2020
IND/GBRC350b/2020	# Strain has same BioSample accession (SAMN15903668) as IND/GBRC350a/2020
IND/GBRC351b/2020	# Strain has same BioSample accession (SAMN15903669) as IND/GBRC351a/2020
IND/GBRC355b/2020	# Strain has same BioSample accession (SAMN15903673) as IND/GBRC355a/2020
IND/GBRC361b/2020	# Strain has same BioSample accession (SAMN15903679) as IND/GBRC361a/2020
IND/GBRC398b/2020	# Strain has same BioSample accession (SAMN16522180) as IND/GBRC398a/2020
IND/GBRC399b/2020	# Strain has same BioSample accession (SAMN16522181) as IND/GBRC399a/2020
IND/GBRC400b/2020	# Strain has same BioSample accession (SAMN16522182) as IND/GBRC400a/2020
IND/GBRC402b/2020	# Strain has same BioSample accession (SAMN16522184) as IND/GBRC402a/2020
IND/GBRC403b/2020	# Strain has same BioSample accession (SAMN16522185) as IND/GBRC403a/2020
IND/GBRC404b/2020	# Strain has same BioSample accession (SAMN16522186) as IND/GBRC404a/2020
IND/GBRC405b/2020	# Strain has same BioSample accession (SAMN16522187) as IND/GBRC405a/2020
IND/GBRC407b/2020	# Strain has same BioSample accession (SAMN16522189) as IND/GBRC407a/2020
IND/GBRC408b/2020	# Strain has same BioSample accession (SAMN16522190) as IND/GBRC408a/2020
IND/GBRC409b/2020	# Strain has same BioSample accession (SAMN16522191) as IND/GBRC409a/2020
IND/GBRC413b/2020	# Strain has same BioSample accession (SAMN16522195) as IND/GBRC413a/2020
IND/GBRC416b/2020	# Strain has same BioSample accession (SAMN16522198) as IND/GBRC416a/2020
IND/GBRC417b/2020	# Strain has same BioSample accession (SAMN16522199) as IND/GBRC417a/2020
IND/GBRC419b/2020	# Strain has same BioSample accession (SAMN16522201) as IND/GBRC419a/2020
IND/GBRC422b/2020	# Strain has same BioSample accession (SAMN16522204) as IND/GBRC422a/2020
IND/GBRC423b/2020	# Strain has same BioSample accession (SAMN16522205) as IND/GBRC423a/2020
IND/GBRC424b/2020	# Strain has same BioSample accession (SAMN16522206) as IND/GBRC424a/2020
IND/GBRC426b/2020	# Strain has same BioSample accession (SAMN16522208) as IND/GBRC426a/2020
IND/GBRC427b/2020	# Strain has same BioSample accession (SAMN16522209) as IND/GBRC427a/2020
IND/GBRC428b/2020	# Strain has same BioSample accession (SAMN16522210) as IND/GBRC428a/2020
IND/GBRC430b/2020	# Strain has same BioSample accession (SAMN16522212) as IND/GBRC430a/2020
IND/GBRC431b/2020	# Strain has same BioSample accession (SAMN16522213) as IND/GBRC431a/2020
IND/GBRC439b/2020	# Strain has same BioSample accession (SAMN17775807) as IND/GBRC439a/2020
IND/GBRC445b/2020	# Strain has same BioSample accession (SAMN17775813) as IND/GBRC445a/2020
IND/GBRC454b/2020	# Strain has same BioSample accession (SAMN17775821) as IND/GBRC453a/2020
IND/GBRC455b/2020	# Strain has same BioSample accession (SAMN17775822) as IND/GBRC455a/2020
IND/GBRC458b/2020	# Strain has same BioSample accession (SAMN17775825) as IND/GBRC458a/2020
TLS/TL26/2020	# Strain has same BioSample accession (SAMN15087311) as AUS/TL26/2020
USA/UT-04230_2/2020	# Strain has same BioSample accession (SAMN16399183) as USA/UT-04230/2020
USA/UT-04231_2/2020	# Strain has same BioSample accession (SAMN16399184) as USA/UT-04231/2020
USA/UT-04232_2/2020	# Strain has same BioSample accession (SAMN16399185) as USA/UT-04232/2020
USA/UT-04235_2/2020	# Strain has same BioSample accession (SAMN16399186) as USA/UT-04235/2020
USA/UT-04236_2/2020	# Strain has same BioSample accession (SAMN16399187) as USA/UT-04236/2020
USA/UT-04262_2/2020	# Strain has same BioSample accession (SAMN16399197) as USA/UT-04262/2020
USA/UT-04265_2/2020	# Strain has same BioSample accession (SAMN16399199) as USA/UT-04265/2020
USA/UT-04282_2/2020	# Strain has same BioSample accession (SAMN16399201) as USA/UT-04282/2020
USA/UT-04287_2/2020	# Strain has same BioSample accession (SAMN16399202) as USA/UT-04287/2020
USA/UT-04289_2/2020	# Strain has same BioSample accession (SAMN16399203) as USA/UT-04289/2020
USA/UT-04290_2/2020	# Strain has same BioSample accession (SAMN16399204) as USA/UT-04290/2020
USA/UT-04301_2/2020	# Strain has same BioSample accession (SAMN16399206) as USA/UT-04301/2020
USA/UT-04302_2/2020	# Strain has same BioSample accession (SAMN16399207) as USA/UT-04302/2020
USA/UT-04303_2/2020	# Strain has same BioSample accession (SAMN16399208) as USA/UT-04303/2020
USA/UT-04306_2/2020	# Strain has same BioSample accession (SAMN16399211) as USA/UT-04306/2020
USA/UT-04307_2/2020	# Strain has same BioSample accession (SAMN16399212) as USA/UT-04307/2020
USA/UT-04309_2/2020	# Strain has same BioSample accession (SAMN16399214) as USA/UT-04309/2020
USA/UT-04310_2/2020	# Strain has same BioSample accession (SAMN16399215) as USA/UT-04310/2020
USA/UT-04311_2/2020	# Strain has same BioSample accession (SAMN16399216) as USA/UT-04311/2020
USA/UT-04312_2/2020	# Strain has same BioSample accession (SAMN16399217) as USA/UT-04312/2020
USA/UT-04313_2/2020	# Strain has same BioSample accession (SAMN16399218) as USA/UT-04313/2020
USA/UT-04315_2/2020	# Strain has same BioSample accession (SAMN16399220) as USA/UT-04315/2020
USA/UT-04316_2/2020	# Strain has same BioSample accession (SAMN16399221) as USA/UT-04316/2020
USA/UT-04319_2/2020	# Strain has same BioSample accession (SAMN16399223) as USA/UT-04319/2020
USA/UT-04340_2/2020	# Strain has same BioSample accession (SAMN16399228) as USA/UT-04340/2020
USA/UT-04341_2/2020	# Strain has same BioSample accession (SAMN16399229) as USA/UT-04341/2020

# Divergence (open)
USA/WV064576/2020
ISR/hCov-19-Israel-CVL-n-14266/2020
BRA/RJ-DCVTV507Q/2020
PAK/JRCGR-KHI20/2020
MW342706
USA/DC-DFS-PHL-0079/2020
VEN/LaG6888/2021
IRN/COVID19-IRVSH2/2020
AUS/NT18/2020
Japan/Donner257/2020
MW342706
USA/WV064569/2020
USA/WV064550/2020
TUN/TUN-20208274/2020

# Divergence (gisaid)
India/GJ-INSACOG-GBRC1538/2020
Israel/CVL_S9-1/2020
Georgia/Tb-RNGS008/2020
USA/CA-CDPH1181/2020
USA/CA-CDPH1185/2020
Kenya/MAL-5047/2020
India/WB-IICB-025/2020
CzechRepublic/VIR-204/2021

# Duplicates
Brazil/MA-FIOCRUZ-6871-1P/2021 # Isolated from original sample accession ID EPI_ISL_1181371
Brazil/MA-FIOCRUZ-6873-1P/2021 # Isolated from original sample accession ID EPI_ISL_1181400
DominicanRepublic/21889-2P/2021 # Accession ID of the original sample EPI_ISL_2274006

# https://bedfordlab.slack.com/archives/CTZKJC7PZ/p1630614123054300
Ecuador/USFQ-1969/2021|EPI_ISL_3506206
Ecuador/USFQ-1977/2021|EPI_ISL_3824569
Ecuador/USFQ-1981/2021|EPI_ISL_3824571
Ecuador/USFQ-1983/2021|EPI_ISL_3824572
Ecuador/USFQ-1986/2021|EPI_ISL_3824573
Ecuador/USFQ-1987/2021|EPI_ISL_3824574
Ecuador/USFQ-1988/2021|EPI_ISL_3824575
Ecuador/USFQ-1989/2021|EPI_ISL_3824576
Ecuador/USFQ-1990/2021|EPI_ISL_3824577
Ecuador/USFQ-1996/2021|EPI_ISL_3824579
Ecuador/USFQ-1997/2021|EPI_ISL_3824580
Ecuador/USFQ-1999/2021|EPI_ISL_3824582
Ecuador/USFQ-2005/2021|EPI_ISL_3824584
Ecuador/USFQ-2007/2021|EPI_ISL_3824585
Ecuador/USFQ-2009/2021|EPI_ISL_3824586

# Duplicates
Japan/TY28-233-P0/2021 # Accession ID of original sequence is EPI_ISL_3076699.
Japan/TY28-236-P0/2021 # Accession ID of original sequence is EPI_ISL_3076700.
Japan/TY28-248-P0/2021 # Accession ID of original sequence is EPI_ISL_3076705.
Japan/TY28-257-P0/2021 # Accession ID of original sequence is EPI_ISL_3076711.
Japan/TY28-440-P0/2021 # Accession ID of original sequence is EPI_ISL_3076714.
Japan/TY28-444-P0/2021 # Accession ID of original sequence is EPI_ISL_3076715.
Japan/TY28-453-P0/2021 # Accession ID of original sequence is EPI_ISL_3076719.
Japan/TY28-454-P0/2021 # Accession ID of original sequence is EPI_ISL_3076720.
Japan/TY28-456-P0/2021 # Accession ID of original sequence is EPI_ISL_3076722.
Japan/TY28-463-P0/2021 # Accession ID of original sequence is EPI_ISL_3392278.
Japan/TY28-484-P0/2021 # Accession ID of original sequence is EPI_ISL_3392270.
Japan/TY28-486-P0/2021 # Accession ID of original sequence is EPI_ISL_3392294.

# Divergence (open)
OU567856
IND/P70/2020
USA/UT-UPHL-210729652440/2020
IRN/COVID19-IRVSH4/2020
EGY/EGY_CCHE57357_P_30/2020
EGY/CCHE57357_Wave_3_A025/2021
OU475773
TUN/TUN-20205008/2020
TUN/TUN-20204107/2020
TUN/TUN-20203942/2020

# Divergence (gisaid)
India/MH-NIV-815-3/2020
Israel/CVL_S7-3/2020
Morocco/Khouri101/2020
NorthMacedonia/42061/2021
NorthMacedonia/42189/2021
SouthAfrica/VIDA-KRISP-K012173/2021
India/DL-ILBS-65656/2020
India/MH-ICMR-NIV-INSACOG-2019nCoV-279084/2020
Italy/CAM-TIGEM-IZSM-COLLI-14407/2021
Iran/GRC-T11514/2021
Botswana/R18B34_BHP_AAB60587/2021
Botswana/R18B20_BHP_AAB60601/2021
Botswana/R18B53_BHP_AAB65805/2021
Botswana/R20B55_BHP_AAB74034/2021

USA/MA-UMASSMED-P006E06/2020

# possible wrong year, divergence too high
Germany/SN-RKI-I-213505/2020
USA/TN-VUMC-000296/2020

Netherlands/NoordHolland_2/2020
GBR/Rem2.5p13.5/2020

USA/TX-HMH-MCoV-40891/2020
USA/CA-CDPH1184/2020

India/DL-ILBS-19769/2020
India/DL-ILBS-20926/2020
India/DL-ILBS-22197/2020

# Divergence
Angola/CERI-KRISP-K013747/2020
Angola/CERI-KRISP-K013703/2020
Bangladesh/BCSIR-NILMRC-758-2/2021
Angola/CERI-KRISP-K013455/2020
Bangladesh/IEDCR-OIS-538/2021
SouthAfrica/NICD-N7514/2021
SriLanka/aicbu1220/2021
Turkey/HSGM-E2479/2021
Italy/VEN-IZSVe-21RS8085-7_TV/2020
USA/DC-DFS-PHL-01331/2020
USA/TX-HHD-210729KVI6183/2020

# Large stretches of gaps (often >1000)
Greece/2017551/2020
India/GJ-INSACOG-GBRC2186/2020
Israel/n14284/2020
Kazakhstan/NRL-KZY-273S/2021
Netherlands/Dalen_1363624/2020
Netherlands/Delft_1363424/2020
Netherlands/Diemen_1363454/2020
Netherlands/Friesland_27/2020
Netherlands/Gelderland_58/2020
Netherlands/Gelderland_68/2020
Netherlands/Gelderland_107/2020
Netherlands/Houten_1363498/2020
Netherlands/Limburg_6/2020
Netherlands/NA_141/2020
Netherlands/NA_248/2020
Netherlands/NA_547/2020
Netherlands/NA_599/2020
Netherlands/NA_666/2020
Netherlands/NoordBrabant_72/2020
Netherlands/Utrecht_13/2020
Netherlands/ZuidHolland_166/2020
Netherlands/ZuidHolland_213/2020
USA/ID-IBL-637649/2020
USA/TX-HMH-MCoV-41497/2020

# Divergence
GBR/Rem1p13.1/2020
OU471903
Japan/Donner269/2020
RUS/940/2020
ISR/hCov-19-Israel-CVL-n-6731/2020
Mexico/COA-INER_IMSS_1420/2021
Mexico/NLE_IBT_IMSS_2853/2021
SouthAfrica/VIDA-KRISP-K012371/2020
USA/TX-HMH-MCoV-35115/2020
USA/TX-HMH-MCoV-40890/2020
env/India/GJ-GBRC745a/2020
USA/CA-CDPH1183/2020
Brazil/PR-L119-CD7789/2020
Angola/CERI-KRISP-K013702/2020
USA/MI-CDC-ASC210040894/2021
Angola/CERI-KRISP-K013702/2020

# Duplicate
Japan/TY33-456-P0/2021 # Accession ID of original sequence is EPI_ISL_3769591
USA/OR-OSPHL00133-L2/2021
USA/OR-OSPHL00373-L2/2021
USA/OR-OSPHL00503-L2/2021
USA/OR-OSPHL00592-L2/2021
USA/OR-OSPHL00723-L2/2021
USA/OR-OSPHL00748-L2/2021
USA/OR-OSPHL00749-L2/2021
USA/OR-OSPHL00857-L2/2021
USA/OR-OSPHL00995-L2/2021
USA/OR-OSPHL01081-L2/2021
USA/OR-OSPHL01083-L2/2021
USA/OR-OSPHL01084-L2/2021
USA/OR-OSPHL01085-L2/2021
USA/OR-OSPHL01093-L2/2021
USA/OR-OSPHL01188-L2/2021
USA/OR-OSPHL01208-L2/2020
USA/OR-OSPHL01274-L2/2021

# first two s1 muts, second two divergent outliers
SouthAfrica/NICD-N10017/2021
India/MH-BJMC-6666/2020
BurkinaFaso/CV1920/2020
USA/CA-CDPH1182/2020

# large gaps
Morocco/FMP-197/2021

# Divergence
IRN/COVID19-IRVSH5/2020
Nigeria/54gene14/2021
Nigeria/54gene19R/2021
Argentina/PAIS-A1026/2020
USA/CA-CDPH1187/2020
Argentina/PAIS-A0965/2020
USA/CA-CDPH1188/2020
Slovenia/251283/2020
Brazil/GO-2732R1/2020

# Divergence
Slovakia/UVZ_PL36_D5_17807/2021
USA/CA-CDPH1186/2020
Angola/CERI-KRISP-K013754/2020
Angola/CERI-KRISP-K013704/2020
Angola/CERI-KRISP-K013741/2020
Angola/CERI-KRISP-K013444/2020
Angola/CERI-KRISP-K013698/2020
USA/VSP3109/2020
GBR/DMSOp13.2/2020

# Divergence
Italy/CAM-TIGEM-IZSM-COLLI-14407/2020
Aruba/AW-RIVM-55730/2021
Aruba/AW-RIVM-55752/2021
Iran/GRC-Esf-11-169/2021
Italy/CAM-TIGEM-IZSM-COLLI-14403/2020
GBR/Remp1p13.5/2020
MYS/5676/2020
IND/GBRC522b/2020
GBR/Mediap13.4/2020
Italy/CAM-TIGEM-IZSM-COLLI-14403/2020
Finland/HEL4-24/2020
Maldives/MAV20558/2021
Ukraine/65-62523/2021

# https://bedfordlab.slack.com/archives/CTZKJC7PZ/p1633945899006000
Morocco/INH-107/2020
Morocco/INH-108/2020
Morocco/INH-109/2020
bat/Yunnan/RmYN01/2019
USA/TX-HMH-MCoV-40926/2020
USA/TX-HMH-MCoV-40929/2020
Vanuatu/VAN003/2020
Rwanda/CV2217/2020
England/MILK-1FF99A3/2020
England/MILK-1FF99C1/2020
England/MILK-1FF9A19/2020
England/MILK-1FF9A37/2020
England/MILK-1FF9A46/2020
England/MILK-1FF9A64/2020
England/MILK-1FF9A82/2020
England/MILK-1FF9ABF/2020
England/MILK-1FF9ADD/2020
England/MILK-1FF9B43/2020
England/MILK-1FF9B8F/2020
England/MILK-1FF9BE9/2020
England/MILK-1FF9D6B/2020
England/MILK-1FF9DA7/2020
England/MILK-1FF9DC5/2020
England/MILK-1FF9DD4/2020
England/MILK-1FF9DF2/2020
England/MILK-1FF9FB0/2020
England/MILK-1FF9FDE/2020
England/MILK-1FF9FFC/2020
England/MILK-1FFA034/2020
England/MILK-1FFA061/2020
England/MILK-1FFA0BC/2020
England/MILK-1FFA131/2020
England/MILK-1FFA17D/2020
England/MILK-1FFA19B/2020
England/MILK-1FFA1B9/2020
England/MILK-1FFA1D7/2020
England/MILK-1FFA25C/2020
England/MILK-1FFA2A7/2020
England/MILK-1FFA30E/2020
England/MILK-1FFA359/2020
England/MILK-1FFA438/2020
England/MILK-1FFA492/2020
England/MILK-1FFA4B0/2020
England/MILK-1FFA4ED/2020
England/MILK-1FFA4FC/2020
England/MILK-1FFA508/2020
England/MILK-1FFA526/2020
Fiji/FJ493/2020
Rwanda/CV2197/2020
USA/ND-NDDH-4397/2020
USA/WV-WVU-WV121217/2020
Sudan/N6667/2020
Colombia/DC-Mx263_sarscov2/2020
Colombia/DC-Mx318_sarscov2/2020
Morocco/INH-101/2020
Morocco/INH-105/2020

# Divergence
CostaRica/04/2020
Brazil/AM-FIOCRUZ-20891105GG/2020
Ireland/WX-NVRL-83IRL46210/2021
GBR/Mediap13.1/2020
MEX/MEX-46960/2020
India/GA-CDFD-C61047/2021
Slovakia/UVZ_PL36_D7_17911/2021
Thailand/DMSc-02065/2021
Indonesia/SS-NIHRD-WGS00441/2021
Rwanda/CV2226/2021
England/NORT-YYNW7P/2020

USA/NV-NSPHL-LV37723/2021   # Strain has same BioSample accession (SAMN21883524) as USA/NV-NSPHL-LV376977/2021
USA/NV-NSPHL-LV377376/2021  # Strain has same BioSample accession (SAMN21883525) as USA/NV-NSPHL-LV377325/2021
USA/NV-NSPHL-LV377432/2021  # Strain has same BioSample accession (SAMN21883525) as USA/NV-NSPHL-LV377325/2021
USA/NV-NSPHL-LV378600/2021  # Strain has same BioSample accession (SAMN21883549) as USA/NV-NSPHL-LV378473/2021
USA/NV-NSPHL-LV378909/2021  # Strain has same BioSample accession (SAMN21883566) as USA/NV-NSPHL-LV378851/2021
USA/NV-NSPHL-LV379937/2021  # Strain has same BioSample accession (SAMN21883588) as USA/NV-NSPHL-LV379916/2021

# Divergence
Angola/CERI-KRISP-K013700/2020
Morocco/INH-104/2020
SouthAfrica/VIDA-KRISP-K012173/2020
USA/TX-HMH-MCoV-41484/2020
USA/TX-HMH-MCoV-35042/2020
Ghana/NMIMR-NTRA-14807/2020
England/MILK-203B75C/2020
India/RJ-CCMB-CIA6166/2020
IND/GBRC327a/2020
IRQ/Samawa-55/2021
NLD/210429-986211626590__2019-nCoV/2021
MEX/MOR-308351/2020

# Divergence
Indonesia/JA-GS-EIJK-RSRM-0200/2020
MEX/CMX-242/2020

PER/AFI00058/2021	# Strain has same BioSample accession (SAMN21557915) as PER/AFI00052/2021
PER/AFI00065/2021	# Strain has same BioSample accession (SAMN21557915) as PER/AFI00052/2021
PER/AFI00067/2021	# Strain has same BioSample accession (SAMN21557915) as PER/AFI00052/2021
PER/AFI00084/2021	# Strain has same BioSample accession (SAMN21557915) as PER/AFI00052/2021
PER/AFI00088/2021	# Strain has same BioSample accession (SAMN21557915) as PER/AFI00052/2021
PER/AFI00102/2021	# Strain has same BioSample accession (SAMN21557915) as PER/AFI00052/2021
PER/AFI00108/2021	# Strain has same BioSample accession (SAMN21557915) as PER/AFI00052/2021
PER/AFI00196/2021	# Strain has same BioSample accession (SAMN21557915) as PER/AFI00052/2021
PER/AFI00413/2021	# Strain has same BioSample accession (SAMN21557915) as PER/AFI00052/2021
PER/AFI00772/2021	# Strain has same BioSample accession (SAMN21557915) as PER/AFI00052/2021
PER/AFI00831/2021	# Strain has same BioSample accession (SAMN21557915) as PER/AFI00052/2021
PER/AFI00844/2021	# Strain has same BioSample accession (SAMN21557915) as PER/AFI00052/2021
PER/AFI00846/2021	# Strain has same BioSample accession (SAMN21557915) as PER/AFI00052/2021
PER/AFI00852/2021	# Strain has same BioSample accession (SAMN21557915) as PER/AFI00052/2021
PER/AFI00902/2021	# Strain has same BioSample accession (SAMN21557915) as PER/AFI00052/2021
PER/AFI00937/2021	# Strain has same BioSample accession (SAMN21557915) as PER/AFI00052/2021
PER/AFI00987/2021	# Strain has same BioSample accession (SAMN21557915) as PER/AFI00052/2021
PER/AFI01215/2021	# Strain has same BioSample accession (SAMN21557915) as PER/AFI00052/2021
PER/AFI01342/2021	# Strain has same BioSample accession (SAMN21557915) as PER/AFI00052/2021
PER/AFI01608/2021	# Strain has same BioSample accession (SAMN21557915) as PER/AFI00052/2021
PER/AFIP00034/2021	# Strain has same BioSample accession (SAMN21557915) as PER/AFI00052/2021

# Sample date (oct 2020) and location for Delta seem very unlikely
Germany/NW-RKI-I-307410/2020

# Issues with under-divergence and missing mutations causing odd phylogenetic placement
Botswana/R44B83_BHP_000848381/2021
Botswana/R44B19_BHP_000844008/2021

USA/TN-SPHL-0337/2021	# Strain has same BioSample accession (SAMN21902655) as USA/TN-SPHL-0296/2021
USA/TN-SPHL-0344/2021	# Strain has same BioSample accession (SAMN21902659) as USA/TN-SPHL-0286/2021
USA/TN-SPHL-0349/2021	# Strain has same BioSample accession (SAMN21902663) as USA/TN-SPHL-0277/2021
USA/TN-SPHL-0350/2021	# Strain has same BioSample accession (SAMN21902664) as USA/TN-SPHL-0276/2021
USA/TN-SPHL-0356/2021	# Strain has same BioSample accession (SAMN21902669) as USA/TN-SPHL-0234/2021
USA/TN-SPHL-0362/2021	# Strain has same BioSample accession (SAMN21902673) as USA/TN-SPHL-0221/2021
USA/TN-SPHL-0396/2021	# Strain has same BioSample accession (SAMN21902690) as USA/TN-SPHL-0385/2021
USA/TN-SPHL-0552/2021	# Strain has same BioSample accession (SAMN21902743) as USA/TN-SPHL-0483/2021
USA/TN-SPHL-0568/2021	# Strain has same BioSample accession (SAMN21902734) as USA/TN-SPHL-0469/2021
USA/TN-SPHL-0576/2021	# Strain has same BioSample accession (SAMN21902769) as USA/TN-SPHL-0028/2021
USA/TN-SPHL-0578/2021	# Strain has same BioSample accession (SAMN21902732) as USA/TN-SPHL-0465/2021
USA/TN-SPHL-0581/2021	# Strain has same BioSample accession (SAMN22212271) as USA/TN-SPHL-0036/2021
USA/TN-SPHL-0585/2021	# Strain has same BioSample accession (SAMN22212275) as USA/TN-SPHL-0045/2021
USA/TN-SPHL-0594/2021	# Strain has same BioSample accession (SAMN22212279) as USA/TN-SPHL-0065/2021
USA/TN-SPHL-0597/2021	# Strain has same BioSample accession (SAMN22212282) as USA/TN-SPHL-0068/2021
USA/TN-SPHL-0599/2021	# Strain has same BioSample accession (SAMN22212284) as USA/TN-SPHL-0072/2021
USA/TN-SPHL-0609/2021	# Strain has same BioSample accession (SAMN22212292) as USA/TN-SPHL-0091/2021
USA/TN-SPHL-0620/2021	# Strain has same BioSample accession (SAMN22212299) as USA/TN-SPHL-0606/2021
USA/TN-SPHL-0674/2021	# Strain has same BioSample accession (SAMN22231070) as USA/TN-SPHL-0531/2021
USA/TN-SPHL-0675/2021	# Strain has same BioSample accession (SAMN22231071) as USA/TN-SPHL-0517/2021
USA/TN-SPHL-0684/2021	# Strain has same BioSample accession (SAMN21902785) as USA/TN-SPHL-0539/2021
USA/TN-SPHL-0700/2021	# Strain has same BioSample accession (SAMN21902795) as USA/TN-SPHL-0592/2021
USA/TN-SPHL-0702/2021	# Strain has same BioSample accession (SAMN21902746) as USA/TN-SPHL-0514/2021
USA/TN-SPHL-0707/2021	# Strain has same BioSample accession (SAMN21902801) as USA/TN-SPHL-0617/2021
USA/TN-SPHL-0709/2021	# Strain has same BioSample accession (SAMN21902735) as USA/TN-SPHL-0471/2021
USA/TN-SPHL-0717/2021	# Strain has same BioSample accession (SAMN21912648) as USA/TN-SPHL-0662/2021
USA/TN-SPHL-0729/2021	# Strain has same BioSample accession (SAMN21912655) as USA/TN-SPHL-0650/2021
USA/TN-SPHL-0733/2021	# Strain has same BioSample accession (SAMN21912658) as USA/TN-SPHL-0657/2021
USA/TN-SPHL-0744/2021	# Strain has same BioSample accession (SAMN21912665) as USA/TN-SPHL-0682/2021
USA/TN-SPHL-0748/2021	# Strain has same BioSample accession (SAMN21912667) as USA/TN-SPHL-0721/2021
USA/TN-SPHL-0749/2021	# Strain has same BioSample accession (SAMN21902777) as USA/TN-SPHL-0639/2021
USA/TN-SPHL-0751/2021	# Strain has same BioSample accession (SAMN21912668) as USA/TN-SPHL-0724/2021
USA/TN-SPHL-0771/2021	# Strain has same BioSample accession (SAMN22227815) as USA/TN-SPHL-0456/2021
USA/TN-SPHL-0805/2021	# Strain has same BioSample accession (SAMN21902779) as USA/TN-SPHL-0642/2021
USA/TN-SPHL-0808/2021	# Strain has same BioSample accession (SAMN21897491) as USA/TN-SPHL-0797/2021
USA/TN-SPHL-0814/2021	# Strain has same BioSample accession (SAMN21897485) as USA/TN-SPHL-0790/2021
USA/TN-SPHL-0820/2021	# Strain has same BioSample accession (SAMN21897490) as USA/TN-SPHL-0795/2021
USA/TN-SPHL-0844/2021	# Strain has same BioSample accession (SAMN21897482) as USA/TN-SPHL-0783/2021
USA/TN-SPHL-0851/2021	# Strain has same BioSample accession (SAMN22231180) as USA/TN-SPHL-0358/2021
USA/TN-SPHL-0852/2021	# Strain has same BioSample accession (SAMN21897495) as USA/TN-SPHL-0806/2021
USA/TN-SPHL-0853/2021	# Strain has same BioSample accession (SAMN22231181) as USA/TN-SPHL-0360/2021
USA/TN-SPHL-0859/2021	# Strain has same BioSample accession (SAMN21897497) as USA/TN-SPHL-0810/2021
USA/TN-SPHL-0861/2021	# Strain has same BioSample accession (SAMN21902780) as USA/TN-SPHL-0643/2021
USA/TN-SPHL-0869/2021	# Strain has same BioSample accession (SAMN21897501) as USA/TN-SPHL-0815/2021
USA/TN-SPHL-0871/2021	# Strain has same BioSample accession (SAMN21902705) as USA/TN-SPHL-0409/2021
USA/TN-SPHL-0872/2021	# Strain has same BioSample accession (SAMN22231190) as USA/TN-SPHL-0189/2021
USA/TN-SPHL-0878/2021	# Strain has same BioSample accession (SAMN22231193) as USA/TN-SPHL-0197/2021
USA/TN-SPHL-0879/2021	# Strain has same BioSample accession (SAMN22231194) as USA/TN-SPHL-0171/2021
USA/TN-SPHL-0897/2021	# Strain has same BioSample accession (SAMN22305903) as USA/TN-SPHL-0253/2021
USA/TN-SPHL-0908/2021	# Strain has same BioSample accession (SAMN21897506) as USA/TN-SPHL-0822/2021
USA/TN-SPHL-0910/2021	# Strain has same BioSample accession (SAMN22305906) as USA/TN-SPHL-0310/2021
USA/TN-SPHL-0913/2021	# Strain has same BioSample accession (SAMN22305908) as USA/TN-SPHL-0313/2021
USA/TN-SPHL-0916/2021	# Strain has same BioSample accession (SAMN22305911) as USA/TN-SPHL-0318/2021
USA/TN-SPHL-0917/2021	# Strain has same BioSample accession (SAMN21902706) as USA/TN-SPHL-0411/2021
USA/TN-SPHL-0929/2021	# Strain has same BioSample accession (SAMN21902708) as USA/TN-SPHL-0414/2021
USA/TN-SPHL-0939/2021	# Strain has same BioSample accession (SAMN21902717) as USA/TN-SPHL-0427/2021
USA/TN-SPHL-0944/2021	# Strain has same BioSample accession (SAMN21902714) as USA/TN-SPHL-0424/2021
USA/TN-SPHL-0947/2021	# Strain has same BioSample accession (SAMN21902709) as USA/TN-SPHL-0415/2021
USA/TN-SPHL-0952/2021	# Strain has same BioSample accession (SAMN21902711) as USA/TN-SPHL-0419/2021
USA/TN-SPHL-0961/2021	# Strain has same BioSample accession (SAMN22231057) as USA/TN-SPHL-0648/2021
USA/TN-SPHL-0964/2021	# Strain has same BioSample accession (SAMN22231058) as USA/TN-SPHL-0651/2021
USA/TN-SPHL-0966/2021	# Strain has same BioSample accession (SAMN22231059) as USA/TN-SPHL-0652/2021

# Misdated Delta sequence
Indonesia/JA-GS-EIJK-RSRM-0168/2020

# Cell culture isolate Vero E6 passage 1
Belgium/1-SPL21-p1/2021

# Omicron samples with key mutation sites explicitly missing
Italy/PIE_IRCC_15865509/2021
France/PAC-IHU-49242/2021
France/PAC-IHU-49239/2021
France/PAC-IHU-49237/2021

# Omicron - samples with concerning lack of mutations in areas often not covered by sequencing, maybe contaminated or reference-filled
Nigeria/NCDC-NR881/2021
Austria/KILM2164/2021
USA/UT-UPHL-211203203813/2021
India/KA-RF-NCBS-Bengaluru-RFNB-1100/2021
SouthAfrica/NICD-N21767/2021
SouthAfrica/NICD-N21744/2021
SouthAfrica/NICD-N21742/2021
SouthAfrica/NICD-N21658/2021
SouthAfrica/Tygerberg_3058/2021
SouthAfrica/NICD-N21763/2021
SouthAfrica/Tygerberg_3068/2021
USA/MD-HP20874-PIDUYWZOWA/2021
SouthAfrica/NICD-N21717/2021
SouthAfrica/NICD-N21699/2021
SouthAfrica/NICD-N21710/2021
SouthAfrica/NICD-N21723/2021
SouthAfrica/NICD-N21749/2021
SouthAfrica/NICD-N21762/2021
SouthAfrica/Tygerberg_3072/2021
SouthAfrica/NICD-N21771/2021
SouthAfrica/NICD-N21824/2021
Netherlands/NH-RIVM-71075/2021

USA/TN-SPHL-0982/2021	# Strain has same BioSample accession (SAMN22895717) as USA/SPHL-0982/2021
USA/TN-SPHL-0984/2021	# Strain has same BioSample accession (SAMN22895718) as USA/SPHL-0984/2021
USA/TN-SPHL-0986/2021	# Strain has same BioSample accession (SAMN22895719) as USA/SPHL-0986/2021
USA/TN-SPHL-0987/2021	# Strain has same BioSample accession (SAMN22895720) as USA/SPHL-0987/2021
USA/TN-SPHL-0988/2021	# Strain has same BioSample accession (SAMN22895721) as USA/SPHL-0988/2021
USA/TN-SPHL-1016/2021	# Strain has same BioSample accession (SAMN22895641) as USA/TN-SPHL-0473/2021

# mis-dated early Delta
Pakistan/AFIP-B1-S25/2020
BurkinaFaso/CV1911/2020
OU857567
OU857861
OU857982
OV013053
OV017446
OV103676
OV103680
OV103777
OV103791
OV103802
OV104042
OV104073
OV104272
OV104385
OV104388
OV104389
OV104448
OV104449
OV104515
OV104542
OV104635
OV106697
OV108314
OV110709
OV114059
OV111669
OV111753
OV111791
OV113567
OV114062
MWI/MLW00073/2020
MWI/MLW00128/2021
PapuaNewGuinea/PNG4040/2020
Slovakia/UVZ_PL36_A5_17804/2021
Slovakia/UVZ_PL36_D11_17986/2021
Slovakia/UVZ_PL36_F5_17809/2021
Slovakia/UVZ_PL36_G10_17966/2021
Slovakia/UVZ_PL37_B8_18062/2021
Slovakia/UVZ_PL37_C8_18063/2021
Slovakia/UVZ_PL37_H7_18060/2021
Taiwan/TSGH-63/2021
Timor-Leste/TL981/2021
Timor-Leste/TL983/2021
Timor-Leste/TL985/2021
Timor-Leste/TL979/2021
Timor-Leste/TL1011/2021
Timor-Leste/TL1013/2021
Timor-Leste/TL1015/2021
Timor-Leste/TL1017/2021
Uganda/009/2020
USA/VI-Yale-10211/2020
USA/WV121217/2020

# Under/over diverged Omicron sequences
AntiguaandBarbuda/114024/2021
AntiguaandBarbuda/114031/2021
Australia/WA-849/2021
Bangladesh/BCSIR-PRAVA-14/2022
Bangladesh/CVASU-57/2022
Botswana/R64B32_BHP_931953/2022
Canada/un-379464/2022
Chile/RM-29234/2022
Congo/RC-405/2021
Ecuador/USFQ-2568/2021
Gambia/34641U/2022
Guadeloupe/IPP42838/2021
Italy/LOM_Sacco_Var_Q37731/2022
Kazakhstan/2846/2021
Kazakhstan/2863/2021
Kazakhstan/2864/2021
Kazakhstan/2870/2021
Mali/CICM23128/2021
Mauritius/CERI-KRISP-K033295/2021
Morocco/IPM20386919/2021
NewZealand/22CV0459/2022
Poland/92SNR22_wsserze/2022
SaintVincentandtheGrenadines/114305/2021
Turkey/HSGM-F16210/2022
Poland/PZH-UMB-7046/2022

USA/TN-SPHL-0038/2021	# Strain has same BioSample accession (SAMN21899799) as USA/TN-SPHL-0035/2021

# missing mutations relative to date
Australia/NT228/2021
Australia/VIC18809/2021
Australia/VIC18830/2021
Belize/CML-178/2021
CAN/KB-B-001/2021
CostaRica/CABANA-CR-UCR-INCIENSA-ITV-UBA-Uda-UGA-IMSS-UPC-2039-655629/2021
Denmark/DCGC-277270/2021
EGY/CCHE57357_W3_A081/2021
EGY/CCHE57357_W3_A082/2021
EGY/CCHE57357_W3_A084/2021
EGY/CCHE57357_W3_A085/2021
EGY/CCHE57357_W3_A089/2021
EGY/CCHE57357_W3_A097/2021
EGY/CCHE57357_W3_A099/2021
EGY/CCHE57357_W3_A116/2021
EGY/CCHE57357_W3_A152/2021
EGY/CCHE57357_Wave_3_A022/2021
EGY/EGY_CCHE57357_P_25/2020
EGY/EGY_CCHE57357_P_37/2020
EGY/EGY_CCHE57357_A_54/2020
EGY/Egypt-Army-Thirdwave350/2021
EGY/Egypt-Army-Thirdwave352/2021
EGY/Egypt-Army-Thirdwave353/2021
EGY/Third-Wave-EGY-ARMY47/2021
EGY/Third-Wave-EGY-ARMY48/2021
Egypt/ARMY-47/2021
Egypt/ARMY-49/2021
Egypt/ARMY-280/2021
Egypt/ARMY-281/2021
Egypt/ARMY-282/2021
Egypt/ARMY-350/2021
Egypt/ARMY-351/2021
Egypt/ARMY-352/2021
Egypt/ARMY-353/2021
GMB/4448/2020
IRQ/NAJAF/2022
Morocco/RA92C/2020
Morocco/RA112-3C/2021
Mozambique/COV-2158-A1805/2021
Nigeria/MRL-0S-0230/2021
Nigeria/MRL-0S-1294/2021
Nigeria/MRL-0S-1546/2021
Nigeria/MRL-0S-1626/2021
Nigeria/MRL-0S-1885/2021
OM108445
PAK/JRCGR_KHI_SCV-184/2021
PAK/JRCGR_SCV-54_IBGE-06/2020
PAK/khi-w1-s5/2020
PAK/WA-UW-1729/2020
RUS/VIC01/2021
Russia/MOW-CSP-Cov-22_S48/2020
Senegal/SN-MBO-201759/2021
Senegal/SN-MBO-211915/2021
Thailand/63005380__2019/2020
UnitedArabEmirates/1046/2020
USA/CA-CHLA-PLM08055689/2020
USA/FL-CDC-ASC210247553/2021
USA/GA-CDC-ASC210274744/2021
USA/LA-CDC-ASC210310458/2021
USA/MI-CDC-ASC210481590/2021
USA/MO-CDC-ASC210273594/2021
USA/ND-UNDGC-G2021_55_27/2021
USA/ND-UNDGC-G2021_55_50/2021
USA/ND-UNDGC-G2021_55_52/2021
USA/ND-UNDGC-G2021_58_50/2021
USA/ND-UNDGC-G2021_124_26/2021
USA/ND-UNDGC-G2021_124_58/2021
USA/NMINBRE-ILLUMINA-WGS-215780/2020
USA/NM-NCGR-215861_IvcfC/2020
USA/PA-CDC-ASC210426719/2021
USA/V01337/2021
Venezuela/Tru949/2021
VNM/OUCRU-NHTD_B219/2021

# missing expected 21L mutations
SriLanka/aicbu3930/2022

# October 2021 Texas 'omicron' samples (date very unlikely)
USA/TX-DSHS-14288/2021
USA/TX-DSHS-14289/2021
USA/TX-DSHS-14290/2021
USA/TX-DSHS-14291/2021
USA/TX-DSHS-14292/2021
USA/TX-DSHS-14293/2021
USA/TX-DSHS-14294/2021
USA/TX-DSHS-14295/2021
USA/TX-DSHS-14296/2021
USA/TX-DSHS-14297/2021
USA/TX-DSHS-14298/2021
USA/TX-DSHS-14299/2021
USA/TX-DSHS-14300/2021
USA/TX-DSHS-14301/2021
USA/TX-DSHS-14302/2021
USA/TX-DSHS-14303/2021
USA/TX-DSHS-14304/2021
USA/TX-DSHS-14305/2021
USA/TX-DSHS-14306/2021

# October 2021 dated Omicron sequences from Nigeria - quality is very bad & they have ~78 mutations which is far too many for early Omicron
Nigeria/NCDC-NR1188/2021
Nigeria/NCDC-NR1219/2021

# misdated Omicron
Bermuda/WR-NYGC-DEC-6126-GNOP644/2021
Bermuda/WR-NYGC-DEC-6131-LYLI165/2021
Bermuda/WR-NYGC-DEC-6121-EYDE033/2021
Bermuda/WR-NYGC-DEC-6122-FFRF784/2021

# misdated Delta
COM/SS10392/2022
COM/SS10403/2022
COM/SS10405/2022
COM/SS10410/2022
COM/SS10411/2022
COM/SS10415/2022
Comoros/SS10403/2022
Comoros/SS10405/2022
Comoros/SS10411/2022
England/LSPA-3F0C6DD/2022
Gambia/16-186BV/2022
Henan/A85A89/2020
Henan/GPDC-0000005/2020
India/MZ-INSACOG-1526500005999/2020
Indonesia/JA-GS-EIJK-RSRM-0172/2020
Iraq/Erbil-10/2022
TrinidadandTobago/397052/2022
Vietnam/PIHCM_1540/2022

# group of misdated Omicron from Palau
Palau/PW-CDC-2-5546529/2021
Palau/PW-CDC-2-5546533/2021
Palau/PW-CDC-2-5546609/2021
Palau/PW-CDC-2-5546611/2021
Palau/PW-CDC-2-5546612/2021
Palau/PW-CDC-2-5546614/2021
Palau/PW-CDC-2-5546615/2021
Palau/PW-CDC-2-5546620/2021
Palau/PW-CDC-2-5546629/2021
Palau/PW-CDC-2-5546708/2021
PLW/PW-CDC-2-5546529/2021
PLW/PW-CDC-2-5546533/2021
PLW/PW-CDC-2-5546609/2021
PLW/PW-CDC-2-5546611/2021
PLW/PW-CDC-2-5546612/2021
PLW/PW-CDC-2-5546614/2021
PLW/PW-CDC-2-5546615/2021
PLW/PW-CDC-2-5546620/2021
PLW/PW-CDC-2-5546629/2021
PLW/PW-CDC-2-5546708/2021

USA/21U365MD00153_2-23-2022/2021	# Strain has same BioSample accession (SAMN26255250) as USA/21U365MD00153_2-16-2022/2021

USA/UT-03066/2020   # Strain has same BioSample accession (SAMN15901879) as USA/UT-03037/2020
USA/UT-03070/2020   # Strain has same BioSample accession (SAMN15901883) as USA/UT-03041/2020
USA/UT-04508/2020   # Strain has same BioSample accession (SAMN15901824) as USA/UT-01653/2020
USA/UT-08768/2020   # Strain has same BioSample accession (SAMN15901842) as USA/UT-04409/2020

# too many mutations relative to date
Argentina/PAIS-C0160/2020
DRC/ILRI_COVM00354/2020
Lebanon/LAU-R84/2020
Lebanon/LAU-R89/2020
Lebanon/LAU-R95/2020
Lebanon/LAU-R97/2020
Lebanon/LAU-R99/2020
Lebanon/LAU-R104/2020
Lebanon/LAU-R128/2020
Lebanon/LAU-R130/2020
Lebanon/LAU-R135/2020
Lebanon/LAU-R137/2020
Lebanon/LAU-R150/2020
Lebanon/LAU-R158/2020
Lebanon/LAU-R289/2020
Lebanon/LAU-R293/2020
Lebanon/LAU-R294/2020
Lebanon/LAU-R328/2020
Lebanon/LAU-R330/2020
Lebanon/LAU-R351/2020
MLI/M00960/2020
Mongolia/UB-109429/2020
Morocco/INH-103/2020
Morocco/INH-MN908947/2020
Taiwan/NTU-HCH-046/2020
THA/CONI-0321/2020

USA/MA-MGB-04620/2022	# Strain has same BioSample accession (SAMN27380803) as USA/MA-MGB-04481/2021
USA/MA-MGB-04621/2021	# Strain has same BioSample accession (SAMN27380803) as USA/MA-MGB-04481/2021
USA/MA-MGB-04622/2022	# Strain has same BioSample accession (SAMN27380803) as USA/MA-MGB-04481/2021
USA/MA-MGB-04623/2022	# Strain has same BioSample accession (SAMN27380803) as USA/MA-MGB-04481/2021
USA/MA-MGB-04624/2022	# Strain has same BioSample accession (SAMN27380803) as USA/MA-MGB-04481/2021
USA/MA-MGB-04629/2022	# Strain has same BioSample accession (SAMN27380803) as USA/MA-MGB-04481/2021
USA/MA-MGB-04630/2022	# Strain has same BioSample accession (SAMN27380803) as USA/MA-MGB-04481/2021
USA/MA-MGB-04631/2022	# Strain has same BioSample accession (SAMN27380803) as USA/MA-MGB-04481/2021
USA/MA-MGB-04632/2022	# Strain has same BioSample accession (SAMN27380803) as USA/MA-MGB-04481/2021
USA/MA-MGB-04633/2022	# Strain has same BioSample accession (SAMN27380803) as USA/MA-MGB-04481/2021
Switzerland/AG-ETHZ-37212980/2022	# Strain has same BioSample accession (SAMEA14384752) as Switzerland/AG-ETHZ-37191344/2022
Switzerland/VD-ETHZ-37183848/2022	# Strain has same BioSample accession (SAMEA14384854) as Switzerland/BS-ETHZ-37200739/2022
Switzerland/VD-ETHZ-37195675/2022	# Strain has same BioSample accession (SAMEA14384844) as Switzerland/BE-ETHZ-37244299/2022

Switzerland/BE-IFIK-220509_os_64/2022	# Strain has same BioSample accession (SAMEA14395103) as Switzerland/BE-IFIK-220509_os_56/2022
Switzerland/ZH-UZH-IMV-3ba6364d/2022	# Strain has same BioSample accession (SAMEA14418975) as Switzerland/ZH-UZH-IMV-3ba63445/2022

# Omicrons with 2020 date
Israel/ICH-741226590/2020
Israel/ICH-741226592/2020
Israel/ICH-741237329/2020
Israel/ICH-741237350/2020
Israel/ICH-741237353/2020
Israel/ICH-741238457/2020
USA/OKPHL0022663/2020

# Early BA.2.12.1 with excess mutations
Qatar/DA-USAFSAM-S15231/2022

# Early / divergent BA.5
Bolivia/CBBA-PUC_MVL_3357/2022

# Omicrons with too early date
Albania/IPH-TR-0534/2021
Argentina/PAIS-F0400/2021
Brazil/AM-IEC-182317/2021
Cameroon/CAF004/2021
CentralAfricanRepublic/LNBCSP097/2021
Colombia/QUI-UTP-VG-883/2021
Colombia/TOL-I451/2020
Colombia/TOL-I453/2020
Colombia/VAC-69517/2021
Congo/RC-409/2021
env/Austria/CeMM31016/2021
Eswatini/N22721/2021
France/IDF-LBZCentre-C11115K0640/2021
France/IDF-LBZCentre-C11115Z0093/2021
France/IDF-LBZCentre-YU2111150142/2021
France/IDF-LBZCentre-ZA2111150064/2021
France/IDF-LBZCentre-C11115k0421/2021
France/IDF-LBZCentre-S2111150103/2021
France/IDF-LBZCentre-YZ2111150106/2021
France/IDF-LBZCentre-AR111150053/2021
France/HDF-LBZCentre-1111510153/2021
France/IDF-LBZCentre-YU2111150151/2021
France/IDF-LBZCentre-C11115k0364/2021
France/IDF-LBZCentre-YW2111150235/2021
France/IDF-LBZCentre-YU2111150153/2021
France/IDF-LBZCentre-YN2111150091/2021
France/IDF-LBZCentre-YX2111150083/2021
France/IDF-LBZCentre-C11115P0152/2021
France/HDF-LBZCentre-1111501299/2021
France/IDF-LBZCentre-AC111150080/2021
France/IDF-LBZCentre-1111530063/2021
France/IDF-LBZCentre-C11115K0077/2021
France/IDF-LBZCentre-C11115K0686/2021
Guatemala/4583-GMI/2021
IRQ/NAJAF/2021
India/HR-618342786/2021
India/RJ-SMS-ICMR-INSACOG-TS-377/2021
India/RJ-SMS-ICMR-INSACOG-TS-453/2021
Italy/PUG_UNIBA_APU-BA737/2021
Kazakhstan/NLA-16-68/2021
Kazakhstan/NU-01_10/2021
Kazakhstan/NU-02_15/2021
Kazakhstan/NU-05_15/2021
Kazakhstan/NU-06_15/2021
Kazakhstan/NU-25_12/2021
Kazakhstan/NU-28_10/2021
Kazakhstan/NU-29_10/2021
Kazakhstan/NU-37_10/2021
Kazakhstan/NU-39_14/2021
Kazakhstan/NU-48_10/2021
Kazakhstan/NU-48_14/2021
Kazakhstan/NU-77_10/2021
KAZ/07_15/2021
Kenya/KNPHLGEN094/2021
Mali/168043/2021
Mali/168057/2021
Mali/168092/2021
Mali/168093/2021
Mexico/MEX-UGA_HRAEI_SSA_0114/2021
Mexico/MEX-UGA_HRAEI_SSA_0116/2021
Mexico/MEX-UGA_HRAEI_SSA_0124/2021
Mexico/MEX-UGA_HRAEI_SSA_0378/2021
PAK/271503/2021
PuertoRico/PR-UPRRP-1171/2021
PuertoRico/PR-UPRRP-1193/2021
PuertoRico/PR-UPRRP-1211/2021
Reunion/ChuReu-722060096601/2021
Russia/MOW-CSP-LQ-24009_S126/2021
Russia/MOW-CSP-LQ-24036_S22/2021
Russia/MOW-CSP-LQ-24041_S24/2021
Russia/MOW-CSP-LQ-24045_S132/2021
Uganda/094/2021
Uganda/081/2021
Uganda/082/2021
Uganda/093/2021
Uganda/035/2020
USA/MA-CDCBI-CRSP_NRDHXYXTJJQAVYA6/2021
USA/OK-PHL-0022663/2020
USA/OKPHL0022663/2020
USA/OR-TRACE-BENT-060321-1396/2021 
USA/OR-TRACE-BENT-092321-1412/2021
USA/OR-TRACE-BENT-100721-1414/2021
USA/OR-TRACE-BENT-101421-1415/2021
USA/OR-TRACE-BENT-060321-1396/2021
USA/OR-TRACE-BENT-102121-1416/2021
USA/NJ-PHEL-V22024328/2021


USA/1014453982_6-8-2022/2022	# Strain has same BioSample accession (SAMN28961820) as USA/1014453982_6-15-2022/2022
Switzerland/AG-ETHZ-37212980/2022	# Strain has same BioSample accession (SAMEA110039407) as Switzerland/AG-ETHZ-37191344/2022
Switzerland/BE-IFIK-220509_os_64/2022	# Strain has same BioSample accession (SAMEA110050856) as Switzerland/BE-IFIK-220509_os_56/2022
Switzerland/BE-SRO-500010_4668/2022	# Strain has same BioSample accession (SAMEA110047347) as Switzerland/BE-SRO-500010_3709/2022
Switzerland/SO-ETHZ-37354100/2022	# Strain has same BioSample accession (SAMEA110030697) as Switzerland/BE-ETHZ-37259524/2022
Switzerland/TI-ETHZ-37345260/2022	# Strain has same BioSample accession (SAMEA110048931) as Switzerland/BE-ETHZ-37299864/2022
Switzerland/VD-ETHZ-37183848/2022	# Strain has same BioSample accession (SAMEA110027445) as Switzerland/BS-ETHZ-37200739/2022
Switzerland/VD-ETHZ-37195675/2022	# Strain has same BioSample accession (SAMEA110033008) as Switzerland/BE-ETHZ-37244299/2022
Switzerland/ZH-ETHZ-37326783/2022	# Strain has same BioSample accession (SAMEA110048929) as Switzerland/AG-ETHZ-37278628/2022
Switzerland/ZH-ETHZ-37345226/2022	# Strain has same BioSample accession (SAMEA110019908) as Switzerland/SG-ETHZ-674753/2022
Switzerland/ZH-ETHZ-674759/2022	# Strain has same BioSample accession (SAMEA110031163) as Switzerland/AG-ETHZ-37276867/2022
Switzerland/ZH-UZH-IMV-3ba6364d/2022	# Strain has same BioSample accession (SAMEA110023964) as Switzerland/ZH-UZH-IMV-3ba63445/2022
Switzerland/BE-ETHZ-674744/2022	# Strain has same BioSample accession (SAMEA110036281) as Switzerland/BE-ETHZ-37316437/2022
Switzerland/BE-IFIK-8117-6976/2022	# Strain has same BioSample accession (SAMEA110043712) as Switzerland/BE-IFIK-8112-6923/2022
Switzerland/BE-Risch-20220523R11757/2022	# Strain has same BioSample accession (SAMEA110049311) as Liechtenstein/FL-Risch-20220521R11788/2022
Switzerland/BE-SRO-500010_8419/2022	# Strain has same BioSample accession (SAMEA110019482) as Switzerland/BE-SRO-500010_7763/2022
Switzerland/BE-SRO-500011_0155/2022	# Strain has same BioSample accession (SAMEA110019481) as Switzerland/BE-SRO-500010_9828/2022
Switzerland/GR-Risch-20220523R11747/2022	# Strain has same BioSample accession (SAMEA110049310) as Liechtenstein/FL-Risch-20220519R11766/2022
Switzerland/GR-Risch-20220525R11718/2022	# Strain has same BioSample accession (SAMEA110049312) as Switzerland/BE-IFIK-8107-6900/2022
Switzerland/SG-ETHZ-674762/2022	# Strain has same BioSample accession (SAMEA110026640) as Switzerland/AG-ETHZ-37348073/2022
Switzerland/TI-ETHZ-674743/2022	# Strain has same BioSample accession (SAMEA110048930) as Switzerland/TG-ETHZ-674763/2022
Switzerland/TI-Risch-20220513R11708/2022	# Strain has same BioSample accession (SAMEA110019483) as Switzerland/GR-Risch-20220523R11753/2022
Switzerland/TI-Risch-20220518R11793/2022	# Strain has same BioSample accession (SAMEA110054807) as Switzerland/BE-IFIK-8108-6917/2022

USA/MN-MDH-29827/2022	# Strain has same BioSample accession (SAMN30934819) as USA/MN-MDH-29826/2022
USA/PA-BOL-M22104610/2022	# Strain has same BioSample accession (SAMN30236249) as USA/PA-BOL-M22104002/2022
USA/PA-BOL-M22104612/2022	# Strain has same BioSample accession (SAMN30236250) as USA/PA-BOL-M22104012/2022
USA/PA-BOL-M22104613/2022	# Strain has same BioSample accession (SAMN30236251) as USA/PA-BOL-M22104109/2022
USA/PA-BOL-M22104619/2022	# Strain has same BioSample accession (SAMN30236252) as USA/PA-BOL-M22104110/2022
USA/PA-BOL-M22104621/2022	# Strain has same BioSample accession (SAMN30236253) as USA/PA-BOL-M22104171/2022
USA/PA-BOL-M22110633/2022	# Strain has same BioSample accession (SAMN30236254) as USA/PA-BOL-M22104258/2022
USA/PA-BOL-M22110669/2022	# Strain has same BioSample accession (SAMN30236255) as USA/PA-BOL-M22104473/2022
USA/PA-BOL-M22110671/2022	# Strain has same BioSample accession (SAMN30236256) as USA/PA-BOL-M22104557/2022
USA/PA-BOL-M22110679/2022	# Strain has same BioSample accession (SAMN30236257) as USA/PA-BOL-M22104627/2022
USA/PA-BOL-M22110681/2022	# Strain has same BioSample accession (SAMN30236258) as USA/PA-BOL-M22104628/2022
USA/PA-BOL-M22110682/2022	# Strain has same BioSample accession (SAMN30236259) as USA/PA-BOL-M22104629/2022
USA/PA-BOL-M22110683/2022	# Strain has same BioSample accession (SAMN30236260) as USA/PA-BOL-M22104630/2022
USA/PA-BOL-M22110692/2022	# Strain has same BioSample accession (SAMN30236261) as USA/PA-BOL-M22104632/2022
USA/PA-BOL-M22110701/2022	# Strain has same BioSample accession (SAMN30236262) as USA/PA-BOL-M22104633/2022
USA/PA-BOL-M22110742/2022	# Strain has same BioSample accession (SAMN30236263) as USA/PA-BOL-M22106299/2022
USA/PA-BOL-M22110794/2022	# Strain has same BioSample accession (SAMN30236264) as USA/PA-BOL-M22106300/2022
USA/PA-BOL-M22110843/2022	# Strain has same BioSample accession (SAMN30236265) as USA/PA-BOL-M22106302/2022
USA/PA-BOL-M22110853/2022	# Strain has same BioSample accession (SAMN30236266) as USA/PA-BOL-M22106313/2022
USA/PA-BOL-M22110910/2022	# Strain has same BioSample accession (SAMN30236267) as USA/PA-BOL-M22107765/2022
USA/PA-BOL-M22110990/2022	# Strain has same BioSample accession (SAMN30236268) as USA/PA-BOL-M22107770/2022
USA/PA-BOL-M22110991/2022	# Strain has same BioSample accession (SAMN30236269) as USA/PA-BOL-M22107773/2022
USA/PA-BOL-M22110992/2022	# Strain has same BioSample accession (SAMN30236270) as USA/PA-BOL-M22107776/2022
USA/PA-BOL-M22110993/2022	# Strain has same BioSample accession (SAMN30236271) as USA/PA-BOL-M22107777/2022
USA/PA-BOL-M22110995/2022	# Strain has same BioSample accession (SAMN30236272) as USA/PA-BOL-M22107786/2022
USA/PA-BOL-M22111003/2022	# Strain has same BioSample accession (SAMN30236273) as USA/PA-BOL-M22107787/2022
USA/PA-BOL-M22111005/2022	# Strain has same BioSample accession (SAMN30236274) as USA/PA-BOL-M22107805/2022
USA/PA-BOL-M22113138/2022	# Strain has same BioSample accession (SAMN30236275) as USA/PA-BOL-M22111006/2022
USA/PA-BOL-M22113201/2022	# Strain has same BioSample accession (SAMN30236276) as USA/PA-BOL-M22111016/2022
USA/PA-BOL-M22113211/2022	# Strain has same BioSample accession (SAMN30236277) as USA/PA-BOL-M22111163/2022
USA/PA-BOL-M22113217/2022	# Strain has same BioSample accession (SAMN30236278) as USA/PA-BOL-M22111380/2022
USA/UT-CDC-2-5689325/2022	# Strain has same BioSample accession (SAMN27762078) as USA/UT-CDC-2-5689325/2021
USA/UT-CDC-2-5689342/2022	# Strain has same BioSample accession (SAMN27762077) as USA/UT-CDC-2-5689342/2021
USA/UT-CDC-2-5689349/2022	# Strain has same BioSample accession (SAMN27762076) as USA/UT-CDC-2-5689349/2021
USA/UT-CDC-2-5689408/2022	# Strain has same BioSample accession (SAMN27762075) as USA/UT-CDC-2-5689408/2021
USA/UT-CDC-2-5689420/2022	# Strain has same BioSample accession (SAMN27762074) as USA/UT-CDC-2-5689420/2021
USA/UT-CDC-2-5721927/2022	# Strain has same BioSample accession (SAMN27762249) as USA/UT-CDC-2-5721927/2021
USA/UT-CDC-2-5721928/2022	# Strain has same BioSample accession (SAMN27762248) as USA/UT-CDC-2-5721928/2021
USA/UT-CDC-2-5721940/2022	# Strain has same BioSample accession (SAMN27762247) as USA/UT-CDC-2-5721940/2021
USA/UT-CDC-2-5722018/2022	# Strain has same BioSample accession (SAMN27762246) as USA/UT-CDC-2-5722018/2021
USA/UT-CDC-2-5722025/2022	# Strain has same BioSample accession (SAMN27762245) as USA/UT-CDC-2-5722025/2021
USA/UT-CDC-2-5722035/2022	# Strain has same BioSample accession (SAMN27762244) as USA/UT-CDC-2-5722035/2021
USA/UT-CDC-2-5777251/2022	# Strain has same BioSample accession (SAMN27761790) as USA/UT-CDC-2-5777251/2021
USA/UT-CDC-2-5777269/2022	# Strain has same BioSample accession (SAMN27761789) as USA/UT-CDC-2-5777269/2021
USA/UT-CDC-2-5777272/2022	# Strain has same BioSample accession (SAMN27761788) as USA/UT-CDC-2-5777272/2021
USA/UT-CDC-2-5777280/2022	# Strain has same BioSample accession (SAMN27761787) as USA/UT-CDC-2-5777280/2021
USA/UT-CDC-2-5777369/2022	# Strain has same BioSample accession (SAMN27761786) as USA/UT-CDC-2-5777369/2021
USA/UT-CDC-2-5777377/2022	# Strain has same BioSample accession (SAMN27761785) as USA/UT-CDC-2-5777377/2021
USA/UT-CDC-2-5807258/2022	# Strain has same BioSample accession (SAMN27621275) as USA/UT-CDC-2-5807258/2021
USA/UT-CDC-2-5807264/2022	# Strain has same BioSample accession (SAMN27621274) as USA/UT-CDC-2-5807264/2021
USA/UT-CDC-2-5807266/2022	# Strain has same BioSample accession (SAMN27621273) as USA/UT-CDC-2-5807266/2021
USA/UT-CDC-2-5807279/2022	# Strain has same BioSample accession (SAMN27621272) as USA/UT-CDC-2-5807279/2021
USA/UT-CDC-2-5807296/2022	# Strain has same BioSample accession (SAMN27621271) as USA/UT-CDC-2-5807296/2021
USA/UT-CDC-2-5807353/2022	# Strain has same BioSample accession (SAMN27621270) as USA/UT-CDC-2-5807353/2021
USA/UT-CDC-2-5807355/2022	# Strain has same BioSample accession (SAMN27621269) as USA/UT-CDC-2-5807355/2021
USA/UT-CDC-2-5807362/2022	# Strain has same BioSample accession (SAMN27621268) as USA/UT-CDC-2-5807362/2021
USA/UT-CDC-2-5847434/2022	# Strain has same BioSample accession (SAMN27727668) as USA/UT-CDC-2-5847434/2021
USA/UT-CDC-2-5847441/2022	# Strain has same BioSample accession (SAMN27727667) as USA/UT-CDC-2-5847441/2021
USA/UT-CDC-2-5847504/2022	# Strain has same BioSample accession (SAMN27727666) as USA/UT-CDC-2-5847504/2021
USA/UT-CDC-2-5847510/2022	# Strain has same BioSample accession (SAMN27727665) as USA/UT-CDC-2-5847510/2021
USA/UT-CDC-2-5847528/2022	# Strain has same BioSample accession (SAMN27727664) as USA/UT-CDC-2-5847528/2021
USA/UT-CDC-2-5847542/2022	# Strain has same BioSample accession (SAMN27727663) as USA/UT-CDC-2-5847542/2021
USA/UT-CDC-2-5847549/2022	# Strain has same BioSample accession (SAMN27727662) as USA/UT-CDC-2-5847549/2021
USA/UT-CDC-2-5847550/2022	# Strain has same BioSample accession (SAMN27727661) as USA/UT-CDC-2-5847550/2021
USA/UT-CDC-2-5847605/2022	# Strain has same BioSample accession (SAMN27727660) as USA/UT-CDC-2-5847605/2021
USA/UT-CDC-2-5904057/2022	# Strain has same BioSample accession (SAMN28058585) as USA/UT-CDC-2-5904057/2021
USA/UT-CDC-2-5904061/2022	# Strain has same BioSample accession (SAMN28058584) as USA/UT-CDC-2-5904061/2021
USA/UT-CDC-2-5904066/2022	# Strain has same BioSample accession (SAMN28058583) as USA/UT-CDC-2-5904066/2021
USA/UT-CDC-2-5904077/2022	# Strain has same BioSample accession (SAMN28058582) as USA/UT-CDC-2-5904077/2021
USA/UT-CDC-2-5904154/2022	# Strain has same BioSample accession (SAMN28058581) as USA/UT-CDC-2-5904154/2021
USA/UT-CDC-2-5904156/2022	# Strain has same BioSample accession (SAMN28058580) as USA/UT-CDC-2-5904156/2021
USA/UT-CDC-2-5930401/2022	# Strain has same BioSample accession (SAMN28192062) as USA/UT-CDC-2-5930401/2021
USA/UT-CDC-2-5930413/2022	# Strain has same BioSample accession (SAMN28192061) as USA/UT-CDC-2-5930413/2021
USA/UT-CDC-2-5930416/2022	# Strain has same BioSample accession (SAMN28192060) as USA/UT-CDC-2-5930416/2021
USA/UT-CDC-2-5930422/2022	# Strain has same BioSample accession (SAMN28192059) as USA/UT-CDC-2-5930422/2021
USA/UT-CDC-2-5930436/2022	# Strain has same BioSample accession (SAMN28192058) as USA/UT-CDC-2-5930436/2021
USA/UT-CDC-2-5930449/2022	# Strain has same BioSample accession (SAMN28192057) as USA/UT-CDC-2-5930449/2021
USA/UT-CDC-2-5930509/2022	# Strain has same BioSample accession (SAMN28192056) as USA/UT-CDC-2-5930509/2021
USA/UT-CDC-2-5930514/2022	# Strain has same BioSample accession (SAMN28192055) as USA/UT-CDC-2-5930514/2021
USA/UT-CDC-2-5930521/2022	# Strain has same BioSample accession (SAMN28192054) as USA/UT-CDC-2-5930521/2021
USA/UT-CDC-2-5972452/2022	# Strain has same BioSample accession (SAMN28679788) as USA/UT-CDC-2-5972452/2021
USA/UT-CDC-2-5973853/2022	# Strain has same BioSample accession (SAMN28679787) as USA/UT-CDC-2-5973853/2021
USA/UT-CDC-2-5973868/2022	# Strain has same BioSample accession (SAMN28679786) as USA/UT-CDC-2-5973868/2021
USA/UT-CDC-2-5973881/2022	# Strain has same BioSample accession (SAMN28679785) as USA/UT-CDC-2-5973881/2021
USA/UT-CDC-2-5973951/2022	# Strain has same BioSample accession (SAMN28679784) as USA/UT-CDC-2-5973951/2021
USA/UT-CDC-2-5973965/2022	# Strain has same BioSample accession (SAMN28679783) as USA/UT-CDC-2-5973965/2021
USA/UT-CDC-2-5973968/2022	# Strain has same BioSample accession (SAMN28679782) as USA/UT-CDC-2-5973968/2021
USA/UT-CDC-2-5973975/2022	# Strain has same BioSample accession (SAMN28679781) as USA/UT-CDC-2-5973975/2021
USA/UT-CDC-2-5973980/2022	# Strain has same BioSample accession (SAMN28679780) as USA/UT-CDC-2-5973980/2021
USA/UT-CDC-2-5973987/2022	# Strain has same BioSample accession (SAMN28679779) as USA/UT-CDC-2-5973987/2021
USA/UT-CDC-2-5987438/2022	# Strain has same BioSample accession (SAMN28679778) as USA/UT-CDC-2-5987438/2021
USA/UT-CDC-2-5987509/2022	# Strain has same BioSample accession (SAMN28679777) as USA/UT-CDC-2-5987509/2021
USA/UT-CDC-2-6005574/2022	# Strain has same BioSample accession (SAMN28834371) as USA/UT-CDC-2-6005574/2021
USA/UT-CDC-2-6005578/2022	# Strain has same BioSample accession (SAMN28834370) as USA/UT-CDC-2-6005578/2021
USA/UT-CDC-2-6005654/2022	# Strain has same BioSample accession (SAMN28834369) as USA/UT-CDC-2-6005654/2021
USA/UT-CDC-2-6005656/2022	# Strain has same BioSample accession (SAMN28834368) as USA/UT-CDC-2-6005656/2021
USA/UT-CDC-2-6005657/2022	# Strain has same BioSample accession (SAMN28834367) as USA/UT-CDC-2-6005657/2021
USA/UT-CDC-2-6005665/2022	# Strain has same BioSample accession (SAMN28834366) as USA/UT-CDC-2-6005665/2021
USA/UT-CDC-2-6005674/2022	# Strain has same BioSample accession (SAMN28834365) as USA/UT-CDC-2-6005674/2021
USA/UT-CDC-2-6005755/2022	# Strain has same BioSample accession (SAMN28834364) as USA/UT-CDC-2-6005755/2021
USA/UT-CDC-2-6005757/2022	# Strain has same BioSample accession (SAMN28834363) as USA/UT-CDC-2-6005757/2021
USA/UT-CDC-2-6072438/2022	# Strain has same BioSample accession (SAMN29041942) as USA/UT-CDC-2-6072438/2021
USA/UT-CDC-2-6072501/2022	# Strain has same BioSample accession (SAMN29041941) as USA/UT-CDC-2-6072501/2021
USA/UT-CDC-2-6072508/2022	# Strain has same BioSample accession (SAMN29041940) as USA/UT-CDC-2-6072508/2021
USA/UT-CDC-2-6072509/2022	# Strain has same BioSample accession (SAMN29041939) as USA/UT-CDC-2-6072509/2021
USA/UT-CDC-2-6072521/2022	# Strain has same BioSample accession (SAMN29041938) as USA/UT-CDC-2-6072521/2021
USA/UT-CDC-2-6072542/2022	# Strain has same BioSample accession (SAMN29041937) as USA/UT-CDC-2-6072542/2021
USA/UT-CDC-2-6072548/2022	# Strain has same BioSample accession (SAMN29041936) as USA/UT-CDC-2-6072548/2021
USA/UT-CDC-2-6072549/2022	# Strain has same BioSample accession (SAMN29041935) as USA/UT-CDC-2-6072549/2021
USA/UT-CDC-2-6072607/2022	# Strain has same BioSample accession (SAMN29041934) as USA/UT-CDC-2-6072607/2021
USA/UT-CDC-2-6072619/2022	# Strain has same BioSample accession (SAMN29041933) as USA/UT-CDC-2-6072619/2021
USA/UT-CDC-2-6092742/2022	# Strain has same BioSample accession (SAMN29500549) as USA/UT-CDC-2-6092742/2021
USA/UT-CDC-2-6092814/2022	# Strain has same BioSample accession (SAMN29500547) as USA/UT-CDC-2-6092814/2021
USA/UT-CDC-2-6092846/2022	# Strain has same BioSample accession (SAMN29500546) as USA/UT-CDC-2-6092846/2021
USA/UT-CDC-2-6092847/2022	# Strain has same BioSample accession (SAMN29500545) as USA/UT-CDC-2-6092847/2021
USA/UT-CDC-2-6092903/2022	# Strain has same BioSample accession (SAMN29500544) as USA/UT-CDC-2-6092903/2021
USA/UT-CDC-2-6092913/2022	# Strain has same BioSample accession (SAMN29500542) as USA/UT-CDC-2-6092913/2021
USA/UT-CDC-2-6137378/2022	# Strain has same BioSample accession (SAMN29501378) as USA/UT-CDC-2-6137378/2021
USA/UT-CDC-2-6137379/2022	# Strain has same BioSample accession (SAMN29501377) as USA/UT-CDC-2-6137379/2021
USA/UT-CDC-2-6137392/2022	# Strain has same BioSample accession (SAMN29501376) as USA/UT-CDC-2-6137392/2021
USA/UT-CDC-2-6137398/2022	# Strain has same BioSample accession (SAMN29501375) as USA/UT-CDC-2-6137398/2021
USA/UT-CDC-2-6137461/2022	# Strain has same BioSample accession (SAMN29501374) as USA/UT-CDC-2-6137461/2021
USA/UT-CDC-2-6137463/2022	# Strain has same BioSample accession (SAMN29501373) as USA/UT-CDC-2-6137463/2021
USA/UT-CDC-2-6137480/2022	# Strain has same BioSample accession (SAMN29501372) as USA/UT-CDC-2-6137480/2021
USA/UT-CDC-2-6137489/2022	# Strain has same BioSample accession (SAMN29501371) as USA/UT-CDC-2-6137489/2021
USA/UT-CDC-2-6137496/2022	# Strain has same BioSample accession (SAMN29501370) as USA/UT-CDC-2-6137496/2021
USA/UT-CDC-2-6137559/2022	# Strain has same BioSample accession (SAMN29501369) as USA/UT-CDC-2-6137559/2021
USA/UT-CDC-2-6168012/2022	# Strain has same BioSample accession (SAMN29715150) as USA/UT-CDC-2-6168012/2021
USA/UT-CDC-2-6168027/2022	# Strain has same BioSample accession (SAMN29715149) as USA/UT-CDC-2-6168027/2021
USA/UT-CDC-2-6168028/2022	# Strain has same BioSample accession (SAMN29715148) as USA/UT-CDC-2-6168028/2021
USA/UT-CDC-2-6168040/2022	# Strain has same BioSample accession (SAMN29715147) as USA/UT-CDC-2-6168040/2021
USA/UT-CDC-2-6168110/2022	# Strain has same BioSample accession (SAMN29715146) as USA/UT-CDC-2-6168110/2021
USA/UT-CDC-2-6168127/2022	# Strain has same BioSample accession (SAMN29715144) as USA/UT-CDC-2-6168127/2021
USA/UT-CDC-2-6168134/2022	# Strain has same BioSample accession (SAMN29715143) as USA/UT-CDC-2-6168134/2021
USA/UT-CDC-2-6168139/2022	# Strain has same BioSample accession (SAMN29715142) as USA/UT-CDC-2-6168139/2021
USA/UT-CDC-2-6168146/2022	# Strain has same BioSample accession (SAMN29715141) as USA/UT-CDC-2-6168146/2021
USA/UT-CDC-2-6184982/2022	# Strain has same BioSample accession (SAMN30051027) as USA/UT-CDC-2-6184982/2021
USA/UT-CDC-2-6185060/2022	# Strain has same BioSample accession (SAMN30051026) as USA/UT-CDC-2-6185060/2021
USA/UT-CDC-2-6185063/2022	# Strain has same BioSample accession (SAMN30051025) as USA/UT-CDC-2-6185063/2021
USA/UT-CDC-2-6185064/2022	# Strain has same BioSample accession (SAMN30051024) as USA/UT-CDC-2-6185064/2021
USA/UT-CDC-2-6185069/2022	# Strain has same BioSample accession (SAMN30051023) as USA/UT-CDC-2-6185069/2021
USA/UT-CDC-2-6185080/2022	# Strain has same BioSample accession (SAMN30051021) as USA/UT-CDC-2-6185080/2021
USA/UT-CDC-2-6185157/2022	# Strain has same BioSample accession (SAMN30051020) as USA/UT-CDC-2-6185157/2021
USA/UT-CDC-2-6185159/2022	# Strain has same BioSample accession (SAMN30051019) as USA/UT-CDC-2-6185159/2021

# Omicron 21L viruses that are over-diverged relative to sample date
India/NL-IBSD-DMP-P13-102/2021
TrinidadandTobago/171121/2022

# Misdated Alpha
Kenya/MKU-10/2020
Kyrgyzstan/NRL-18920/2020
Nigeria/CRL-013/2020
Romania/SV_SJU_18749/2020
Senegal/24961/2020
Spain/AN-CBA-02819/2020

# Misdated Beta
Kyrgyzstan/NRL-52392/2020

# Misdated Delta
Germany/NW-RKI-I-307412/2020
PapuaNewGuinea/PNG7196/2021
U.S.VirginIslands/VI-Yale-10210/2020
U.S.VirginIslands/VI-Yale-10211/2020

# Misdated Eta
Libya/421067082/2020
Libya/421067084/2020
Libya/421067087/2020
Libya/421067088/2020
Libya/421067089/2020
Libya/421067094/2020
Libya/MZ054862/2020
Libya/MZ054876/2020
Libya/MZ054887/2020
Senegal/28296/2020

# Misdated XBB-derived
Canada/PE-NML-611219/2022
Guatemala/10994-LNS/2022
Haiti/IMIS-2022220574/2022
Haiti/LNSP-74020007/2022
Haiti/LNSP-74040017/2022
Haiti/LNSP-80180150/2022
Haiti/LNSP-84180031/2022
Kenya/SS11921/2022
Sudan/0046/2022

# Misdated BA.5-derived
AmericanSamoa/AS-H2319334/2022
Bolivia/CBBA-PUC_MVL_3353/2021
Brazil/MG-LBI_23/2022
Cameroon/V-05782/2022
Cameroon/V-06276/2022
Chile/AP-102862/2022
Colombia/ANT-LDSP3456/2022
Djibouti/NAMRU3_SOTF_EA_36/2022
France/GES-HMN-22102310174/2022
Gambia/34644U/2022
Ghana/NMIMR-CT-22-1651/2022
Indonesia/SA-LBMUNSRAT-WGSLBM-052/2022
Italy/EMR_AUSLRomagna_C004-23-20/2022
Italy/EMR_AUSLRomagna_C004-23-24/2022
Italy/EMR_AUSLRomagna_C004-23-25/2022
Italy/EMR_AUSLRomagna_C005-23-04/2022
Mexico/GRO-INMEGEN-88-118/2022
Mexico/MEX-INMEGEN-88-193/2022
Mexico/MEX-INMEGEN-88-199/2022
USA/FL-BPHL-10741/2022
USA/IL-S22WGS6542/2022
USA/MT-MTPHL-3965241/2022

# Misdated BA.2.75-derived
Argentina/INEI-124232/2022
Australia/NSW-SAVID-14870/2022
Australia/NSW-SAVID-15023/2022
Australia/WA10703/2022
Chongqing/YBCDC-0126/2022
India/MH-ICMR-INSACOG-WG5143/2022
Peru/JUN-INS-41797/2022

# Early divergence
DRC/ILRI_COVM00360/2020
Lebanon/LAU-R126/2020
Lebanon/LAU-R178/2020
Lebanon/LAU-R350/2020
OX593060
USA/CO_c8ftxs_20200117/2020
Venezuela/Zul183/2020

# Seemingly misdated seqs from Mayo Clinic coming in Aug 2023 - dates are late 2020 but are Alpha, Delta, Omicron etc etc 
USA/MN-Mayo-135/2020
USA/MN-Mayo-1351/2020
USA/MN-Mayo-137/2020
USA/MN-Mayo-1378/2020
USA/MN-Mayo-1379/2020
USA/MN-Mayo-1380/2020
USA/MN-Mayo-1381/2020
USA/MN-Mayo-1382/2020
USA/MN-Mayo-1384/2020
USA/MN-Mayo-1385/2020
USA/MN-Mayo-1386/2020
USA/MN-Mayo-1387/2020
USA/MN-Mayo-1388/2020
USA/MN-Mayo-1390/2020
USA/MN-Mayo-1391/2020
USA/MN-Mayo-1393/2020
USA/MN-Mayo-1395/2020
USA/MN-Mayo-1397/2020
USA/MN-Mayo-1402/2020
USA/MN-Mayo-1403/2020
USA/MN-Mayo-1405/2020
USA/MN-Mayo-1416/2020
USA/MN-Mayo-143/2020
USA/MN-Mayo-1/2020
USA/MN-Mayo-1000/2020
USA/MN-Mayo-1001/2020
USA/MN-Mayo-1002/2020
USA/MN-Mayo-1003/2020
USA/MN-Mayo-1005/2020
USA/MN-Mayo-1007/2020
USA/MN-Mayo-1008/2020
USA/MN-Mayo-1009/2020
USA/MN-Mayo-1010/2020
USA/MN-Mayo-1012/2020
USA/MN-Mayo-1013/2020
USA/MN-Mayo-1014/2020
USA/MN-Mayo-1015/2020
USA/MN-Mayo-1298/2020
USA/MN-Mayo-1299/2020
USA/MN-Mayo-1300/2020
USA/MN-Mayo-1304/2020
USA/MN-Mayo-1308/2020
USA/MN-Mayo-1313/2020
USA/MN-Mayo-15/2020
USA/MN-Mayo-1500/2020
USA/MN-Mayo-1501/2020
USA/MN-Mayo-1502/2020
USA/MN-Mayo-1504/2020
USA/MN-Mayo-1533/2020
USA/MN-Mayo-1563/2020
USA/MN-Mayo-1564/2020
USA/MN-Mayo-1674/2020
USA/MN-Mayo-18/2020
USA/MN-Mayo-101/2020
USA/MN-Mayo-1017/2020
USA/MN-Mayo-1026/2020
USA/MN-Mayo-1029/2020
USA/MN-Mayo-1042/2020
USA/MN-Mayo-1048/2020
USA/MN-Mayo-1320/2020
USA/MN-Mayo-133/2020
USA/MN-Mayo-1338/2020
USA/MN-Mayo-1339/2020
USA/MN-Mayo-1340/2020
USA/MN-Mayo-1374/2020
USA/MN-Mayo-1664/2020
USA/MN-Mayo-1668/2020
USA/MN-Mayo-1673/2020
USA/MN-Mayo-1717/2020
USA/MN-Mayo-1011/2020
USA/MN-Mayo-1503/2020
USA/MN-Mayo-1305/2020
USA/MN-Mayo-10/2020
USA/MN-Mayo-100/2020
USA/MN-Mayo-1004/2020
USA/MN-Mayo-1016/2020
USA/MN-Mayo-1018/2020
USA/MN-Mayo-1019/2020
USA/MN-Mayo-102/2020
USA/MN-Mayo-1020/2020
USA/MN-Mayo-1021/2020
USA/MN-Mayo-1022/2020
USA/MN-Mayo-1023/2020
USA/MN-Mayo-1024/2020
USA/MN-Mayo-1025/2020
USA/MN-Mayo-1027/2020
USA/MN-Mayo-1028/2020
USA/MN-Mayo-103/2020
USA/MN-Mayo-1030/2020
USA/MN-Mayo-1031/2020
USA/MN-Mayo-1032/2020
USA/MN-Mayo-1033/2020
USA/MN-Mayo-1034/2020
USA/MN-Mayo-1035/2020
USA/MN-Mayo-1036/2020
USA/MN-Mayo-1037/2020
USA/MN-Mayo-1038/2020
USA/MN-Mayo-1039/2020
USA/MN-Mayo-104/2020
USA/MN-Mayo-1040/2020
USA/MN-Mayo-1041/2020
USA/MN-Mayo-1043/2020
USA/MN-Mayo-1044/2020
USA/MN-Mayo-1045/2020
USA/MN-Mayo-1046/2020
USA/MN-Mayo-1047/2020
USA/MN-Mayo-1314/2020
USA/MN-Mayo-1315/2020
USA/MN-Mayo-1316/2020
USA/MN-Mayo-1317/2020
USA/MN-Mayo-1318/2020
USA/MN-Mayo-1319/2020
USA/MN-Mayo-1321/2020
USA/MN-Mayo-1322/2020
USA/MN-Mayo-1323/2020
USA/MN-Mayo-1324/2020
USA/MN-Mayo-1325/2020
USA/MN-Mayo-1333/2020
USA/MN-Mayo-1334/2020
USA/MN-Mayo-1335/2020
USA/MN-Mayo-1336/2020
USA/MN-Mayo-1337/2020
USA/MN-Mayo-134/2020
USA/MN-Mayo-1342/2020
USA/MN-Mayo-1343/2020
USA/MN-Mayo-1344/2020
USA/MN-Mayo-1346/2020
USA/MN-Mayo-1347/2020
USA/MN-Mayo-1348/2020
USA/MN-Mayo-1349/2020
USA/MN-Mayo-1350/2020
USA/MN-Mayo-1352/2020
USA/MN-Mayo-1353/2020
USA/MN-Mayo-1354/2020
USA/MN-Mayo-1355/2020
USA/MN-Mayo-1356/2020
USA/MN-Mayo-1357/2020
USA/MN-Mayo-1358/2020
USA/MN-Mayo-136/2020
USA/MN-Mayo-1360/2020
USA/MN-Mayo-1361/2020
USA/MN-Mayo-1362/2020
USA/MN-Mayo-1363/2020
USA/MN-Mayo-1364/2020
USA/MN-Mayo-1365/2020
USA/MN-Mayo-1367/2020
USA/MN-Mayo-1368/2020
USA/MN-Mayo-1369/2020
USA/MN-Mayo-1370/2020
USA/MN-Mayo-1371/2020
USA/MN-Mayo-1372/2020
USA/MN-Mayo-1373/2020
USA/MN-Mayo-1376/2020
USA/MN-Mayo-1377/2020
USA/MN-Mayo-138/2020
USA/MN-Mayo-1383/2020
USA/MN-Mayo-1394/2020
USA/MN-Mayo-1396/2020
USA/MN-Mayo-1398/2020
USA/MN-Mayo-1399/2020
USA/MN-Mayo-140/2020
USA/MN-Mayo-1400/2020
USA/MN-Mayo-1401/2020
USA/MN-Mayo-1404/2020
USA/MN-Mayo-1406/2020
USA/MN-Mayo-1407/2020
USA/MN-Mayo-1408/2020
USA/MN-Mayo-1409/2020
USA/MN-Mayo-141/2020
USA/MN-Mayo-1410/2020
USA/MN-Mayo-1411/2020
USA/MN-Mayo-1412/2020
USA/MN-Mayo-1413/2020
USA/MN-Mayo-1414/2020
USA/MN-Mayo-1415/2020
USA/MN-Mayo-1514/2020
USA/MN-Mayo-160/2020
USA/MN-Mayo-163/2020
USA/MN-Mayo-1650/2020
USA/MN-Mayo-1652/2020
USA/MN-Mayo-1653/2020
USA/MN-Mayo-1655/2020
USA/MN-Mayo-1656/2020
USA/MN-Mayo-1660/2020
USA/MN-Mayo-1666/2020
USA/MN-Mayo-1667/2020
USA/MN-Mayo-1669/2020
USA/MN-Mayo-167/2020
USA/MN-Mayo-1670/2020
USA/MN-Mayo-1671/2020
USA/MN-Mayo-1672/2020
USA/MN-Mayo-1675/2020
USA/MN-Mayo-1676/2020
USA/MN-Mayo-1677/2020
USA/MN-Mayo-1678/2020
USA/MN-Mayo-1679/2020
USA/MN-Mayo-1681/2020
USA/MN-Mayo-1682/2020
USA/MN-Mayo-1684/2020
USA/MN-Mayo-1685/2020
USA/MN-Mayo-1686/2020
USA/MN-Mayo-171/2020
USA/MN-Mayo-1718/2020
USA/MN-Mayo-1726/2020
USA/MN-Mayo-1727/2020
USA/MN-Mayo-1728/2020
USA/MN-Mayo-1729/2020
USA/MN-Mayo-1730/2020
USA/MN-Mayo-175/2020
USA/MN-Mayo-1754/2020
USA/MN-Mayo-1755/2020
USA/MN-Mayo-1756/2020
USA/MN-Mayo-1758/2020
USA/MN-Mayo-1759/2020
USA/MN-Mayo-176/2020
USA/MN-Mayo-1760/2020
USA/MN-Mayo-1761/2020
USA/MN-Mayo-1762/2020
USA/MN-Mayo-1763/2020

# BA.2.86 / JN.1 with too many mutations relative to date
Botswana/R233B75_BHP_day003/2023
SouthAfrica/NICD-N56098/2023
SouthAfrica/NICD-N56974/2023

# Misdated BA.2.86 / JN.1
DRC/INRB-DRC-001/2023