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{"sheet":"nextclade","index":0,"n_rows":35,"n_cols":41,"rows_kept":35,"flags":["formulas_cached_only"]}
["seqName","clade","qc.overallScore","qc.overallStatus","totalAminoacidChanges","totalGaps","totalInsertions","totalMissing","totalMutations","totalNonACGTNs","totalPcrPrimerChanges","substitutions","deletions","insertions","aminoacidChanges","missing","nonACGTNs","pcrPrimerChanges","alignmentEnd","alignmentScore","alignmentStart","qc.missingData.missingDataThreshold","qc.missingData.score","qc.missingData.status","qc.missingData.totalMissing","qc.mixedSites.mixedSitesThreshold","qc.mixedSites.score","qc.mixedSites.status","qc.mixedSites.totalMixedSites","qc.privateMutations.cutoff","qc.privateMutations.excess","qc.privateMutations.score","qc.privateMutations.status","qc.privateMutations.total","qc.snpClusters.clusteredSNPs","qc.snpClusters.score","qc.snpClusters.status","qc.snpClusters.totalSNPs","errors","qc.seqName","nearestTreeNodeId"]
["IHUMI-2177_Second_period","20A",0,"good",11,15,0,200,14,0,1,"C241T,G1181T,C1625T,C3037T,C14408T,A20268G,C22088T,G22894A,A23403G,C25886T,T27222C,G28198T,C28833T,G28851T","23585-23600",null,"ORF1a:V306F,ORF1a:L454F,ORF1b:P314L,S:L176F,S:D614G,ORF3a:S165F,ORF8:C102F,N:S187L,ORF14:H34Y,N:S193I,ORF14:V40F","1-101,29804-29904",null,"CharitÃ©_N_R:C28833T",29902,89604,0,3000,0,"good",200,10,0,"good",0,15,-2,0,"good",3,null,0,"good",0,null,"IHUMI-2177_Second_period",589]
["IHUMI-3_First_period","20B","3.1211111111111114","good",8,0,0,777,10,0,3,"C241T,C3037T,A10599C,G10601C,C14408T,A23403G,T23776C,G28881A,G28882A,G28883C",null,null,"ORF1a:Y3445S,ORF1a:G3446R,ORF1b:P314L,S:D614G,N:R203K,ORF14:G50R,ORF14:G50E,N:G204R","1-173,274-292,1707-1732,2297-2323,3889-3920,5926-5959,8495-8502,22433,22665,23458-23508,23922-24002,29309-29527,29705-29720,29804-29904",null,"ChinaCDC_N_F:G28881A;G28882A;G28883C",29902,89669,0,3000,"17.666666666666668","good",777,10,0,"good",0,15,-2,0,"good",3,null,0,"good",0,null,"IHUMI-3_First_period",1008]
["IHUMI-6_First_period","20A",0,"good",4,15,0,200,9,0,0,"C241T,C2416T,C3037T,A8405C,C12068T,C14408T,A23403G,G25563T,C28657T","23585-23600",null,"ORF1a:N2714H,ORF1b:P314L,S:D614G,ORF3a:Q57H","1-101,29804-29904",null,null,29902,89624,0,3000,0,"good",200,10,0,"good",0,15,-1,0,"good",4,null,0,"good",0,null,"IHUMI-6_First_period",655]
["IHUMI-243-First_period","20A","7.111111111111112","good",6,0,0,200,14,0,0,"C241T,T1798C,A1801C,C3037T,G6404T,C7528T,C8208T,C14408T,C15324T,C20823T,C21575T,A23403G,A27949G,C29362T",null,null,"ORF1a:V2047F,ORF1a:T2648I,ORF1b:P314L,S:L5F,S:D614G,ORF8:E19G","1-101,29804-29904",null,null,29902,89653,0,3000,0,"good",200,10,0,"good",0,15,4,"26.666666666666668","good",9,null,0,"good",0,null,"IHUMI-243-First_period",401]
["IHUMI-284_538-First_period","20A",0,"good",4,0,0,218,7,0,0,"C241T,C3037T,C14408T,C18175T,A20268G,A23403G,C28531T",null,null,"ORF1b:P314L,ORF1b:P1570S,S:D614G,ORF9b:T83I","1-119,29804-29904",null,null,29902,89681,0,3000,0,"good",218,10,0,"good",0,15,-3,0,"good",2,null,0,"good",0,null,"IHUMI-284_538-First_period",523]
["IHUMI-288_614-First_period","20C",0,"good",5,0,0,200,7,0,0,"C241T,C1059T,C3037T,C14408T,A23403G,G25563T,G27996T",null,null,"ORF1a:T265I,ORF1b:P314L,S:D614G,ORF3a:Q57H,ORF8:D35Y","1-101,29804-29904",null,null,29902,89681,0,3000,0,"good",200,10,0,"good",0,15,-4,0,"good",1,null,0,"good",0,null,"IHUMI-288_614-First_period",824]
["IHUMI-364_599-First_period","20A",0,"good",2,0,0,200,6,0,0,"C241T,C3037T,C14408T,C15324T,T18495C,A23403G",null,null,"ORF1b:P314L,S:D614G","1-101,29804-29904",null,null,29902,89685,0,3000,0,"good",200,10,0,"good",0,15,-4,0,"good",1,null,0,"good",0,null,"IHUMI-364_599-First_period",401]
["IHUMI-624_719-First_period","20A","1.1063923182441702","good",5,0,0,584,8,0,0,"C241T,A1056G,C2416T,C3037T,G8371T,C14408T,A23403G,G25563T",null,null,"ORF1a:D264G,ORF1a:Q2702H,ORF1b:P314L,S:D614G,ORF3a:Q57H","1-127,2383-2407,23983-24142,29629-29904",null,null,29902,89677,0,3000,"10.518518518518519","good",584,10,0,"good",0,15,-4,0,"good",1,null,0,"good",0,null,"IHUMI-624_719-First_period",663]
["IHUMI-684_743-First_period","20A",0,"good",3,0,0,200,5,0,0,"C241T,C3037T,C14408T,A23403G,G25563T",null,null,"ORF1b:P314L,S:D614G,ORF3a:Q57H","1-101,29804-29904",null,null,29902,89689,0,3000,0,"good",200,10,0,"good",0,15,-5,0,"good",0,null,0,"good",0,null,"IHUMI-684_743-First_period",623]
["IHUMI-717_742-First_period","20B",0,"good",10,0,0,200,12,0,3,"C241T,C313T,C3037T,A7903G,C14408T,G19518T,A23403G,G26143T,G28845T,G28881A,G28882A,G28883C",null,null,"ORF1b:P314L,ORF1b:L2017F,S:D614G,ORF3a:G251C,N:R191L,ORF14:A38S,N:R203K,ORF14:G50R,ORF14:G50E,N:G204R","1-101,29804-29904",null,"ChinaCDC_N_F:G28881A;G28882A;G28883C",29902,89661,0,3000,0,"good",200,10,0,"good",0,15,-1,0,"good",4,null,0,"good",0,null,"IHUMI-717_742-First_period",1538]
["IHUMI-11-First_period","20A","8.281604938271606","good",3,0,0,1077,7,0,0,"C241T,C3037T,A13693T,C14408T,C15324T,A18777G,A23403G",null,null,"ORF1b:T76S,ORF1b:P314L,S:D614G","1-101,1520-1526,2034-2177,3915,4125,6144-6172,6183-6185,6192,7499-7501,7506-7508,7559-7580,7859-7911,7949-7965,8801,10184-10293,10591,10594,11014-11069,11143,11219-11250,11775-11787,13684,18265-18318,18673-18772,18778,19381,20112-20299,21988,22566-22572,23970,24020,24029-24068,24087,29804-29904",null,null,29902,89681,0,3000,"28.77777777777778","good",1077,10,0,"good",0,15,-3,0,"good",2,null,0,"good",0,null,"IHUMI-11-First_period",401]
["IHUMI-15_First_period","20B","5.375528120713307","good",8,9,0,926,10,0,3,"C241T,C3037T,A13693T,C14408T,G17561T,T19839C,A23403G,G28881A,G28882A,G28883C","686-695",null,"ORF1b:T76S,ORF1b:P314L,ORF1b:R1365L,S:D614G,N:R203K,ORF14:G50R,ORF14:G50E,N:G204R","1-101,2451-2480,2532-2607,3829,6065-6067,6095,6188,6880-6948,8109,8111,8115-8118,8121,8123,8130,8307-8507,8675-8775,8985-8991,8994,9140-9198,10740-10776,12242,13475,14637,19464,19477,19516,19518-19520,19939-20053,22200,24054-24070,27038,29804-29904",null,"ChinaCDC_N_F:G28881A;G28882A;G28883C",29902,89638,0,3000,"23.185185185185187","good",926,10,0,"good",0,15,-2,0,"good",3,null,0,"good",0,null,"IHUMI-15_First_period",1435]
["IHUMI-240_First_period","20C",0,"good",5,0,0,200,8,0,0,"C241T,C541T,C1059T,C3037T,G11083T,C14408T,A23403G,G25563T",null,null,"ORF1a:T265I,ORF1a:L3606F,ORF1b:P314L,S:D614G,ORF3a:Q57H","1-101,29804-29904",null,null,29902,89677,0,3000,0,"good",200,10,0,"good",0,15,-4,0,"good",1,null,0,"good",0,null,"IHUMI-240_First_period",916]
["IHUMI-215_611_First_period","20A",0,"good",4,0,0,201,7,0,0,"C241T,C2416T,C3037T,G8371T,C14408T,A23403G,G25563T",null,null,"ORF1a:Q2702H,ORF1b:P314L,S:D614G,ORF3a:Q57H","1-101,7459,29804-29904",null,null,29902,89681,0,3000,0,"good",201,10,0,"good",0,15,-5,0,"good",0,null,0,"good",0,null,"IHUMI-215_611_First_period",663]
["IHUMI-713_800_Fisrt_period","20A",0,"good",5,0,0,200,8,0,0,"C241T,C2416T,C3037T,G8371T,C14408T,C16816A,A23403G,G25563T",null,null,"ORF1a:Q2702H,ORF1b:P314L,ORF1b:Q1117K,S:D614G,ORF3a:Q57H","1-101,29804-29904",null,null,29902,89677,0,3000,0,"good",200,10,0,"good",0,15,-4,0,"good",1,null,0,"good",0,null,"IHUMI-713_800_Fisrt_period",663]
["IHUMI-880_990_First_period","20B",0,"good",6,0,0,200,7,0,3,"C241T,C3037T,C14408T,A23403G,G28881A,G28882A,G28883C",null,null,"ORF1b:P314L,S:D614G,N:R203K,ORF14:G50R,ORF14:G50E,N:G204R","1-101,29804-29904",null,"ChinaCDC_N_F:G28881A;G28882A;G28883C",29902,89681,0,3000,0,"good",200,10,0,"good",0,15,-5,0,"good",0,null,0,"good",0,null,"IHUMI-880_990_First_period",1008]
["IHUMI-598_801_First_period","20C",0,"good",8,0,0,201,11,0,0,"C241T,C1059T,C3037T,G11083T,C14408T,C16394T,C22458T,A23403G,G25563T,C28651T,C29363T",null,null,"ORF1a:T265I,ORF1a:L3606F,ORF1b:P314L,ORF1b:P976L,S:T299I,S:D614G,ORF3a:Q57H,N:P364S","1-101,21825,29804-29904",null,null,29902,89665,0,3000,0,"good",201,10,0,"good",0,15,-1,0,"good",4,null,0,"good",0,null,"IHUMI-598_801_First_period",916]
["IHUMI-2122_Second_period","20A",0,"good",10,0,0,272,12,0,1,"C241T,G1181T,C1625T,C3037T,C14408T,A20268G,G22894A,A23403G,C25886T,G28198T,C28833T,G28851T",null,null,"ORF1a:V306F,ORF1a:L454F,ORF1b:P314L,S:D614G,ORF3a:S165F,ORF8:C102F,N:S187L,ORF14:H34Y,N:S193I,ORF14:V40F","1-101,27573-27645,29804-29904",null,"CharitÃ©_N_R:C28833T",29902,89661,0,3000,0,"good",272,10,0,"good",0,15,-5,0,"good",0,null,0,"good",0,null,"IHUMI-2122_Second_period",589]
["IHUMI-2123_second_period","20A",0,"good",10,0,0,200,12,0,1,"C241T,G1181T,C1625T,C3037T,C14408T,A20268G,G22894A,A23403G,C25886T,G28198T,C28833T,G28851T",null,null,"ORF1a:V306F,ORF1a:L454F,ORF1b:P314L,S:D614G,ORF3a:S165F,ORF8:C102F,N:S187L,ORF14:H34Y,N:S193I,ORF14:V40F","1-101,29804-29904",null,"CharitÃ©_N_R:C28833T",29902,89661,0,3000,0,"good",200,10,0,"good",0,15,-5,0,"good",0,null,0,"good",0,null,"IHUMI-2123_second_period",589]
["IHUMI-2137_second_period","20C",0,"good",16,0,0,209,28,0,1,"C241T,C1059T,C3037T,C3099T,G4960T,C4965T,C6070T,C7303T,C7564T,C9142T,C9246T,C10279T,C10301A,C10525T,C10582T,G10688T,G11851T,C14230A,C14408T,G21800T,C23086T,A23403G,G25563T,G27632T,C27804T,C28830A,G29402T,G29779T",null,null,"ORF1a:T265I,ORF1a:T945I,ORF1a:T1567I,ORF1a:A2994V,ORF1a:Q3346K,ORF1a:V3475F,ORF1a:M3862I,ORF1b:P255T,ORF1b:P314L,S:D80Y,S:D614G,ORF3a:Q57H,ORF7a:R80I,N:S186Y,ORF14:P33T,N:D377Y","1-101,29795-29904",null,"CharitÃ©_N_R:C28830A",29902,89597,0,3000,0,"good",209,10,0,"good",0,15,-3,0,"good",2,null,0,"good",0,null,"IHUMI-2137_second_period",909]
["IHUMI-2178_second_period","20A",0,"good",11,0,0,200,13,0,1,"C241T,G1181T,C1625T,C3037T,C14408T,A20268G,C22088T,G22894A,A23403G,C25886T,G28198T,C28833T,G28851T",null,null,"ORF1a:V306F,ORF1a:L454F,ORF1b:P314L,S:L176F,S:D614G,ORF3a:S165F,ORF8:C102F,N:S187L,ORF14:H34Y,N:S193I,ORF14:V40F","1-101,29804-29904",null,"CharitÃ©_N_R:C28833T",29902,89657,0,3000,0,"good",200,10,0,"good",0,15,-4,0,"good",1,null,0,"good",0,null,"IHUMI-2178_second_period",589]
["Wuhan/Hu-1/2019","19A",0,"good",0,0,0,0,0,0,0,{"$nulls":7},29902,89709,0,3000,0,"good",0,10,0,"good",0,15,-5,0,"good",0,null,0,"good",0,null,"Wuhan/Hu-1/2019",0]
["Wuhan/WH01/2019","19A",0,"good",2,0,0,0,2,0,0,"C6968A,T11764A",null,null,"ORF1a:L2235I,ORF1a:N3833K",{"$nulls":3},29890,89588,25,3000,0,"good",0,10,0,"good",0,15,-5,0,"good",0,null,0,"good",0,null,"Wuhan/WH01/2019",30]
["20A","20A",0,"good",2,0,0,0,4,0,0,"C241T,C3037T,C14408T,A23403G",null,null,"ORF1b:P314L,S:D614G",{"$nulls":3},29902,89693,0,3000,0,"good",0,10,0,"good",0,15,-5,0,"good",0,null,0,"good",0,null,"20A",281]
["20B","20B",0,"good",6,0,0,0,7,0,3,"C241T,C3037T,C14408T,A23403G,G28881A,G28882A,G28883C",null,null,"ORF1b:P314L,S:D614G,N:R203K,ORF14:G50R,ORF14:G50E,N:G204R",null,null,"ChinaCDC_N_F:G28881A;G28882A;G28883C",29902,89681,0,3000,0,"good",0,10,0,"good",0,15,-5,0,"good",0,null,0,"good",0,null,"20B",1008]
["20C","20C",0,"good",4,0,0,0,6,0,0,"C241T,C1059T,C3037T,C14408T,A23403G,G25563T",null,null,"ORF1a:T265I,ORF1b:P314L,S:D614G,ORF3a:Q57H",{"$nulls":3},29902,89685,0,3000,0,"good",0,10,0,"good",0,15,-5,0,"good",0,null,0,"good",0,null,"20C",824]
["Gambia/3761/2020","20A",0,"good",7,0,0,0,10,0,1,"C241T,C1625T,C3037T,C10377T,C14408T,C17676T,A20268G,A23403G,G25563T,C28833T",null,null,"ORF1a:L454F,ORF1a:P3371L,ORF1b:P314L,S:D614G,ORF3a:Q57H,N:S187L,ORF14:H34Y",null,null,"CharitÃ©_N_R:C28833T",29835,89304,54,3000,0,"good",0,10,0,"good",0,15,-2,0,"good",3,null,0,"good",0,null,"Gambia/3761/2020",577]
["Gambia/GC19-3497/2020","20A",0,"good",7,0,0,0,11,0,1,"C241T,G922A,C1625T,C3037T,C11008T,C14195T,C14408T,A20268G,A23403G,C25886T,C28833T",null,null,"ORF1a:L454F,ORF1b:T243I,ORF1b:P314L,S:D614G,ORF3a:S165F,N:S187L,ORF14:H34Y",null,null,"CharitÃ©_N_R:C28833T",29835,89300,54,3000,0,"good",0,10,0,"good",0,15,-2,0,"good",3,null,0,"good",0,null,"Gambia/GC19-3497/2020",587]
["Senegal/65526/2020","20A","20.922153635116597","good",6,0,0,1535,7,0,1,"C241T,C1625T,C3037T,C14408T,A23403G,C28833T,A29391C",null,null,"ORF1a:L454F,ORF1b:P314L,S:D614G,N:S187L,ORF14:H34Y,N:K373T","1334,1337,1409-1414,1433,1440,1444,1459-1583,1585,2594-2596,2600,2602,2613-2618,2709-2749,2750-2752,2756-2762,2765,2767,2769,2774,2776-2778,2802,2833,3732-3747,5011-5277,19292-19565,20066-20069,20187,20190-20480,21163-21385,27528-27792,29744",null,"CharitÃ©_N_R:C28833T",29763,89145,39,3000,"45.74074074074074","mediocre",1535,10,0,"good",0,15,-4,0,"good",1,null,0,"good",0,null,"Senegal/65526/2020",577]
["Senegal/9615/2020","20A",0,"good",6,0,0,0,8,0,1,"C241T,C1625T,C3037T,C14408T,A20268G,A23403G,C25886T,C28833T",null,null,"ORF1a:L454F,ORF1b:P314L,S:D614G,ORF3a:S165F,N:S187L,ORF14:H34Y",null,null,"CharitÃ©_N_R:C28833T",29835,89360,38,3000,0,"good",0,10,0,"good",0,15,-5,0,"good",0,null,0,"good",0,null,"Senegal/9615/2020",587]
["Netherlands/NB-EMC-291/2020","20C",0,"good",17,0,0,0,28,0,1,"C241T,C823T,C1059T,C3037T,C3099T,G4960T,C4965T,C6070T,C7303T,C7564T,C9246T,C10279T,C10301A,C10525T,C10582T,G10688T,G11851T,C14230A,C14408T,G15910T,G21800T,A23403G,G25563T,G27632T,C27804T,C28830A,G29402T,G29779T",null,null,"ORF1a:T265I,ORF1a:T945I,ORF1a:T1567I,ORF1a:A2994V,ORF1a:Q3346K,ORF1a:V3475F,ORF1a:M3862I,ORF1b:P255T,ORF1b:P314L,ORF1b:D815Y,S:D80Y,S:D614G,ORF3a:Q57H,ORF7a:R80I,N:S186Y,ORF14:P33T,N:D377Y",null,null,"CharitÃ©_N_R:C28830A",29828,89211,54,3000,0,"good",0,10,0,"good",0,15,-3,0,"good",2,null,0,"good",0,null,"Netherlands/NB-EMC-291/2020",909]
["Wales/PHWC-47CDE6/2020","20C",1,"good",19,0,0,227,30,1,1,"C241T,G526T,C1059T,C3037T,C3099T,C3540A,G4960T,C4965T,C6070T,C7303T,C7564T,C9142T,C9246T,C10279T,C10301A,C10525T,C10582T,G10688T,G11851T,C14230A,C14408T,C20801T,G21800T,A23403G,G25563T,G27632T,C27804T,C28830A,G29402T,G29779T",null,null,"ORF1a:E87D,ORF1a:T265I,ORF1a:T945I,ORF1a:A1092D,ORF1a:T1567I,ORF1a:A2994V,ORF1a:Q3346K,ORF1a:V3475F,ORF1a:M3862I,ORF1b:P255T,ORF1b:P314L,ORF1b:T2445I,S:D80Y,S:D614G,ORF3a:Q57H,ORF7a:R80I,N:S186Y,ORF14:P33T,N:D377Y","6864-7043,21448-21496","Y:17745","CharitÃ©_N_R:C28830A",29853,89293,49,3000,0,"good",227,10,10,"good",1,15,-1,0,"good",4,null,0,"good",0,null,"Wales/PHWC-47CDE6/2020",909]
["England/MILK-9AAA5C/2020","20C",1,"good",17,0,0,292,28,1,1,"C241T,C1059T,C3037T,C3099T,G4960T,C4965T,C6070T,C7303T,C7564T,C9246T,C10279T,C10301A,C10525T,C10582T,G10688T,C11355T,G11851T,C14230A,C14408T,G21800T,A23403G,G25563T,G27632T,C27804T,C28830A,G29402T,G29751T,G29779T",null,null,"ORF1a:T265I,ORF1a:T945I,ORF1a:T1567I,ORF1a:A2994V,ORF1a:Q3346K,ORF1a:V3475F,ORF1a:A3697V,ORF1a:M3862I,ORF1b:P255T,ORF1b:P314L,S:D80Y,S:D614G,ORF3a:Q57H,ORF7a:R80I,N:S186Y,ORF14:P33T,N:D377Y","4996-5288","Y:14307","CharitÃ©_N_R:C28830A",29835,89232,54,3000,0,"good",292,10,10,"good",1,15,-3,0,"good",2,null,0,"good",0,null,"England/MILK-9AAA5C/2020",909]
["France/PAC-IHU-1325/2020","20C",0,"good",16,0,0,77,26,0,1,"C241T,C1059T,C3037T,C3099T,G4960T,C4965T,C6070T,C7303T,C7564T,C9142T,C9246T,C10279T,C10301A,C10525T,C10582T,G10688T,G11851T,C14230A,C14408T,G21800T,A23403G,G25563T,G27632T,C27804T,C28830A,G29402T",null,null,"ORF1a:T265I,ORF1a:T945I,ORF1a:T1567I,ORF1a:A2994V,ORF1a:Q3346K,ORF1a:V3475F,ORF1a:M3862I,ORF1b:P255T,ORF1b:P314L,S:D80Y,S:D614G,ORF3a:Q57H,ORF7a:R80I,N:S186Y,ORF14:P33T,N:D377Y","243,248,252,256,258-260,2055-2065,2419-2431,2858,6268,7154,7376-7417,19015,22985,24287,24290,24312",null,"CharitÃ©_N_R:C28830A",29777,88904,108,3000,0,"good",77,10,0,"good",0,15,-4,0,"good",1,null,0,"good",0,null,"France/PAC-IHU-1325/2020",909]