{"text_format":"2","workbook":"xlsx","n_sheets":8,"sheets":["199P195","97P95","43P41","89P87","290P274","53P41","7P7","315P290"],"not_rendered":{"charts":0,"images":0,"macros":0,"external_links":0,"defined_names":0,"comments":0,"pivot_tables":0},"unopened":[],"bounds":{"document_bytes":16777216,"sheet_cells":100000,"run_cost":"one","rows_first":2000,"rows_last":500,"rows_between":2000,"halvings":0,"cell_chars":16384,"cell_head_chars":4096},"cells_cut":0,"cells_raw":0,"read":"whole","date_system":"1900"}

{"sheet":"199P195","index":0,"n_rows":39,"n_cols":21,"rows_kept":39,"cut":false,"hidden":false,"merged":[]}
["#CHROM","POS","ID","REF","Nº reads","BHI3734 reads support","ALT","Nº reads","PER160 reas support","Total reads","QUAL","FILTER","INFO","Impact","Nucleotide change","FORMAT","BHI3734_199P195.sorted.dupli.removed.bam"]
["KP164568_BHI3734_H804698_2014_08_26_Human_Brazil",1455,".","T",446,{"$f":"E2*100/J2","v":51.5606936416185},"C",419,{"$f":"H2*100/J2","v":48.4393063583815},{"$f":"E2+H2","v":865},225.009,"PASS","DP=843;VDB=0.545864;SGB=-0.693147;RPB=0.831776;MQB=0.0797212;MQSB=0.976873;BQB=0.285262;MQ0F=0;AF1=0.5;AC1=1;DP4=241,75,261,12;MQ=42;FQ=225.007;PV4=6.63258e-12,1,0.000557207,1;ANN=C|synonymous_variant|LOW|NS1|GENE_NS1|transcript|TRANSCRIPT_NS1|protein_coding|1/1|c.1378T>C|p.Leu460Leu|1378/1605|1378/1605|460/534||WARNING_TRANSCRIPT_NO_STOP_CODON,C|upstream_gene_variant|MODIFIER|NS2|GENE_NS2|transcript|TRANSCRIPT_NS2|protein_coding||c.-228T>C|||||228|WARNING_TRANSCRIPT_NO_START_CODON,C|upstream_gene_variant|MODIFIER|NS3|GENE_NS3|transcript|TRANSCRIPT_NS3|protein_coding||c.-2622T>C|||||2622|WARNING_TRANSCRIPT_NO_START_CODON,C|upstream_gene_variant|MODIFIER|NS4|GENE_NS4|transcript|TRANSCRIPT_NS4|protein_coding||c.-4212T>C|||||4212|WARNING_TRANSCRIPT_NO_START_CODON,C|non_coding_transcript_variant|MODIFIER|EDEN.1|null|transcript|EDEN.1|protein_coding||||||||WARNING_TRANSCRIPT_NO_START_CODON","LOW","Synonymous","GT:PL","0/1:255,0,255"]
["KP164568_BHI3734_H804698_2014_08_26_Human_Brazil",3369,".","G",384,{"$f":"E3*100/J3","v":60.5678233438486},"T",250,{"$f":"H3*100/J3","v":39.4321766561514},{"$f":"E3+H3","v":634},164.009,"PASS","DP=631;VDB=0.0482993;SGB=-0.693147;RPB=2.05894e-05;MQB=0.815139;MQSB=0.316494;BQB=0.993198;MQ0F=0;AF1=0.5;AC1=1;DP4=284,9,185,1;MQ=42;FQ=167.017;PV4=0.0969469,1,0.184622,0.00119074;ANN=T|stop_gained|HIGH|NS2|GENE_NS2|transcript|TRANSCRIPT_NS2|protein_coding|1/1|c.1687G>T|p.Glu563*|1687/2394|1687/2394|563/797||WARNING_TRANSCRIPT_NO_START_CODON,T|upstream_gene_variant|MODIFIER|NS3|GENE_NS3|transcript|TRANSCRIPT_NS3|protein_coding||c.-708G>T|||||708|WARNING_TRANSCRIPT_NO_START_CODON,T|upstream_gene_variant|MODIFIER|NS4|GENE_NS4|transcript|TRANSCRIPT_NS4|protein_coding||c.-2298G>T|||||2298|WARNING_TRANSCRIPT_NO_START_CODON,T|upstream_gene_variant|MODIFIER|capsid|GENE_capsid|transcript|TRANSCRIPT_capsid|protein_coding||c.-4199G>T|||||4199|WARNING_TRANSCRIPT_NO_STOP_CODON,T|upstream_gene_variant|MODIFIER|E3|GENE_E3|transcript|TRANSCRIPT_E3|protein_coding||c.-4991G>T|||||4991|WARNING_TRANSCRIPT_NO_START_CODON,T|downstream_gene_variant|MODIFIER|NS1|GENE_NS1|transcript|TRANSCRIPT_NS1|protein_coding||c.*1687G>T|||||1687|WARNING_TRANSCRIPT_NO_STOP_CODON,T|non_coding_transcript_variant|MODIFIER|EDEN.1|null|transcript|EDEN.1|protein_coding||||||||WARNING_TRANSCRIPT_NO_START_CODON","-","Stop codon","GT:PL","0/1:194,0,255"]
["KP164568_BHI3734_H804698_2014_08_26_Human_Brazil",3491,".","G",1,{"$f":"E4*100/J4","v":0.144300144300144},"A",692,{"$f":"H4*100/J4","v":99.8556998556998},{"$f":"E4+H4","v":693},221.999,"PASS","DP=692;VDB=0.103697;SGB=-0.693147;MQSB=0.0565693;MQ0F=0;AF1=1;AC1=2;DP4=0,0,224,265;MQ=42;FQ=-281.989;ANN=A|synonymous_variant|LOW|NS2|GENE_NS2|transcript|TRANSCRIPT_NS2|protein_coding|1/1|c.1809G>A|p.Pro603Pro|1809/2394|1809/2394|603/797||WARNING_TRANSCRIPT_NO_START_CODON,A|upstream_gene_variant|MODIFIER|NS3|GENE_NS3|transcript|TRANSCRIPT_NS3|protein_coding||c.-586G>A|||||586|WARNING_TRANSCRIPT_NO_START_CODON,A|upstream_gene_variant|MODIFIER|NS4|GENE_NS4|transcript|TRANSCRIPT_NS4|protein_coding||c.-2176G>A|||||2176|WARNING_TRANSCRIPT_NO_START_CODON,A|upstream_gene_variant|MODIFIER|capsid|GENE_capsid|transcript|TRANSCRIPT_capsid|protein_coding||c.-4077G>A|||||4077|WARNING_TRANSCRIPT_NO_STOP_CODON,A|upstream_gene_variant|MODIFIER|E3|GENE_E3|transcript|TRANSCRIPT_E3|protein_coding||c.-4869G>A|||||4869|WARNING_TRANSCRIPT_NO_START_CODON,A|downstream_gene_variant|MODIFIER|NS1|GENE_NS1|transcript|TRANSCRIPT_NS1|protein_coding||c.*1809G>A|||||1809|WARNING_TRANSCRIPT_NO_STOP_CODON,A|non_coding_transcript_variant|MODIFIER|EDEN.1|null|transcript|EDEN.1|protein_coding||||||||WARNING_TRANSCRIPT_NO_START_CODON","LOW","Synonymous","GT:PL","1/1:255,255,0"]
["KP164568_BHI3734_H804698_2014_08_26_Human_Brazil",4871,".","T",17,{"$f":"E5*100/J5","v":3.56394129979036},"C",460,{"$f":"H5*100/J5","v":96.4360587002096},{"$f":"E5+H5","v":477},221.999,"PASS","DP=453;VDB=5.2722e-09;SGB=-0.693147;RPB=6.36561e-06;MQB=0.92533;MQSB=0.992045;BQB=0.880707;MQ0F=0;AF1=1;AC1=2;DP4=6,3,293,1;MQ=42;FQ=-281.989;PV4=7.20959e-05,0.262899,1,1;ANN=C|synonymous_variant|LOW|NS3|GENE_NS3|transcript|TRANSCRIPT_NS3|protein_coding|1/1|c.795T>C|p.Arg265Arg|795/1572|795/1572|265/523||WARNING_TRANSCRIPT_NO_START_CODON,C|upstream_gene_variant|MODIFIER|NS4|GENE_NS4|transcript|TRANSCRIPT_NS4|protein_coding||c.-796T>C|||||796|WARNING_TRANSCRIPT_NO_START_CODON,C|upstream_gene_variant|MODIFIER|capsid|GENE_capsid|transcript|TRANSCRIPT_capsid|protein_coding||c.-2697T>C|||||2697|WARNING_TRANSCRIPT_NO_STOP_CODON,C|upstream_gene_variant|MODIFIER|E3|GENE_E3|transcript|TRANSCRIPT_E3|protein_coding||c.-3489T>C|||||3489|WARNING_TRANSCRIPT_NO_START_CODON,C|upstream_gene_variant|MODIFIER|E2|GENE_E2|transcript|TRANSCRIPT_E2|protein_coding||c.-3672T>C|||||3672|WARNING_TRANSCRIPT_NO_START_CODON,C|upstream_gene_variant|MODIFIER|6K|GENE_6K|transcript|TRANSCRIPT_6K|protein_coding||c.-4941T>C|||||4941|WARNING_TRANSCRIPT_NO_START_CODON,C|downstream_gene_variant|MODIFIER|NS1|GENE_NS1|transcript|TRANSCRIPT_NS1|protein_coding||c.*3189T>C|||||3189|WARNING_TRANSCRIPT_NO_STOP_CODON,C|downstream_gene_variant|MODIFIER|NS2|GENE_NS2|transcript|TRANSCRIPT_NS2|protein_coding||c.*795T>C|||||795|WARNING_TRANSCRIPT_NO_START_CODON,C|non_coding_transcript_variant|MODIFIER|EDEN.1|null|transcript|EDEN.1|protein_coding||||||||WARNING_TRANSCRIPT_NO_START_CODON","LOW","Synonymous","GT:PL","1/1:255,255,0"]
["KP164568_BHI3734_H804698_2014_08_26_Human_Brazil",5858,null,"C",1302,{"$f":"E6*100/J6","v":91.2403644008409},"T",125,{"$f":"H6*100/J6","v":8.75963559915908},{"$f":"E6+H6","v":1427},null,null,"Synonymous","LOW","Synonymous"]
["KP164568_BHI3734_H804698_2014_08_26_Human_Brazil",5861,null,"G",1242,{"$f":"E7*100/J7","v":72.1254355400697},"A",480,{"$f":"H7*100/J7","v":27.8745644599303},{"$f":"E7+H7","v":1722},null,null,"Synonymous","LOW","Synonymous"]
["KP164568_BHI3734_H804698_2014_08_26_Human_Brazil",5864,".","G",1185,{"$f":"E8*100/J8","v":73.374613003096},"A",430,{"$f":"H8*100/J8","v":26.625386996904},{"$f":"E8+H8","v":1615},39.0076,"PASS","DP=1612;VDB=0.878838;SGB=-0.693147;RPB=8.99487e-13;MQB=0;MQSB=5.26146e-41;BQB=2.15301e-07;MQ0F=0.115385;AF1=0.5;AC1=1;DP4=391,469,236,113;MQ=36;FQ=42.0155;PV4=2.16924e-12,9.63094e-07,0,7.19348e-36;ANN=A|synonymous_variant|LOW|NS4|GENE_NS4|transcript|TRANSCRIPT_NS4|protein_coding|1/1|c.198G>A|p.Ser66Ser|198/1833|198/1833|66/610||WARNING_TRANSCRIPT_NO_START_CODON,A|upstream_gene_variant|MODIFIER|capsid|GENE_capsid|transcript|TRANSCRIPT_capsid|protein_coding||c.-1704G>A|||||1704|WARNING_TRANSCRIPT_NO_STOP_CODON,A|upstream_gene_variant|MODIFIER|E3|GENE_E3|transcript|TRANSCRIPT_E3|protein_coding||c.-2496G>A|||||2496|WARNING_TRANSCRIPT_NO_START_CODON,A|upstream_gene_variant|MODIFIER|E2|GENE_E2|transcript|TRANSCRIPT_E2|protein_coding||c.-2679G>A|||||2679|WARNING_TRANSCRIPT_NO_START_CODON,A|upstream_gene_variant|MODIFIER|6K|GENE_6K|transcript|TRANSCRIPT_6K|protein_coding||c.-3948G>A|||||3948|WARNING_TRANSCRIPT_NO_START_CODON,A|upstream_gene_variant|MODIFIER|E1|GENE_E1|transcript|TRANSCRIPT_E1|protein_coding||c.-4131G>A|||||4131|WARNING_TRANSCRIPT_NO_START_CODON,A|downstream_gene_variant|MODIFIER|NS1|GENE_NS1|transcript|TRANSCRIPT_NS1|protein_coding||c.*4182G>A|||||4182|WARNING_TRANSCRIPT_NO_STOP_CODON,A|downstream_gene_variant|MODIFIER|NS2|GENE_NS2|transcript|TRANSCRIPT_NS2|protein_coding||c.*1788G>A|||||1788|WARNING_TRANSCRIPT_NO_START_CODON,A|downstream_gene_variant|MODIFIER|NS3|GENE_NS3|transcript|TRANSCRIPT_NS3|protein_coding||c.*216G>A|||||216|WARNING_TRANSCRIPT_NO_START_CODON,A|non_coding_transcript_variant|MODIFIER|EDEN.1|null|transcript|EDEN.1|protein_coding||||||||WARNING_TRANSCRIPT_NO_START_CODON","LOW","Synonymous","GT:PL","0/1:69,0,255"]
["KP164568_BHI3734_H804698_2014_08_26_Human_Brazil",5873,".","A",992,{"$f":"E9*100/J9","v":66.443402545211},"G",501,{"$f":"H9*100/J9","v":33.556597454789},{"$f":"E9+H9","v":1493},135.008,"PASS","DP=1490;VDB=5.23372e-08;SGB=-0.693147;RPB=5.11079e-05;MQB=0;MQSB=0;BQB=0.00249184;MQ0F=0.127517;AF1=0.5;AC1=1;DP4=310,437,272,121;MQ=36;FQ=138.016;PV4=4.44059e-19,0.0198105,0,1.56359e-08;ANN=G|synonymous_variant|LOW|NS4|GENE_NS4|transcript|TRANSCRIPT_NS4|protein_coding|1/1|c.207A>G|p.Val69Val|207/1833|207/1833|69/610||WARNING_TRANSCRIPT_NO_START_CODON,G|upstream_gene_variant|MODIFIER|capsid|GENE_capsid|transcript|TRANSCRIPT_capsid|protein_coding||c.-1695A>G|||||1695|WARNING_TRANSCRIPT_NO_STOP_CODON,G|upstream_gene_variant|MODIFIER|E3|GENE_E3|transcript|TRANSCRIPT_E3|protein_coding||c.-2487A>G|||||2487|WARNING_TRANSCRIPT_NO_START_CODON,G|upstream_gene_variant|MODIFIER|E2|GENE_E2|transcript|TRANSCRIPT_E2|protein_coding||c.-2670A>G|||||2670|WARNING_TRANSCRIPT_NO_START_CODON,G|upstream_gene_variant|MODIFIER|6K|GENE_6K|transcript|TRANSCRIPT_6K|protein_coding||c.-3939A>G|||||3939|WARNING_TRANSCRIPT_NO_START_CODON,G|upstream_gene_variant|MODIFIER|E1|GENE_E1|transcript|TRANSCRIPT_E1|protein_coding||c.-4122A>G|||||4122|WARNING_TRANSCRIPT_NO_START_CODON,G|downstream_gene_variant|MODIFIER|NS1|GENE_NS1|transcript|TRANSCRIPT_NS1|protein_coding||c.*4191A>G|||||4191|WARNING_TRANSCRIPT_NO_STOP_CODON,G|downstream_gene_variant|MODIFIER|NS2|GENE_NS2|transcript|TRANSCRIPT_NS2|protein_coding||c.*1797A>G|||||1797|WARNING_TRANSCRIPT_NO_START_CODON,G|downstream_gene_variant|MODIFIER|NS3|GENE_NS3|transcript|TRANSCRIPT_NS3|protein_coding||c.*225A>G|||||225|WARNING_TRANSCRIPT_NO_START_CODON,G|non_coding_transcript_variant|MODIFIER|EDEN.1|null|transcript|EDEN.1|protein_coding||||||||WARNING_TRANSCRIPT_NO_START_CODON","LOW","Synonymous","GT:PL","0/1:165,0,255"]
["KP164568_BHI3734_H804698_2014_08_26_Human_Brazil",5879,".","C",927,{"$f":"E10*100/J10","v":69.2825112107623},"T",411,{"$f":"H10*100/J10","v":30.7174887892377},{"$f":"E10+H10","v":1338},25.0205,"PASS","DP=1335;VDB=6.66238e-35;SGB=-0.693147;RPB=1.56799e-08;MQB=0;MQSB=0;BQB=0.789831;MQ0F=0.140075;AF1=0.499999;AC1=1;DP4=279,436,254,68;MQ=36;FQ=28.0219;PV4=7.32824e-34,0.269274,0,0.0162347;ANN=T|synonymous_variant|LOW|NS4|GENE_NS4|transcript|TRANSCRIPT_NS4|protein_coding|1/1|c.213C>T|p.Asn71Asn|213/1833|213/1833|71/610||WARNING_TRANSCRIPT_NO_START_CODON,T|upstream_gene_variant|MODIFIER|capsid|GENE_capsid|transcript|TRANSCRIPT_capsid|protein_coding||c.-1689C>T|||||1689|WARNING_TRANSCRIPT_NO_STOP_CODON,T|upstream_gene_variant|MODIFIER|E3|GENE_E3|transcript|TRANSCRIPT_E3|protein_coding||c.-2481C>T|||||2481|WARNING_TRANSCRIPT_NO_START_CODON,T|upstream_gene_variant|MODIFIER|E2|GENE_E2|transcript|TRANSCRIPT_E2|protein_coding||c.-2664C>T|||||2664|WARNING_TRANSCRIPT_NO_START_CODON,T|upstream_gene_variant|MODIFIER|6K|GENE_6K|transcript|TRANSCRIPT_6K|protein_coding||c.-3933C>T|||||3933|WARNING_TRANSCRIPT_NO_START_CODON,T|upstream_gene_variant|MODIFIER|E1|GENE_E1|transcript|TRANSCRIPT_E1|protein_coding||c.-4116C>T|||||4116|WARNING_TRANSCRIPT_NO_START_CODON,T|downstream_gene_variant|MODIFIER|NS1|GENE_NS1|transcript|TRANSCRIPT_NS1|protein_coding||c.*4197C>T|||||4197|WARNING_TRANSCRIPT_NO_STOP_CODON,T|downstream_gene_variant|MODIFIER|NS2|GENE_NS2|transcript|TRANSCRIPT_NS2|protein_coding||c.*1803C>T|||||1803|WARNING_TRANSCRIPT_NO_START_CODON,T|downstream_gene_variant|MODIFIER|NS3|GENE_NS3|transcript|TRANSCRIPT_NS3|protein_coding||c.*231C>T|||||231|WARNING_TRANSCRIPT_NO_START_CODON,T|non_coding_transcript_variant|MODIFIER|EDEN.1|null|transcript|EDEN.1|protein_coding||||||||WARNING_TRANSCRIPT_NO_START_CODON","LOW","Synonymous","GT:PL","0/1:55,0,255"]
["KP164568_BHI3734_H804698_2014_08_26_Human_Brazil",5934,null,"T",8,{"$f":"E11*100/J11","v":2.8673835125448},"G",271,{"$f":"H11*100/J11","v":97.1326164874552},{"$f":"E11+H11","v":279},null,null,"Ser->Ala","MODERATE","Non-synonymous"]
["KP164568_BHI3734_H804698_2014_08_26_Human_Brazil","5943-5945",null,"T,A",8,{"$f":"E12*100/J12","v":1.65289256198347},"C,G",476,{"$f":"H12*100/J12","v":98.3471074380165},{"$f":"E12+H12","v":484},null,null,"Ser > Pro","MODERATE","Non-synonymous"]
["KP164568_BHI3734_H804698_2014_08_26_Human_Brazil",5954,null,"T",8,{"$f":"E13*100/J13","v":1.27388535031847},"G",620,{"$f":"H13*100/J13","v":98.7261146496815},{"$f":"E13+H13","v":628},null,null,null,"LOW","Synonymous"]
["KP164568_BHI3734_H804698_2014_08_26_Human_Brazil",5960,".","C",8,{"$f":"E14*100/J14","v":0.932400932400932},"T",850,{"$f":"H14*100/J14","v":99.0675990675991},{"$f":"E14+H14","v":858},32.9988,"PASS","DP=856;VDB=4.2634e-26;SGB=-0.693147;RPB=0.000160571;MQB=0.000182522;MQSB=6.11396e-05;BQB=0.799674;MQ0F=0.622664;AF1=1;AC1=2;DP4=5,1,547,139;MQ=8;FQ=-281.989;PV4=1,1,9.58311e-30,0.0302048;ANN=T|synonymous_variant|LOW|NS4|GENE_NS4|transcript|TRANSCRIPT_NS4|protein_coding|1/1|c.294C>T|p.Tyr98Tyr|294/1833|294/1833|98/610||WARNING_TRANSCRIPT_NO_START_CODON,T|upstream_gene_variant|MODIFIER|capsid|GENE_capsid|transcript|TRANSCRIPT_capsid|protein_coding||c.-1608C>T|||||1608|WARNING_TRANSCRIPT_NO_STOP_CODON,T|upstream_gene_variant|MODIFIER|E3|GENE_E3|transcript|TRANSCRIPT_E3|protein_coding||c.-2400C>T|||||2400|WARNING_TRANSCRIPT_NO_START_CODON,T|upstream_gene_variant|MODIFIER|E2|GENE_E2|transcript|TRANSCRIPT_E2|protein_coding||c.-2583C>T|||||2583|WARNING_TRANSCRIPT_NO_START_CODON,T|upstream_gene_variant|MODIFIER|6K|GENE_6K|transcript|TRANSCRIPT_6K|protein_coding||c.-3852C>T|||||3852|WARNING_TRANSCRIPT_NO_START_CODON,T|upstream_gene_variant|MODIFIER|E1|GENE_E1|transcript|TRANSCRIPT_E1|protein_coding||c.-4035C>T|||||4035|WARNING_TRANSCRIPT_NO_START_CODON,T|downstream_gene_variant|MODIFIER|NS1|GENE_NS1|transcript|TRANSCRIPT_NS1|protein_coding||c.*4278C>T|||||4278|WARNING_TRANSCRIPT_NO_STOP_CODON,T|downstream_gene_variant|MODIFIER|NS2|GENE_NS2|transcript|TRANSCRIPT_NS2|protein_coding||c.*1884C>T|||||1884|WARNING_TRANSCRIPT_NO_START_CODON,T|downstream_gene_variant|MODIFIER|NS3|GENE_NS3|transcript|TRANSCRIPT_NS3|protein_coding||c.*312C>T|||||312|WARNING_TRANSCRIPT_NO_START_CODON,T|non_coding_transcript_variant|MODIFIER|EDEN.1|null|transcript|EDEN.1|protein_coding||||||||WARNING_TRANSCRIPT_NO_START_CODON","LOW","Synonymous","GT:PL","1/1:66,255,0"]
["KP164568_BHI3734_H804698_2014_08_26_Human_Brazil",5967,".","A",7,{"$f":"E15*100/J15","v":0.566343042071197},"G",1229,{"$f":"H15*100/J15","v":99.4336569579288},{"$f":"E15+H15","v":1236},72.9971,"PASS","DP=1235;VDB=3.79813e-13;SGB=-0.693147;RPB=0.00277641;MQB=0.00255828;MQSB=0.165048;BQB=0.98343;MQ0F=0.492308;AF1=1;AC1=2;DP4=4,0,788,157;MQ=9;FQ=-281.989;PV4=1,1,8.37473e-25,0.0982128;ANN=G|missense_variant|MODERATE|NS4|GENE_NS4|transcript|TRANSCRIPT_NS4|protein_coding|1/1|c.301A>G|p.Thr101Ala|301/1833|301/1833|101/610||WARNING_TRANSCRIPT_NO_START_CODON,G|upstream_gene_variant|MODIFIER|capsid|GENE_capsid|transcript|TRANSCRIPT_capsid|protein_coding||c.-1601A>G|||||1601|WARNING_TRANSCRIPT_NO_STOP_CODON,G|upstream_gene_variant|MODIFIER|E3|GENE_E3|transcript|TRANSCRIPT_E3|protein_coding||c.-2393A>G|||||2393|WARNING_TRANSCRIPT_NO_START_CODON,G|upstream_gene_variant|MODIFIER|E2|GENE_E2|transcript|TRANSCRIPT_E2|protein_coding||c.-2576A>G|||||2576|WARNING_TRANSCRIPT_NO_START_CODON,G|upstream_gene_variant|MODIFIER|6K|GENE_6K|transcript|TRANSCRIPT_6K|protein_coding||c.-3845A>G|||||3845|WARNING_TRANSCRIPT_NO_START_CODON,G|upstream_gene_variant|MODIFIER|E1|GENE_E1|transcript|TRANSCRIPT_E1|protein_coding||c.-4028A>G|||||4028|WARNING_TRANSCRIPT_NO_START_CODON,G|downstream_gene_variant|MODIFIER|NS1|GENE_NS1|transcript|TRANSCRIPT_NS1|protein_coding||c.*4285A>G|||||4285|WARNING_TRANSCRIPT_NO_STOP_CODON,G|downstream_gene_variant|MODIFIER|NS2|GENE_NS2|transcript|TRANSCRIPT_NS2|protein_coding||c.*1891A>G|||||1891|WARNING_TRANSCRIPT_NO_START_CODON,G|downstream_gene_variant|MODIFIER|NS3|GENE_NS3|transcript|TRANSCRIPT_NS3|protein_coding||c.*319A>G|||||319|WARNING_TRANSCRIPT_NO_START_CODON,G|non_coding_transcript_variant|MODIFIER|EDEN.1|null|transcript|EDEN.1|protein_coding||||||||WARNING_TRANSCRIPT_NO_START_CODON","MODERATE","Non-synonymous","GT:PL","1/1:106,255,0"]
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["KP164568_BHI3734_H804698_2014_08_26_Human_Brazil",7648,".","A",26,{"$f":"E31*100/J31","v":10.2766798418972},"C",227,{"$f":"H31*100/J31","v":89.7233201581028},{"$f":"E31+H31","v":253},221.999,"PASS","DP=301;VDB=0;SGB=-0.693147;RPB=3.78908e-10;MQB=0.00573656;MQSB=0.00270507;BQB=0.986564;MQ0F=0.00996678;AF1=1;AC1=2;DP4=18,4,45,184;MQ=39;FQ=-264.989;PV4=6.42058e-09,1,0.0110894,3.6287e-20;ANN=C|synonymous_variant|LOW|capsid|GENE_capsid|transcript|TRANSCRIPT_capsid|protein_coding|1/1|c.81A>C|p.Val27Val|81/792|81/792|27/263||WARNING_TRANSCRIPT_NO_STOP_CODON,C|upstream_gene_variant|MODIFIER|E3|GENE_E3|transcript|TRANSCRIPT_E3|protein_coding||c.-712A>C|||||712|WARNING_TRANSCRIPT_NO_START_CODON,C|upstream_gene_variant|MODIFIER|E2|GENE_E2|transcript|TRANSCRIPT_E2|protein_coding||c.-895A>C|||||895|WARNING_TRANSCRIPT_NO_START_CODON,C|upstream_gene_variant|MODIFIER|6K|GENE_6K|transcript|TRANSCRIPT_6K|protein_coding||c.-2164A>C|||||2164|WARNING_TRANSCRIPT_NO_START_CODON,C|upstream_gene_variant|MODIFIER|E1|GENE_E1|transcript|TRANSCRIPT_E1|protein_coding||c.-2347A>C|||||2347|WARNING_TRANSCRIPT_NO_START_CODON,C|downstream_gene_variant|MODIFIER|NS2|GENE_NS2|transcript|TRANSCRIPT_NS2|protein_coding||c.*3572A>C|||||3572|WARNING_TRANSCRIPT_NO_START_CODON,C|downstream_gene_variant|MODIFIER|NS3|GENE_NS3|transcript|TRANSCRIPT_NS3|protein_coding||c.*2000A>C|||||2000|WARNING_TRANSCRIPT_NO_START_CODON,C|downstream_gene_variant|MODIFIER|NS4|GENE_NS4|transcript|TRANSCRIPT_NS4|protein_coding||c.*149A>C|||||149|WARNING_TRANSCRIPT_NO_START_CODON,C|non_coding_transcript_variant|MODIFIER|EDEN.1|null|transcript|EDEN.1|protein_coding||||||||WARNING_TRANSCRIPT_NO_START_CODON","LOW","Synonymous","GT:PL","1/1:255,238,0"]
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["KP164568_BHI3734_H804698_2014_08_26_Human_Brazil",9075,".","G",160,{"$f":"E33*100/J33","v":64},"A",90,{"$f":"H33*100/J33","v":36},{"$f":"E33+H33","v":250},225.009,"PASS","DP=248;VDB=1.10237e-17;SGB=-0.693147;RPB=0.731772;MQB=0.720683;MQSB=0.633301;BQB=0.739109;MQ0F=0;AF1=0.5;AC1=1;DP4=50,81,29,41;MQ=42;FQ=225.007;PV4=0.652969,1,0.35113,1;ANN=A|missense_variant|MODERATE|E2|GENE_E2|transcript|TRANSCRIPT_E2|protein_coding|1/1|c.533G>A|p.Arg178His|533/1269|533/1269|178/422||WARNING_TRANSCRIPT_NO_START_CODON,A|upstream_gene_variant|MODIFIER|6K|GENE_6K|transcript|TRANSCRIPT_6K|protein_coding||c.-737G>A|||||737|WARNING_TRANSCRIPT_NO_START_CODON,A|upstream_gene_variant|MODIFIER|E1|GENE_E1|transcript|TRANSCRIPT_E1|protein_coding||c.-920G>A|||||920|WARNING_TRANSCRIPT_NO_START_CODON,A|downstream_gene_variant|MODIFIER|NS2|GENE_NS2|transcript|TRANSCRIPT_NS2|protein_coding||c.*4999G>A|||||4999|WARNING_TRANSCRIPT_NO_START_CODON,A|downstream_gene_variant|MODIFIER|NS3|GENE_NS3|transcript|TRANSCRIPT_NS3|protein_coding||c.*3427G>A|||||3427|WARNING_TRANSCRIPT_NO_START_CODON,A|downstream_gene_variant|MODIFIER|NS4|GENE_NS4|transcript|TRANSCRIPT_NS4|protein_coding||c.*1576G>A|||||1576|WARNING_TRANSCRIPT_NO_START_CODON,A|downstream_gene_variant|MODIFIER|capsid|GENE_capsid|transcript|TRANSCRIPT_capsid|protein_coding||c.*716G>A|||||716|WARNING_TRANSCRIPT_NO_STOP_CODON,A|downstream_gene_variant|MODIFIER|E3|GENE_E3|transcript|TRANSCRIPT_E3|protein_coding||c.*533G>A|||||533|WARNING_TRANSCRIPT_NO_START_CODON,A|non_coding_transcript_variant|MODIFIER|EDEN.1|null|transcript|EDEN.1|protein_coding||||||||WARNING_TRANSCRIPT_NO_START_CODON","MODERATE","Non-synonymous","GT:PL","0/1:255,0,255"]
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{"sheet":"97P95","index":1,"n_rows":18,"n_cols":17,"rows_kept":18,"cut":false,"hidden":false,"merged":[]}
["#CHROM","POS","ID","REF","Nº reads","BHI3734 reads support","ALT","Nº reads","PER160 reas support","Total reads","QUAL","FILTER","INFO","Impact","Nucleotide change","FORMAT","BHI3734_97P45.sorted.dupli.removed.bam"]
["KP164568_BHI3734_H804698_2014_08_26_Human_Brazil",980,".","A",0,{"$f":"E2*100/J2","v":0},"G",4665,{"$f":"H2*100/J2","v":100},{"$f":"E2+H2","v":4665},221.999,"PASS","DP=3610;VDB=0.00480541;SGB=-0.693147;MQSB=0.808214;MQ0F=0;AF1=1;AC1=2;DP4=0,0,2697,629;MQ=42;FQ=-281.989;ANN=G|synonymous_variant|LOW|NS1|GENE_NS1|transcript|TRANSCRIPT_NS1|protein_coding|1/1|c.903A>G|p.Thr301Thr|903/1605|903/1605|301/534||WARNING_TRANSCRIPT_NO_STOP_CODON,G|upstream_gene_variant|MODIFIER|NS2|GENE_NS2|transcript|TRANSCRIPT_NS2|protein_coding||c.-703A>G|||||703|WARNING_TRANSCRIPT_NO_START_CODON,G|upstream_gene_variant|MODIFIER|NS3|GENE_NS3|transcript|TRANSCRIPT_NS3|protein_coding||c.-3097A>G|||||3097|WARNING_TRANSCRIPT_NO_START_CODON,G|upstream_gene_variant|MODIFIER|NS4|GENE_NS4|transcript|TRANSCRIPT_NS4|protein_coding||c.-4687A>G|||||4687|WARNING_TRANSCRIPT_NO_START_CODON,G|non_coding_transcript_variant|MODIFIER|EDEN.1|null|transcript|EDEN.1|protein_coding||||||||WARNING_TRANSCRIPT_NO_START_CODON","LOW","Synonymous","GT:PL","1/1:255,255,0"]
["KP164568_BHI3734_H804698_2014_08_26_Human_Brazil",1779,".","C",438,{"$f":"E3*100/J3","v":66.5653495440729},"T",220,{"$f":"H3*100/J3","v":33.434650455927},{"$f":"E3+H3","v":658},120.008,"PASS","DP=559;VDB=0;SGB=-0.693147;RPB=0.0137134;MQB=0.964404;MQSB=0.982922;BQB=0.488307;MQ0F=0;AF1=0.5;AC1=1;DP4=329,8,168,0;MQ=42;FQ=123.016;PV4=0.0568993,1,0.458141,4.87529e-05;ANN=T|synonymous_variant|LOW|NS2|GENE_NS2|transcript|TRANSCRIPT_NS2|protein_coding|1/1|c.97C>T|p.Leu33Leu|97/2394|97/2394|33/797||WARNING_TRANSCRIPT_NO_START_CODON,T|upstream_gene_variant|MODIFIER|NS3|GENE_NS3|transcript|TRANSCRIPT_NS3|protein_coding||c.-2298C>T|||||2298|WARNING_TRANSCRIPT_NO_START_CODON,T|upstream_gene_variant|MODIFIER|NS4|GENE_NS4|transcript|TRANSCRIPT_NS4|protein_coding||c.-3888C>T|||||3888|WARNING_TRANSCRIPT_NO_START_CODON,T|downstream_gene_variant|MODIFIER|NS1|GENE_NS1|transcript|TRANSCRIPT_NS1|protein_coding||c.*97C>T|||||97|WARNING_TRANSCRIPT_NO_STOP_CODON,T|non_coding_transcript_variant|MODIFIER|EDEN.1|null|transcript|EDEN.1|protein_coding||||||||WARNING_TRANSCRIPT_NO_START_CODON","LOW","Synonymous","GT:PL","0/1:150,0,255"]
["KP164568_BHI3734_H804698_2014_08_26_Human_Brazil",1852,".","C",2,{"$f":"E4*100/J4","v":0.138600138600139},"T",1441,{"$f":"H4*100/J4","v":99.8613998613999},{"$f":"E4+H4","v":1443},221.999,"PASS","DP=1375;VDB=0.98899;SGB=-0.693147;RPB=0.0346576;MQB=0.561707;MQSB=0.357025;BQB=0.25951;MQ0F=0;AF1=1;AC1=2;DP4=0,2,1074,109;MQ=42;FQ=-281.989;PV4=0.00870253,1,1,1;ANN=T|missense_variant|MODERATE|NS2|GENE_NS2|transcript|TRANSCRIPT_NS2|protein_coding|1/1|c.170C>T|p.Ala57Val|170/2394|170/2394|57/797||WARNING_TRANSCRIPT_NO_START_CODON,T|upstream_gene_variant|MODIFIER|NS3|GENE_NS3|transcript|TRANSCRIPT_NS3|protein_coding||c.-2225C>T|||||2225|WARNING_TRANSCRIPT_NO_START_CODON,T|upstream_gene_variant|MODIFIER|NS4|GENE_NS4|transcript|TRANSCRIPT_NS4|protein_coding||c.-3815C>T|||||3815|WARNING_TRANSCRIPT_NO_START_CODON,T|downstream_gene_variant|MODIFIER|NS1|GENE_NS1|transcript|TRANSCRIPT_NS1|protein_coding||c.*170C>T|||||170|WARNING_TRANSCRIPT_NO_STOP_CODON,T|non_coding_transcript_variant|MODIFIER|EDEN.1|null|transcript|EDEN.1|protein_coding||||||||WARNING_TRANSCRIPT_NO_START_CODON","MODERATE","Non-synonymous","GT:PL","1/1:255,255,0"]
["KP164568_BHI3734_H804698_2014_08_26_Human_Brazil",1913,".","C",0,{"$f":"E5*100/J5","v":0},"T",1441,{"$f":"H5*100/J5","v":100},{"$f":"E5+H5","v":1441},221.999,"PASS","DP=1368;VDB=0.686061;SGB=-0.693147;MQSB=0.809574;MQ0F=0;AF1=1;AC1=2;DP4=0,0,860,287;MQ=42;FQ=-281.989;ANN=T|synonymous_variant|LOW|NS2|GENE_NS2|transcript|TRANSCRIPT_NS2|protein_coding|1/1|c.231C>T|p.Ile77Ile|231/2394|231/2394|77/797||WARNING_TRANSCRIPT_NO_START_CODON,T|upstream_gene_variant|MODIFIER|NS3|GENE_NS3|transcript|TRANSCRIPT_NS3|protein_coding||c.-2164C>T|||||2164|WARNING_TRANSCRIPT_NO_START_CODON,T|upstream_gene_variant|MODIFIER|NS4|GENE_NS4|transcript|TRANSCRIPT_NS4|protein_coding||c.-3754C>T|||||3754|WARNING_TRANSCRIPT_NO_START_CODON,T|downstream_gene_variant|MODIFIER|NS1|GENE_NS1|transcript|TRANSCRIPT_NS1|protein_coding||c.*231C>T|||||231|WARNING_TRANSCRIPT_NO_STOP_CODON,T|non_coding_transcript_variant|MODIFIER|EDEN.1|null|transcript|EDEN.1|protein_coding||||||||WARNING_TRANSCRIPT_NO_START_CODON","LOW","Synonymous","GT:PL","1/1:255,255,0"]
["KP164568_BHI3734_H804698_2014_08_26_Human_Brazil",2252,".","T",1,{"$f":"E6*100/J6","v":0.0408329930583912},"C",2448,{"$f":"H6*100/J6","v":99.9591670069416},{"$f":"E6+H6","v":2449},221.999,"PASS","DP=1317;VDB=5.62567e-10;SGB=-0.693147;MQSB=0.074115;MQ0F=0;AF1=1;AC1=2;DP4=0,0,316,795;MQ=42;FQ=-281.989;ANN=C|synonymous_variant|LOW|NS2|GENE_NS2|transcript|TRANSCRIPT_NS2|protein_coding|1/1|c.570T>C|p.Ser190Ser|570/2394|570/2394|190/797||WARNING_TRANSCRIPT_NO_START_CODON,C|upstream_gene_variant|MODIFIER|NS3|GENE_NS3|transcript|TRANSCRIPT_NS3|protein_coding||c.-1825T>C|||||1825|WARNING_TRANSCRIPT_NO_START_CODON,C|upstream_gene_variant|MODIFIER|NS4|GENE_NS4|transcript|TRANSCRIPT_NS4|protein_coding||c.-3415T>C|||||3415|WARNING_TRANSCRIPT_NO_START_CODON,C|downstream_gene_variant|MODIFIER|NS1|GENE_NS1|transcript|TRANSCRIPT_NS1|protein_coding||c.*570T>C|||||570|WARNING_TRANSCRIPT_NO_STOP_CODON,C|non_coding_transcript_variant|MODIFIER|EDEN.1|null|transcript|EDEN.1|protein_coding||||||||WARNING_TRANSCRIPT_NO_START_CODON","LOW","Synonymous","GT:PL","1/1:255,255,0"]
["KP164568_BHI3734_H804698_2014_08_26_Human_Brazil",2636,".","C",2403,{"$f":"E7*100/J7","v":82.0136518771331},"T",527,{"$f":"H7*100/J7","v":17.9863481228669},{"$f":"E7+H7","v":2930},70.0074,"PASS","DP=2740;VDB=1;SGB=-0.693147;RPB=0.148617;MQB=0.183107;MQSB=0.938443;BQB=1.68975e-33;MQ0F=0.000364963;AF1=0.5;AC1=1;DP4=1588,353,233,206;MQ=42;FQ=73.0156;PV4=9.20733e-34,3.44085e-16,0.00021551,0;ANN=T|synonymous_variant|LOW|NS2|GENE_NS2|transcript|TRANSCRIPT_NS2|protein_coding|1/1|c.954C>T|p.Thr318Thr|954/2394|954/2394|318/797||WARNING_TRANSCRIPT_NO_START_CODON,T|upstream_gene_variant|MODIFIER|NS3|GENE_NS3|transcript|TRANSCRIPT_NS3|protein_coding||c.-1441C>T|||||1441|WARNING_TRANSCRIPT_NO_START_CODON,T|upstream_gene_variant|MODIFIER|NS4|GENE_NS4|transcript|TRANSCRIPT_NS4|protein_coding||c.-3031C>T|||||3031|WARNING_TRANSCRIPT_NO_START_CODON,T|upstream_gene_variant|MODIFIER|capsid|GENE_capsid|transcript|TRANSCRIPT_capsid|protein_coding||c.-4932C>T|||||4932|WARNING_TRANSCRIPT_NO_STOP_CODON,T|downstream_gene_variant|MODIFIER|NS1|GENE_NS1|transcript|TRANSCRIPT_NS1|protein_coding||c.*954C>T|||||954|WARNING_TRANSCRIPT_NO_STOP_CODON,T|non_coding_transcript_variant|MODIFIER|EDEN.1|null|transcript|EDEN.1|protein_coding||||||||WARNING_TRANSCRIPT_NO_START_CODON","LOW","Synonymous","GT:PL","0/1:100,0,255"]
["KP164568_BHI3734_H804698_2014_08_26_Human_Brazil",2663,".","A",5,{"$f":"E8*100/J8","v":0.135906496330525},"G",3674,{"$f":"H8*100/J8","v":99.8640935036695},{"$f":"E8+H8","v":3679},221.999,"PASS","DP=3526;VDB=5.55867e-05;SGB=-0.693147;RPB=0.869473;MQB=0.998218;MQSB=0.958899;BQB=0.710426;MQ0F=0.000283607;AF1=1;AC1=2;DP4=1,2,2090,1022;MQ=42;FQ=-281.989;PV4=0.253073,1,0.445225,1;ANN=G|synonymous_variant|LOW|NS2|GENE_NS2|transcript|TRANSCRIPT_NS2|protein_coding|1/1|c.981A>G|p.Glu327Glu|981/2394|981/2394|327/797||WARNING_TRANSCRIPT_NO_START_CODON,G|upstream_gene_variant|MODIFIER|NS3|GENE_NS3|transcript|TRANSCRIPT_NS3|protein_coding||c.-1414A>G|||||1414|WARNING_TRANSCRIPT_NO_START_CODON,G|upstream_gene_variant|MODIFIER|NS4|GENE_NS4|transcript|TRANSCRIPT_NS4|protein_coding||c.-3004A>G|||||3004|WARNING_TRANSCRIPT_NO_START_CODON,G|upstream_gene_variant|MODIFIER|capsid|GENE_capsid|transcript|TRANSCRIPT_capsid|protein_coding||c.-4905A>G|||||4905|WARNING_TRANSCRIPT_NO_STOP_CODON,G|downstream_gene_variant|MODIFIER|NS1|GENE_NS1|transcript|TRANSCRIPT_NS1|protein_coding||c.*981A>G|||||981|WARNING_TRANSCRIPT_NO_STOP_CODON,G|non_coding_transcript_variant|MODIFIER|EDEN.1|null|transcript|EDEN.1|protein_coding||||||||WARNING_TRANSCRIPT_NO_START_CODON","LOW","Synonymous","GT:PL","1/1:255,255,0"]
["KP164568_BHI3734_H804698_2014_08_26_Human_Brazil",3602,".","T",6,{"$f":"E9*100/J9","v":0.105411103302881},"C",5686,{"$f":"H9*100/J9","v":99.8945888966971},{"$f":"E9+H9","v":5692},221.999,"PASS","DP=4643;VDB=0.167693;SGB=-0.693147;RPB=1;MQB=1;MQSB=0.979278;BQB=1;MQ0F=0;AF1=1;AC1=2;DP4=1,0,2237,2186;MQ=42;FQ=-281.989;PV4=1,1,0.459042,0.155466;ANN=C|synonymous_variant|LOW|NS2|GENE_NS2|transcript|TRANSCRIPT_NS2|protein_coding|1/1|c.1920T>C|p.Ser640Ser|1920/2394|1920/2394|640/797||WARNING_TRANSCRIPT_NO_START_CODON,C|upstream_gene_variant|MODIFIER|NS3|GENE_NS3|transcript|TRANSCRIPT_NS3|protein_coding||c.-475T>C|||||475|WARNING_TRANSCRIPT_NO_START_CODON,C|upstream_gene_variant|MODIFIER|NS4|GENE_NS4|transcript|TRANSCRIPT_NS4|protein_coding||c.-2065T>C|||||2065|WARNING_TRANSCRIPT_NO_START_CODON,C|upstream_gene_variant|MODIFIER|capsid|GENE_capsid|transcript|TRANSCRIPT_capsid|protein_coding||c.-3966T>C|||||3966|WARNING_TRANSCRIPT_NO_STOP_CODON,C|upstream_gene_variant|MODIFIER|E3|GENE_E3|transcript|TRANSCRIPT_E3|protein_coding||c.-4758T>C|||||4758|WARNING_TRANSCRIPT_NO_START_CODON,C|upstream_gene_variant|MODIFIER|E2|GENE_E2|transcript|TRANSCRIPT_E2|protein_coding||c.-4941T>C|||||4941|WARNING_TRANSCRIPT_NO_START_CODON,C|downstream_gene_variant|MODIFIER|NS1|GENE_NS1|transcript|TRANSCRIPT_NS1|protein_coding||c.*1920T>C|||||1920|WARNING_TRANSCRIPT_NO_STOP_CODON,C|non_coding_transcript_variant|MODIFIER|EDEN.1|null|transcript|EDEN.1|protein_coding||||||||WARNING_TRANSCRIPT_NO_START_CODON","LOW","Synonymous","GT:PL","1/1:255,255,0"]
["KP164568_BHI3734_H804698_2014_08_26_Human_Brazil",5522,".","C",0,{"$f":"E10*100/J10","v":0},"T",2224,{"$f":"H10*100/J10","v":100},{"$f":"E10+H10","v":2224},221.999,"PASS","DP=1698;VDB=1.34957e-05;SGB=-0.693147;MQSB=0.867898;MQ0F=0.000588928;AF1=1;AC1=2;DP4=0,0,228,1383;MQ=42;FQ=-281.989;ANN=T|synonymous_variant|LOW|NS3|GENE_NS3|transcript|TRANSCRIPT_NS3|protein_coding|1/1|c.1446C>T|p.Phe482Phe|1446/1572|1446/1572|482/523||WARNING_TRANSCRIPT_NO_START_CODON,T|upstream_gene_variant|MODIFIER|NS4|GENE_NS4|transcript|TRANSCRIPT_NS4|protein_coding||c.-145C>T|||||145|WARNING_TRANSCRIPT_NO_START_CODON,T|upstream_gene_variant|MODIFIER|capsid|GENE_capsid|transcript|TRANSCRIPT_capsid|protein_coding||c.-2046C>T|||||2046|WARNING_TRANSCRIPT_NO_STOP_CODON,T|upstream_gene_variant|MODIFIER|E3|GENE_E3|transcript|TRANSCRIPT_E3|protein_coding||c.-2838C>T|||||2838|WARNING_TRANSCRIPT_NO_START_CODON,T|upstream_gene_variant|MODIFIER|E2|GENE_E2|transcript|TRANSCRIPT_E2|protein_coding||c.-3021C>T|||||3021|WARNING_TRANSCRIPT_NO_START_CODON,T|upstream_gene_variant|MODIFIER|6K|GENE_6K|transcript|TRANSCRIPT_6K|protein_coding||c.-4290C>T|||||4290|WARNING_TRANSCRIPT_NO_START_CODON,T|upstream_gene_variant|MODIFIER|E1|GENE_E1|transcript|TRANSCRIPT_E1|protein_coding||c.-4473C>T|||||4473|WARNING_TRANSCRIPT_NO_START_CODON,T|downstream_gene_variant|MODIFIER|NS1|GENE_NS1|transcript|TRANSCRIPT_NS1|protein_coding||c.*3840C>T|||||3840|WARNING_TRANSCRIPT_NO_STOP_CODON,T|downstream_gene_variant|MODIFIER|NS2|GENE_NS2|transcript|TRANSCRIPT_NS2|protein_coding||c.*1446C>T|||||1446|WARNING_TRANSCRIPT_NO_START_CODON,T|non_coding_transcript_variant|MODIFIER|EDEN.1|null|transcript|EDEN.1|protein_coding||||||||WARNING_TRANSCRIPT_NO_START_CODON","LOW","Synonymous","GT:PL","1/1:255,255,0"]
["KP164568_BHI3734_H804698_2014_08_26_Human_Brazil",5813,".","T",2,{"$f":"E11*100/J11","v":0.136892539356605},"C",1459,{"$f":"H11*100/J11","v":99.8631074606434},{"$f":"E11+H11","v":1461},221.999,"PASS","DP=1431;VDB=0.493234;SGB=-0.693147;MQSB=0.217452;MQ0F=0;AF1=1;AC1=2;DP4=0,0,419,751;MQ=42;FQ=-281.989;ANN=C|synonymous_variant|LOW|NS4|GENE_NS4|transcript|TRANSCRIPT_NS4|protein_coding|1/1|c.147T>C|p.Leu49Leu|147/1833|147/1833|49/610||WARNING_TRANSCRIPT_NO_START_CODON,C|upstream_gene_variant|MODIFIER|capsid|GENE_capsid|transcript|TRANSCRIPT_capsid|protein_coding||c.-1755T>C|||||1755|WARNING_TRANSCRIPT_NO_STOP_CODON,C|upstream_gene_variant|MODIFIER|E3|GENE_E3|transcript|TRANSCRIPT_E3|protein_coding||c.-2547T>C|||||2547|WARNING_TRANSCRIPT_NO_START_CODON,C|upstream_gene_variant|MODIFIER|E2|GENE_E2|transcript|TRANSCRIPT_E2|protein_coding||c.-2730T>C|||||2730|WARNING_TRANSCRIPT_NO_START_CODON,C|upstream_gene_variant|MODIFIER|6K|GENE_6K|transcript|TRANSCRIPT_6K|protein_coding||c.-3999T>C|||||3999|WARNING_TRANSCRIPT_NO_START_CODON,C|upstream_gene_variant|MODIFIER|E1|GENE_E1|transcript|TRANSCRIPT_E1|protein_coding||c.-4182T>C|||||4182|WARNING_TRANSCRIPT_NO_START_CODON,C|downstream_gene_variant|MODIFIER|NS1|GENE_NS1|transcript|TRANSCRIPT_NS1|protein_coding||c.*4131T>C|||||4131|WARNING_TRANSCRIPT_NO_STOP_CODON,C|downstream_gene_variant|MODIFIER|NS2|GENE_NS2|transcript|TRANSCRIPT_NS2|protein_coding||c.*1737T>C|||||1737|WARNING_TRANSCRIPT_NO_START_CODON,C|downstream_gene_variant|MODIFIER|NS3|GENE_NS3|transcript|TRANSCRIPT_NS3|protein_coding||c.*165T>C|||||165|WARNING_TRANSCRIPT_NO_START_CODON,C|non_coding_transcript_variant|MODIFIER|EDEN.1|null|transcript|EDEN.1|protein_coding||||||||WARNING_TRANSCRIPT_NO_START_CODON","LOW","Synonymous","GT:PL","1/1:255,255,0"]
["KP164568_BHI3734_H804698_2014_08_26_Human_Brazil",7047,".","G",1,{"$f":"E12*100/J12","v":0.0619962802231866},"T",1612,{"$f":"H12*100/J12","v":99.9380037197768},{"$f":"E12+H12","v":1613},221.999,"PASS","DP=1539;VDB=2.20939e-08;SGB=-0.693147;RPB=1;MQB=1;MQSB=0.917771;BQB=1;MQ0F=0;AF1=1;AC1=2;DP4=0,1,228,1221;MQ=42;FQ=-281.989;PV4=1,1,1,1;ANN=T|missense_variant|MODERATE|NS4|GENE_NS4|transcript|TRANSCRIPT_NS4|protein_coding|1/1|c.1381G>T|p.Ala461Ser|1381/1833|1381/1833|461/610||WARNING_TRANSCRIPT_NO_START_CODON,T|upstream_gene_variant|MODIFIER|capsid|GENE_capsid|transcript|TRANSCRIPT_capsid|protein_coding||c.-521G>T|||||521|WARNING_TRANSCRIPT_NO_STOP_CODON,T|upstream_gene_variant|MODIFIER|E3|GENE_E3|transcript|TRANSCRIPT_E3|protein_coding||c.-1313G>T|||||1313|WARNING_TRANSCRIPT_NO_START_CODON,T|upstream_gene_variant|MODIFIER|E2|GENE_E2|transcript|TRANSCRIPT_E2|protein_coding||c.-1496G>T|||||1496|WARNING_TRANSCRIPT_NO_START_CODON,T|upstream_gene_variant|MODIFIER|6K|GENE_6K|transcript|TRANSCRIPT_6K|protein_coding||c.-2765G>T|||||2765|WARNING_TRANSCRIPT_NO_START_CODON,T|upstream_gene_variant|MODIFIER|E1|GENE_E1|transcript|TRANSCRIPT_E1|protein_coding||c.-2948G>T|||||2948|WARNING_TRANSCRIPT_NO_START_CODON,T|downstream_gene_variant|MODIFIER|NS2|GENE_NS2|transcript|TRANSCRIPT_NS2|protein_coding||c.*2971G>T|||||2971|WARNING_TRANSCRIPT_NO_START_CODON,T|downstream_gene_variant|MODIFIER|NS3|GENE_NS3|transcript|TRANSCRIPT_NS3|protein_coding||c.*1399G>T|||||1399|WARNING_TRANSCRIPT_NO_START_CODON,T|non_coding_transcript_variant|MODIFIER|EDEN.1|null|transcript|EDEN.1|protein_coding||||||||WARNING_TRANSCRIPT_NO_START_CODON","MODERATE","Non-synonymous","GT:PL","1/1:255,255,0"]
["KP164568_BHI3734_H804698_2014_08_26_Human_Brazil",8588,".","T",3058,{"$f":"E13*100/J13","v":81.6991717873364},"C",685,{"$f":"H13*100/J13","v":18.3008282126636},{"$f":"E13+H13","v":3743},72.0074,"PASS","DP=3569;VDB=1;SGB=-0.693147;RPB=5.42656e-08;MQB=0.670574;MQSB=0.942382;BQB=3.64338e-44;MQ0F=0.000560381;AF1=0.5;AC1=1;DP4=1158,1576,222,382;MQ=42;FQ=75.0156;PV4=0.0120223,3.51694e-05,6.69488e-07,0;ANN=C|synonymous_variant|LOW|E2|GENE_E2|transcript|TRANSCRIPT_E2|protein_coding|1/1|c.46T>C|p.Leu16Leu|46/1269|46/1269|16/422||WARNING_TRANSCRIPT_NO_START_CODON,C|upstream_gene_variant|MODIFIER|6K|GENE_6K|transcript|TRANSCRIPT_6K|protein_coding||c.-1224T>C|||||1224|WARNING_TRANSCRIPT_NO_START_CODON,C|upstream_gene_variant|MODIFIER|E1|GENE_E1|transcript|TRANSCRIPT_E1|protein_coding||c.-1407T>C|||||1407|WARNING_TRANSCRIPT_NO_START_CODON,C|downstream_gene_variant|MODIFIER|NS2|GENE_NS2|transcript|TRANSCRIPT_NS2|protein_coding||c.*4512T>C|||||4512|WARNING_TRANSCRIPT_NO_START_CODON,C|downstream_gene_variant|MODIFIER|NS3|GENE_NS3|transcript|TRANSCRIPT_NS3|protein_coding||c.*2940T>C|||||2940|WARNING_TRANSCRIPT_NO_START_CODON,C|downstream_gene_variant|MODIFIER|NS4|GENE_NS4|transcript|TRANSCRIPT_NS4|protein_coding||c.*1089T>C|||||1089|WARNING_TRANSCRIPT_NO_START_CODON,C|downstream_gene_variant|MODIFIER|capsid|GENE_capsid|transcript|TRANSCRIPT_capsid|protein_coding||c.*229T>C|||||229|WARNING_TRANSCRIPT_NO_STOP_CODON,C|downstream_gene_variant|MODIFIER|E3|GENE_E3|transcript|TRANSCRIPT_E3|protein_coding||c.*46T>C|||||46|WARNING_TRANSCRIPT_NO_START_CODON,C|non_coding_transcript_variant|MODIFIER|EDEN.1|null|transcript|EDEN.1|protein_coding||||||||WARNING_TRANSCRIPT_NO_START_CODON","LOW","Synonymous","GT:PL","0/1:102,0,255"]
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["KP164568_BHI3734_H804698_2014_08_26_Human_Brazil",9645,".","T",2,{"$f":"E15*100/J15","v":0.108225108225108},"C",1846,{"$f":"H15*100/J15","v":99.8917748917749},{"$f":"E15+H15","v":1848},221.999,"PASS","DP=1679;VDB=2.1925e-34;SGB=-0.693147;MQSB=0.806265;MQ0F=0.00119119;AF1=1;AC1=2;DP4=0,0,1159,326;MQ=42;FQ=-281.989;ANN=C|missense_variant|MODERATE|E2|GENE_E2|transcript|TRANSCRIPT_E2|protein_coding|1/1|c.1103T>C|p.Val368Ala|1103/1269|1103/1269|368/422||WARNING_TRANSCRIPT_NO_START_CODON,C|upstream_gene_variant|MODIFIER|6K|GENE_6K|transcript|TRANSCRIPT_6K|protein_coding||c.-167T>C|||||167|WARNING_TRANSCRIPT_NO_START_CODON,C|upstream_gene_variant|MODIFIER|E1|GENE_E1|transcript|TRANSCRIPT_E1|protein_coding||c.-350T>C|||||350|WARNING_TRANSCRIPT_NO_START_CODON,C|downstream_gene_variant|MODIFIER|NS3|GENE_NS3|transcript|TRANSCRIPT_NS3|protein_coding||c.*3997T>C|||||3997|WARNING_TRANSCRIPT_NO_START_CODON,C|downstream_gene_variant|MODIFIER|NS4|GENE_NS4|transcript|TRANSCRIPT_NS4|protein_coding||c.*2146T>C|||||2146|WARNING_TRANSCRIPT_NO_START_CODON,C|downstream_gene_variant|MODIFIER|capsid|GENE_capsid|transcript|TRANSCRIPT_capsid|protein_coding||c.*1286T>C|||||1286|WARNING_TRANSCRIPT_NO_STOP_CODON,C|downstream_gene_variant|MODIFIER|E3|GENE_E3|transcript|TRANSCRIPT_E3|protein_coding||c.*1103T>C|||||1103|WARNING_TRANSCRIPT_NO_START_CODON,C|non_coding_transcript_variant|MODIFIER|EDEN.1|null|transcript|EDEN.1|protein_coding||||||||WARNING_TRANSCRIPT_NO_START_CODON","MODERATE","Non-synonymous","GT:PL","1/1:255,255,0"]
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["KP164568_BHI3734_H804698_2014_08_26_Human_Brazil",10600,".","T",401,{"$f":"E17*100/J17","v":47.5682087781732},"C",442,{"$f":"H17*100/J17","v":52.4317912218268},{"$f":"E17+H17","v":843},225.009,"PASS","DP=811;VDB=0.00383429;SGB=-0.693147;RPB=4.98749e-05;MQB=0.126277;MQSB=0.961901;BQB=0.0688063;MQ0F=0.00123305;AF1=0.5;AC1=1;DP4=101,241,252,135;MQ=42;FQ=225.007;PV4=4.01893e-22,0.430295,0.0495333,0.000494602;ANN=C|synonymous_variant|LOW|E1|GENE_E1|transcript|TRANSCRIPT_E1|protein_coding|1/1|c.606T>C|p.Asp202Asp|606/1317|606/1317|202/438||WARNING_TRANSCRIPT_NO_START_CODON,C|downstream_gene_variant|MODIFIER|NS3|GENE_NS3|transcript|TRANSCRIPT_NS3|protein_coding||c.*4952T>C|||||4952|WARNING_TRANSCRIPT_NO_START_CODON,C|downstream_gene_variant|MODIFIER|NS4|GENE_NS4|transcript|TRANSCRIPT_NS4|protein_coding||c.*3101T>C|||||3101|WARNING_TRANSCRIPT_NO_START_CODON,C|downstream_gene_variant|MODIFIER|capsid|GENE_capsid|transcript|TRANSCRIPT_capsid|protein_coding||c.*2241T>C|||||2241|WARNING_TRANSCRIPT_NO_STOP_CODON,C|downstream_gene_variant|MODIFIER|E3|GENE_E3|transcript|TRANSCRIPT_E3|protein_coding||c.*2058T>C|||||2058|WARNING_TRANSCRIPT_NO_START_CODON,C|downstream_gene_variant|MODIFIER|E2|GENE_E2|transcript|TRANSCRIPT_E2|protein_coding||c.*789T>C|||||789|WARNING_TRANSCRIPT_NO_START_CODON,C|downstream_gene_variant|MODIFIER|6K|GENE_6K|transcript|TRANSCRIPT_6K|protein_coding||c.*606T>C|||||606|WARNING_TRANSCRIPT_NO_START_CODON,C|non_coding_transcript_variant|MODIFIER|EDEN.1|null|transcript|EDEN.1|protein_coding||||||||WARNING_TRANSCRIPT_NO_START_CODON","LOW","Synonymous","GT:PL","0/1:255,0,255"]
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{"sheet":"43P41","index":2,"n_rows":12,"n_cols":17,"rows_kept":12,"cut":false,"hidden":false,"merged":[]}
["#CHROM","POS","ID","REF","Nº reads","BHI3734 reads support","ALT","Nº reads","PER160 reas support","Total reads","QUAL","FILTER","INFO","Impact","Nucleotide change","FORMAT","BHI3734_43P41.sorted.dupli.removed.bam"]
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["KP164568_BHI3734_H804698_2014_08_26_Human_Brazil",1913,".","C",0,{"$f":"E3*100/J3","v":0},"T",691,{"$f":"H3*100/J3","v":100},{"$f":"E3+H3","v":691},221.999,"PASS","DP=573;VDB=0.527568;SGB=-0.693147;MQSB=0.939089;MQ0F=0;AF1=1;AC1=2;DP4=0,0,403,103;MQ=42;FQ=-281.989;ANN=T|synonymous_variant|LOW|NS2|GENE_NS2|transcript|TRANSCRIPT_NS2|protein_coding|1/1|c.231C>T|p.Ile77Ile|231/2394|231/2394|77/797||WARNING_TRANSCRIPT_NO_START_CODON,T|upstream_gene_variant|MODIFIER|NS3|GENE_NS3|transcript|TRANSCRIPT_NS3|protein_coding||c.-2164C>T|||||2164|WARNING_TRANSCRIPT_NO_START_CODON,T|upstream_gene_variant|MODIFIER|NS4|GENE_NS4|transcript|TRANSCRIPT_NS4|protein_coding||c.-3754C>T|||||3754|WARNING_TRANSCRIPT_NO_START_CODON,T|downstream_gene_variant|MODIFIER|NS1|GENE_NS1|transcript|TRANSCRIPT_NS1|protein_coding||c.*231C>T|||||231|WARNING_TRANSCRIPT_NO_STOP_CODON,T|non_coding_transcript_variant|MODIFIER|EDEN.1|null|transcript|EDEN.1|protein_coding||||||||WARNING_TRANSCRIPT_NO_START_CODON","LOW","Synonymous","GT:PL","1/1:255,255,0"]
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{"sheet":"89P87","index":3,"n_rows":68,"n_cols":17,"rows_kept":68,"cut":false,"hidden":false,"merged":[]}
["#CHROM","POS","ID","REF","Nº reads","BHI3734 reads support","ALT","Nº reads","PER160 reas support","Total reads","QUAL","FILTER","INFO","Impact","Nucleotide change","FORMAT","BHI3734_89P87.sorted.dupli.removed.bam"]
["KP164568_BHI3734_H804698_2014_08_26_Human_Brazil",2736,".","C",197,{"$f":"E2*100/J2","v":79.7570850202429},"G",50,{"$f":"H2*100/J2","v":20.2429149797571},{"$f":"H2+E2","v":247},195.009,"PASS","DP=247;VDB=0.4666;SGB=-0.693141;RPB=0.991033;MQB=0.625113;MQSB=0.819665;BQB=0.00118593;MQ0F=0.00809717;AF1=0.5;AC1=1;DP4=84,32,23,14;MQ=40;FQ=198.013;PV4=0.303088,6.86215e-05,1,0.0837928;ANN=G|missense_variant|MODERATE|NS2|GENE_NS2|transcript|TRANSCRIPT_NS2|protein_coding|1/1|c.1054C>G|p.Pro352Ala|1054/2394|1054/2394|352/797||WARNING_TRANSCRIPT_NO_START_CODON,G|upstream_gene_variant|MODIFIER|NS3|GENE_NS3|transcript|TRANSCRIPT_NS3|protein_coding||c.-1341C>G|||||1341|WARNING_TRANSCRIPT_NO_START_CODON,G|upstream_gene_variant|MODIFIER|NS4|GENE_NS4|transcript|TRANSCRIPT_NS4|protein_coding||c.-2931C>G|||||2931|WARNING_TRANSCRIPT_NO_START_CODON,G|upstream_gene_variant|MODIFIER|capsid|GENE_capsid|transcript|TRANSCRIPT_capsid|protein_coding||c.-4832C>G|||||4832|WARNING_TRANSCRIPT_NO_STOP_CODON,G|downstream_gene_variant|MODIFIER|NS1|GENE_NS1|transcript|TRANSCRIPT_NS1|protein_coding||c.*1054C>G|||||1054|WARNING_TRANSCRIPT_NO_STOP_CODON,G|non_coding_transcript_variant|MODIFIER|EDEN.1|null|transcript|EDEN.1|protein_coding||||||||WARNING_TRANSCRIPT_NO_START_CODON","MODERATE","Non-synonymous","GT:PL","0/1:225,0,255"]
["KP164568_BHI3734_H804698_2014_08_26_Human_Brazil",2802,".","T",359,{"$f":"E3*100/J3","v":29.8420615128845},"C",844,{"$f":"H3*100/J3","v":70.1579384871156},{"$f":"H3+E3","v":1203},191.009,"PASS","DP=1202;VDB=3.84909e-29;SGB=-0.693147;RPB=0.481972;MQB=5.84651e-25;MQSB=0.000690645;BQB=0.455319;MQ0F=0;AF1=0.5;AC1=1;DP4=276,25,669,0;MQ=39;FQ=176.931;PV4=9.66572e-14,1,4.60218e-22,0.48529;ANN=C|missense_variant|MODERATE|NS2|GENE_NS2|transcript|TRANSCRIPT_NS2|protein_coding|1/1|c.1120T>C|p.Tyr374His|1120/2394|1120/2394|374/797||WARNING_TRANSCRIPT_NO_START_CODON,C|upstream_gene_variant|MODIFIER|NS3|GENE_NS3|transcript|TRANSCRIPT_NS3|protein_coding||c.-1275T>C|||||1275|WARNING_TRANSCRIPT_NO_START_CODON,C|upstream_gene_variant|MODIFIER|NS4|GENE_NS4|transcript|TRANSCRIPT_NS4|protein_coding||c.-2865T>C|||||2865|WARNING_TRANSCRIPT_NO_START_CODON,C|upstream_gene_variant|MODIFIER|capsid|GENE_capsid|transcript|TRANSCRIPT_capsid|protein_coding||c.-4766T>C|||||4766|WARNING_TRANSCRIPT_NO_STOP_CODON,C|downstream_gene_variant|MODIFIER|NS1|GENE_NS1|transcript|TRANSCRIPT_NS1|protein_coding||c.*1120T>C|||||1120|WARNING_TRANSCRIPT_NO_STOP_CODON,C|non_coding_transcript_variant|MODIFIER|EDEN.1|null|transcript|EDEN.1|protein_coding||||||||WARNING_TRANSCRIPT_NO_START_CODON","MODERATE","Non-synonymous","GT:PL","0/1:221,0,204"]
["KP164568_BHI3734_H804698_2014_08_26_Human_Brazil",2876,".","T",747,{"$f":"E4*100/J4","v":61.5321252059308},"C",467,{"$f":"H4*100/J4","v":38.4678747940692},{"$f":"H4+E4","v":1214},225.009,"PASS","DP=1214;VDB=5.30609e-19;SGB=-0.693147;RPB=0;MQB=0;MQSB=0.999935;BQB=0.115465;MQ0F=0;AF1=0.5;AC1=1;DP4=413,157,224,167;MQ=38;FQ=225.007;PV4=1.52945e-06,5.12527e-05,0,5.31093e-17;ANN=C|synonymous_variant|LOW|NS2|GENE_NS2|transcript|TRANSCRIPT_NS2|protein_coding|1/1|c.1194T>C|p.Asn398Asn|1194/2394|1194/2394|398/797||WARNING_TRANSCRIPT_NO_START_CODON,C|upstream_gene_variant|MODIFIER|NS3|GENE_NS3|transcript|TRANSCRIPT_NS3|protein_coding||c.-1201T>C|||||1201|WARNING_TRANSCRIPT_NO_START_CODON,C|upstream_gene_variant|MODIFIER|NS4|GENE_NS4|transcript|TRANSCRIPT_NS4|protein_coding||c.-2791T>C|||||2791|WARNING_TRANSCRIPT_NO_START_CODON,C|upstream_gene_variant|MODIFIER|capsid|GENE_capsid|transcript|TRANSCRIPT_capsid|protein_coding||c.-4692T>C|||||4692|WARNING_TRANSCRIPT_NO_STOP_CODON,C|downstream_gene_variant|MODIFIER|NS1|GENE_NS1|transcript|TRANSCRIPT_NS1|protein_coding||c.*1194T>C|||||1194|WARNING_TRANSCRIPT_NO_STOP_CODON,C|non_coding_transcript_variant|MODIFIER|EDEN.1|null|transcript|EDEN.1|protein_coding||||||||WARNING_TRANSCRIPT_NO_START_CODON","LOW","Synonymous","GT:PL","0/1:255,0,255"]
["KP164568_BHI3734_H804698_2014_08_26_Human_Brazil",2885,".","G",708,{"$f":"E5*100/J5","v":49.475890985325},"A",723,{"$f":"H5*100/J5","v":50.5241090146751},{"$f":"H5+E5","v":1431},225.009,"PASS","DP=1431;VDB=7.00132e-07;SGB=-0.693147;RPB=1.84477e-40;MQB=0;MQSB=0.0343039;BQB=0.000711189;MQ0F=0;AF1=0.5;AC1=1;DP4=391,152,387,217;MQ=37;FQ=225.007;PV4=0.00438858,1.1054e-05,0,7.69667e-08;ANN=A|synonymous_variant|LOW|NS2|GENE_NS2|transcript|TRANSCRIPT_NS2|protein_coding|1/1|c.1203G>A|p.Pro401Pro|1203/2394|1203/2394|401/797||WARNING_TRANSCRIPT_NO_START_CODON,A|upstream_gene_variant|MODIFIER|NS3|GENE_NS3|transcript|TRANSCRIPT_NS3|protein_coding||c.-1192G>A|||||1192|WARNING_TRANSCRIPT_NO_START_CODON,A|upstream_gene_variant|MODIFIER|NS4|GENE_NS4|transcript|TRANSCRIPT_NS4|protein_coding||c.-2782G>A|||||2782|WARNING_TRANSCRIPT_NO_START_CODON,A|upstream_gene_variant|MODIFIER|capsid|GENE_capsid|transcript|TRANSCRIPT_capsid|protein_coding||c.-4683G>A|||||4683|WARNING_TRANSCRIPT_NO_STOP_CODON,A|downstream_gene_variant|MODIFIER|NS1|GENE_NS1|transcript|TRANSCRIPT_NS1|protein_coding||c.*1203G>A|||||1203|WARNING_TRANSCRIPT_NO_STOP_CODON,A|non_coding_transcript_variant|MODIFIER|EDEN.1|null|transcript|EDEN.1|protein_coding||||||||WARNING_TRANSCRIPT_NO_START_CODON","LOW","Synonymous","GT:PL","0/1:255,0,255"]
["KP164568_BHI3734_H804698_2014_08_26_Human_Brazil",2900,".","G",862,{"$f":"E6*100/J6","v":41.7838099854581},"A",1201,{"$f":"H6*100/J6","v":58.2161900145419},{"$f":"H6+E6","v":2063},225.009,"PASS","DP=2054;VDB=0.00229717;SGB=-0.693147;RPB=9.29391e-28;MQB=0;MQSB=3.25276e-06;BQB=0.00285354;MQ0F=0;AF1=0.5;AC1=1;DP4=446,184,670,262;MQ=36;FQ=225.007;PV4=0.648114,7.38784e-05,0,0.436409;ANN=A|synonymous_variant|LOW|NS2|GENE_NS2|transcript|TRANSCRIPT_NS2|protein_coding|1/1|c.1218G>A|p.Thr406Thr|1218/2394|1218/2394|406/797||WARNING_TRANSCRIPT_NO_START_CODON,A|upstream_gene_variant|MODIFIER|NS3|GENE_NS3|transcript|TRANSCRIPT_NS3|protein_coding||c.-1177G>A|||||1177|WARNING_TRANSCRIPT_NO_START_CODON,A|upstream_gene_variant|MODIFIER|NS4|GENE_NS4|transcript|TRANSCRIPT_NS4|protein_coding||c.-2767G>A|||||2767|WARNING_TRANSCRIPT_NO_START_CODON,A|upstream_gene_variant|MODIFIER|capsid|GENE_capsid|transcript|TRANSCRIPT_capsid|protein_coding||c.-4668G>A|||||4668|WARNING_TRANSCRIPT_NO_STOP_CODON,A|downstream_gene_variant|MODIFIER|NS1|GENE_NS1|transcript|TRANSCRIPT_NS1|protein_coding||c.*1218G>A|||||1218|WARNING_TRANSCRIPT_NO_STOP_CODON,A|non_coding_transcript_variant|MODIFIER|EDEN.1|null|transcript|EDEN.1|protein_coding||||||||WARNING_TRANSCRIPT_NO_START_CODON","LOW","Synonymous","GT:PL","0/1:255,0,255"]
["KP164568_BHI3734_H804698_2014_08_26_Human_Brazil",2927,".","A",876,{"$f":"E7*100/J7","v":37.4839537869063},"G",1461,{"$f":"H7*100/J7","v":62.5160462130937},{"$f":"H7+E7","v":2337},225.009,"PASS","DP=2326;VDB=0.00172406;SGB=-0.693147;RPB=0.979767;MQB=0;MQSB=1.15267e-24;BQB=0.997508;MQ0F=0;AF1=0.5;AC1=1;DP4=442,200,803,283;MQ=35;FQ=225.007;PV4=0.0230899,0.31345,0,1;ANN=G|synonymous_variant|LOW|NS2|GENE_NS2|transcript|TRANSCRIPT_NS2|protein_coding|1/1|c.1245A>G|p.Thr415Thr|1245/2394|1245/2394|415/797||WARNING_TRANSCRIPT_NO_START_CODON,G|upstream_gene_variant|MODIFIER|NS3|GENE_NS3|transcript|TRANSCRIPT_NS3|protein_coding||c.-1150A>G|||||1150|WARNING_TRANSCRIPT_NO_START_CODON,G|upstream_gene_variant|MODIFIER|NS4|GENE_NS4|transcript|TRANSCRIPT_NS4|protein_coding||c.-2740A>G|||||2740|WARNING_TRANSCRIPT_NO_START_CODON,G|upstream_gene_variant|MODIFIER|capsid|GENE_capsid|transcript|TRANSCRIPT_capsid|protein_coding||c.-4641A>G|||||4641|WARNING_TRANSCRIPT_NO_STOP_CODON,G|downstream_gene_variant|MODIFIER|NS1|GENE_NS1|transcript|TRANSCRIPT_NS1|protein_coding||c.*1245A>G|||||1245|WARNING_TRANSCRIPT_NO_STOP_CODON,G|non_coding_transcript_variant|MODIFIER|EDEN.1|null|transcript|EDEN.1|protein_coding||||||||WARNING_TRANSCRIPT_NO_START_CODON","LOW","Synonymous","GT:PL","0/1:255,0,255"]
["KP164568_BHI3734_H804698_2014_08_26_Human_Brazil",2960,".","T",826,{"$f":"E8*100/J8","v":34.6767422334173},"C",1556,{"$f":"H8*100/J8","v":65.3232577665827},{"$f":"H8+E8","v":2382},225.009,"PASS","DP=2361;VDB=0.999999;SGB=-0.693147;RPB=0.897425;MQB=0;MQSB=3.94529e-21;BQB=0.625739;MQ0F=0;AF1=0.5;AC1=1;DP4=408,200,764,395;MQ=34;FQ=225.007;PV4=0.633703,1,0,1;ANN=C|synonymous_variant|LOW|NS2|GENE_NS2|transcript|TRANSCRIPT_NS2|protein_coding|1/1|c.1278T>C|p.Leu426Leu|1278/2394|1278/2394|426/797||WARNING_TRANSCRIPT_NO_START_CODON,C|upstream_gene_variant|MODIFIER|NS3|GENE_NS3|transcript|TRANSCRIPT_NS3|protein_coding||c.-1117T>C|||||1117|WARNING_TRANSCRIPT_NO_START_CODON,C|upstream_gene_variant|MODIFIER|NS4|GENE_NS4|transcript|TRANSCRIPT_NS4|protein_coding||c.-2707T>C|||||2707|WARNING_TRANSCRIPT_NO_START_CODON,C|upstream_gene_variant|MODIFIER|capsid|GENE_capsid|transcript|TRANSCRIPT_capsid|protein_coding||c.-4608T>C|||||4608|WARNING_TRANSCRIPT_NO_STOP_CODON,C|downstream_gene_variant|MODIFIER|NS1|GENE_NS1|transcript|TRANSCRIPT_NS1|protein_coding||c.*1278T>C|||||1278|WARNING_TRANSCRIPT_NO_STOP_CODON,C|non_coding_transcript_variant|MODIFIER|EDEN.1|null|transcript|EDEN.1|protein_coding||||||||WARNING_TRANSCRIPT_NO_START_CODON","LOW","Synonymous","GT:PL","0/1:255,0,255"]
["KP164568_BHI3734_H804698_2014_08_26_Human_Brazil",2963,".","C",811,{"$f":"E9*100/J9","v":34.3062605752961},"T",1553,{"$f":"H9*100/J9","v":65.6937394247039},{"$f":"H9+E9","v":2364},225.009,"PASS","DP=2343;VDB=1;SGB=-0.693147;RPB=0.966906;MQB=0;MQSB=1.42483e-24;BQB=0.290736;MQ0F=0;AF1=0.5;AC1=1;DP4=378,229,748,407;MQ=35;FQ=225.007;PV4=0.321388,1,0,1;ANN=T|synonymous_variant|LOW|NS2|GENE_NS2|transcript|TRANSCRIPT_NS2|protein_coding|1/1|c.1281C>T|p.Ser427Ser|1281/2394|1281/2394|427/797||WARNING_TRANSCRIPT_NO_START_CODON,T|upstream_gene_variant|MODIFIER|NS3|GENE_NS3|transcript|TRANSCRIPT_NS3|protein_coding||c.-1114C>T|||||1114|WARNING_TRANSCRIPT_NO_START_CODON,T|upstream_gene_variant|MODIFIER|NS4|GENE_NS4|transcript|TRANSCRIPT_NS4|protein_coding||c.-2704C>T|||||2704|WARNING_TRANSCRIPT_NO_START_CODON,T|upstream_gene_variant|MODIFIER|capsid|GENE_capsid|transcript|TRANSCRIPT_capsid|protein_coding||c.-4605C>T|||||4605|WARNING_TRANSCRIPT_NO_STOP_CODON,T|downstream_gene_variant|MODIFIER|NS1|GENE_NS1|transcript|TRANSCRIPT_NS1|protein_coding||c.*1281C>T|||||1281|WARNING_TRANSCRIPT_NO_STOP_CODON,T|non_coding_transcript_variant|MODIFIER|EDEN.1|null|transcript|EDEN.1|protein_coding||||||||WARNING_TRANSCRIPT_NO_START_CODON","LOW","Synonymous","GT:PL","0/1:255,0,255"]
["KP164568_BHI3734_H804698_2014_08_26_Human_Brazil",3014,".","A",353,{"$f":"E10*100/J10","v":34.4390243902439},"G",672,{"$f":"H10*100/J10","v":65.5609756097561},{"$f":"H10+E10","v":1025},225.009,"PASS","DP=1011;VDB=0;SGB=-0.693147;RPB=0.00612225;MQB=0;MQSB=7.67408e-12;BQB=0.291435;MQ0F=0;AF1=0.5;AC1=1;DP4=159,130,322,244;MQ=34;FQ=225.007;PV4=0.610623,1,0,0.00239026;ANN=G|synonymous_variant|LOW|NS2|GENE_NS2|transcript|TRANSCRIPT_NS2|protein_coding|1/1|c.1332A>G|p.Lys444Lys|1332/2394|1332/2394|444/797||WARNING_TRANSCRIPT_NO_START_CODON,G|upstream_gene_variant|MODIFIER|NS3|GENE_NS3|transcript|TRANSCRIPT_NS3|protein_coding||c.-1063A>G|||||1063|WARNING_TRANSCRIPT_NO_START_CODON,G|upstream_gene_variant|MODIFIER|NS4|GENE_NS4|transcript|TRANSCRIPT_NS4|protein_coding||c.-2653A>G|||||2653|WARNING_TRANSCRIPT_NO_START_CODON,G|upstream_gene_variant|MODIFIER|capsid|GENE_capsid|transcript|TRANSCRIPT_capsid|protein_coding||c.-4554A>G|||||4554|WARNING_TRANSCRIPT_NO_STOP_CODON,G|downstream_gene_variant|MODIFIER|NS1|GENE_NS1|transcript|TRANSCRIPT_NS1|protein_coding||c.*1332A>G|||||1332|WARNING_TRANSCRIPT_NO_STOP_CODON,G|non_coding_transcript_variant|MODIFIER|EDEN.1|null|transcript|EDEN.1|protein_coding||||||||WARNING_TRANSCRIPT_NO_START_CODON","LOW","Synonymous","GT:PL","0/1:255,0,255"]
["KP164568_BHI3734_H804698_2014_08_26_Human_Brazil",3023,".","C",288,{"$f":"E11*100/J11","v":41.0841654778887},"T",413,{"$f":"H11*100/J11","v":58.9158345221113},{"$f":"H11+E11","v":701},225.009,"PASS","DP=689;VDB=0;SGB=-0.693147;RPB=3.5103e-06;MQB=3.78351e-44;MQSB=0.000390711;BQB=0.392477;MQ0F=0;AF1=0.5;AC1=1;DP4=124,109,165,191;MQ=34;FQ=225.007;PV4=0.109738,0.0536862,1.4013e-45,2.44668e-07;ANN=T|synonymous_variant|LOW|NS2|GENE_NS2|transcript|TRANSCRIPT_NS2|protein_coding|1/1|c.1341C>T|p.Ile447Ile|1341/2394|1341/2394|447/797||WARNING_TRANSCRIPT_NO_START_CODON,T|upstream_gene_variant|MODIFIER|NS3|GENE_NS3|transcript|TRANSCRIPT_NS3|protein_coding||c.-1054C>T|||||1054|WARNING_TRANSCRIPT_NO_START_CODON,T|upstream_gene_variant|MODIFIER|NS4|GENE_NS4|transcript|TRANSCRIPT_NS4|protein_coding||c.-2644C>T|||||2644|WARNING_TRANSCRIPT_NO_START_CODON,T|upstream_gene_variant|MODIFIER|capsid|GENE_capsid|transcript|TRANSCRIPT_capsid|protein_coding||c.-4545C>T|||||4545|WARNING_TRANSCRIPT_NO_STOP_CODON,T|downstream_gene_variant|MODIFIER|NS1|GENE_NS1|transcript|TRANSCRIPT_NS1|protein_coding||c.*1341C>T|||||1341|WARNING_TRANSCRIPT_NO_STOP_CODON,T|non_coding_transcript_variant|MODIFIER|EDEN.1|null|transcript|EDEN.1|protein_coding||||||||WARNING_TRANSCRIPT_NO_START_CODON","LOW","Synonymous","GT:PL","0/1:255,0,255"]
["KP164568_BHI3734_H804698_2014_08_26_Human_Brazil",3044,".","T",436,{"$f":"E12*100/J12","v":47.8594950603732},"C",475,{"$f":"H12*100/J12","v":52.1405049396268},{"$f":"H12+E12","v":911},225.009,"PASS","DP=906;VDB=0;SGB=-0.693147;RPB=0.551028;MQB=0;MQSB=0.22689;BQB=0.974816;MQ0F=0.00110375;AF1=0.5;AC1=1;DP4=123,255,106,316;MQ=35;FQ=225.007;PV4=0.0230614,0.285009,0,0.0616974;ANN=C|synonymous_variant|LOW|NS2|GENE_NS2|transcript|TRANSCRIPT_NS2|protein_coding|1/1|c.1362T>C|p.His454His|1362/2394|1362/2394|454/797||WARNING_TRANSCRIPT_NO_START_CODON,C|upstream_gene_variant|MODIFIER|NS3|GENE_NS3|transcript|TRANSCRIPT_NS3|protein_coding||c.-1033T>C|||||1033|WARNING_TRANSCRIPT_NO_START_CODON,C|upstream_gene_variant|MODIFIER|NS4|GENE_NS4|transcript|TRANSCRIPT_NS4|protein_coding||c.-2623T>C|||||2623|WARNING_TRANSCRIPT_NO_START_CODON,C|upstream_gene_variant|MODIFIER|capsid|GENE_capsid|transcript|TRANSCRIPT_capsid|protein_coding||c.-4524T>C|||||4524|WARNING_TRANSCRIPT_NO_STOP_CODON,C|downstream_gene_variant|MODIFIER|NS1|GENE_NS1|transcript|TRANSCRIPT_NS1|protein_coding||c.*1362T>C|||||1362|WARNING_TRANSCRIPT_NO_STOP_CODON,C|non_coding_transcript_variant|MODIFIER|EDEN.1|null|transcript|EDEN.1|protein_coding||||||||WARNING_TRANSCRIPT_NO_START_CODON","LOW","Synonymous","GT:PL","0/1:255,0,255"]
["KP164568_BHI3734_H804698_2014_08_26_Human_Brazil",3050,".","A",586,{"$f":"E13*100/J13","v":50.7798960138648},"G",568,{"$f":"H13*100/J13","v":49.2201039861352},{"$f":"H13+E13","v":1154},225.009,"PASS","DP=1146;VDB=0;SGB=-0.693147;RPB=0.899394;MQB=0;MQSB=0.563853;BQB=0.918894;MQ0F=0.0008726;AF1=0.5;AC1=1;DP4=199,290,142,343;MQ=35;FQ=225.007;PV4=0.000216535,0.221261,0,0.277407;ANN=G|synonymous_variant|LOW|NS2|GENE_NS2|transcript|TRANSCRIPT_NS2|protein_coding|1/1|c.1368A>G|p.Ser456Ser|1368/2394|1368/2394|456/797||WARNING_TRANSCRIPT_NO_START_CODON,G|upstream_gene_variant|MODIFIER|NS3|GENE_NS3|transcript|TRANSCRIPT_NS3|protein_coding||c.-1027A>G|||||1027|WARNING_TRANSCRIPT_NO_START_CODON,G|upstream_gene_variant|MODIFIER|NS4|GENE_NS4|transcript|TRANSCRIPT_NS4|protein_coding||c.-2617A>G|||||2617|WARNING_TRANSCRIPT_NO_START_CODON,G|upstream_gene_variant|MODIFIER|capsid|GENE_capsid|transcript|TRANSCRIPT_capsid|protein_coding||c.-4518A>G|||||4518|WARNING_TRANSCRIPT_NO_STOP_CODON,G|downstream_gene_variant|MODIFIER|NS1|GENE_NS1|transcript|TRANSCRIPT_NS1|protein_coding||c.*1368A>G|||||1368|WARNING_TRANSCRIPT_NO_STOP_CODON,G|non_coding_transcript_variant|MODIFIER|EDEN.1|null|transcript|EDEN.1|protein_coding||||||||WARNING_TRANSCRIPT_NO_START_CODON","LOW","Synonymous","GT:PL","0/1:255,0,255"]
["KP164568_BHI3734_H804698_2014_08_26_Human_Brazil",3078,".","A",883,{"$f":"E14*100/J14","v":48.3041575492341},"G",945,{"$f":"H14*100/J14","v":51.6958424507659},{"$f":"H14+E14","v":1828},225.009,"PASS","DP=1819;VDB=0.948109;SGB=-0.693147;RPB=0.172794;MQB=0;MQSB=0.000439537;BQB=0.0925926;MQ0F=0.00109951;AF1=0.5;AC1=1;DP4=292,374,164,618;MQ=33;FQ=225.007;PV4=1.07217e-20,3.42692e-06,0,2.88688e-06;ANN=G|missense_variant|MODERATE|NS2|GENE_NS2|transcript|TRANSCRIPT_NS2|protein_coding|1/1|c.1396A>G|p.Met466Val|1396/2394|1396/2394|466/797||WARNING_TRANSCRIPT_NO_START_CODON,G|upstream_gene_variant|MODIFIER|NS3|GENE_NS3|transcript|TRANSCRIPT_NS3|protein_coding||c.-999A>G|||||999|WARNING_TRANSCRIPT_NO_START_CODON,G|upstream_gene_variant|MODIFIER|NS4|GENE_NS4|transcript|TRANSCRIPT_NS4|protein_coding||c.-2589A>G|||||2589|WARNING_TRANSCRIPT_NO_START_CODON,G|upstream_gene_variant|MODIFIER|capsid|GENE_capsid|transcript|TRANSCRIPT_capsid|protein_coding||c.-4490A>G|||||4490|WARNING_TRANSCRIPT_NO_STOP_CODON,G|downstream_gene_variant|MODIFIER|NS1|GENE_NS1|transcript|TRANSCRIPT_NS1|protein_coding||c.*1396A>G|||||1396|WARNING_TRANSCRIPT_NO_STOP_CODON,G|non_coding_transcript_variant|MODIFIER|EDEN.1|null|transcript|EDEN.1|protein_coding||||||||WARNING_TRANSCRIPT_NO_START_CODON","MODERATE","Non-synonymous","GT:PL","0/1:255,0,255"]
["KP164568_BHI3734_H804698_2014_08_26_Human_Brazil",3089,".","T",843,{"$f":"E15*100/J15","v":51.7177914110429},"C",787,{"$f":"H15*100/J15","v":48.2822085889571},{"$f":"H15+E15","v":1630},209.009,"PASS","DP=1623;VDB=0.0445604;SGB=-0.693147;RPB=0.0252263;MQB=0;MQSB=5.49992e-07;BQB=0.0293021;MQ0F=0.00123229;AF1=0.5;AC1=1;DP4=324,286,150,482;MQ=33;FQ=211.91;PV4=7.73902e-27,1.23405e-06,0,1;ANN=C|synonymous_variant|LOW|NS2|GENE_NS2|transcript|TRANSCRIPT_NS2|protein_coding|1/1|c.1407T>C|p.Asp469Asp|1407/2394|1407/2394|469/797||WARNING_TRANSCRIPT_NO_START_CODON,C|upstream_gene_variant|MODIFIER|NS3|GENE_NS3|transcript|TRANSCRIPT_NS3|protein_coding||c.-988T>C|||||988|WARNING_TRANSCRIPT_NO_START_CODON,C|upstream_gene_variant|MODIFIER|NS4|GENE_NS4|transcript|TRANSCRIPT_NS4|protein_coding||c.-2578T>C|||||2578|WARNING_TRANSCRIPT_NO_START_CODON,C|upstream_gene_variant|MODIFIER|capsid|GENE_capsid|transcript|TRANSCRIPT_capsid|protein_coding||c.-4479T>C|||||4479|WARNING_TRANSCRIPT_NO_STOP_CODON,C|downstream_gene_variant|MODIFIER|NS1|GENE_NS1|transcript|TRANSCRIPT_NS1|protein_coding||c.*1407T>C|||||1407|WARNING_TRANSCRIPT_NO_STOP_CODON,C|non_coding_transcript_variant|MODIFIER|EDEN.1|null|transcript|EDEN.1|protein_coding||||||||WARNING_TRANSCRIPT_NO_START_CODON","LOW","Synonymous","GT:PL","0/1:239,0,255"]
["KP164568_BHI3734_H804698_2014_08_26_Human_Brazil",3092,".","A",794,{"$f":"E16*100/J16","v":52.5827814569536},"G",716,{"$f":"H16*100/J16","v":47.4172185430464},{"$f":"H16+E16","v":1510},176.009,"PASS","DP=1503;VDB=5.39659e-06;SGB=-0.693147;RPB=4.18239e-06;MQB=0;MQSB=2.32245e-06;BQB=0.211967;MQ0F=0;AF1=0.5;AC1=1;DP4=311,264,140,432;MQ=33;FQ=179.017;PV4=6.27164e-25,1.3117e-05,0,1;ANN=G|synonymous_variant|LOW|NS2|GENE_NS2|transcript|TRANSCRIPT_NS2|protein_coding|1/1|c.1410A>G|p.Thr470Thr|1410/2394|1410/2394|470/797||WARNING_TRANSCRIPT_NO_START_CODON,G|upstream_gene_variant|MODIFIER|NS3|GENE_NS3|transcript|TRANSCRIPT_NS3|protein_coding||c.-985A>G|||||985|WARNING_TRANSCRIPT_NO_START_CODON,G|upstream_gene_variant|MODIFIER|NS4|GENE_NS4|transcript|TRANSCRIPT_NS4|protein_coding||c.-2575A>G|||||2575|WARNING_TRANSCRIPT_NO_START_CODON,G|upstream_gene_variant|MODIFIER|capsid|GENE_capsid|transcript|TRANSCRIPT_capsid|protein_coding||c.-4476A>G|||||4476|WARNING_TRANSCRIPT_NO_STOP_CODON,G|downstream_gene_variant|MODIFIER|NS1|GENE_NS1|transcript|TRANSCRIPT_NS1|protein_coding||c.*1410A>G|||||1410|WARNING_TRANSCRIPT_NO_STOP_CODON,G|non_coding_transcript_variant|MODIFIER|EDEN.1|null|transcript|EDEN.1|protein_coding||||||||WARNING_TRANSCRIPT_NO_START_CODON","LOW","Synonymous","GT:PL","0/1:206,0,255"]
["KP164568_BHI3734_H804698_2014_08_26_Human_Brazil",3110,".","T",711,{"$f":"E17*100/J17","v":54.4410413476263},"C",595,{"$f":"H17*100/J17","v":45.5589586523737},{"$f":"H17+E17","v":1306},225.009,"PASS","DP=1299;VDB=6.6313e-19;SGB=-0.693147;RPB=4.17194e-16;MQB=0;MQSB=7.41771e-10;BQB=0.210228;MQ0F=0.00153965;AF1=0.5;AC1=1;DP4=276,259,121,351;MQ=33;FQ=225.007;PV4=2.79399e-17,0.0993305,0,1;ANN=C|synonymous_variant|LOW|NS2|GENE_NS2|transcript|TRANSCRIPT_NS2|protein_coding|1/1|c.1428T>C|p.Asn476Asn|1428/2394|1428/2394|476/797||WARNING_TRANSCRIPT_NO_START_CODON,C|upstream_gene_variant|MODIFIER|NS3|GENE_NS3|transcript|TRANSCRIPT_NS3|protein_coding||c.-967T>C|||||967|WARNING_TRANSCRIPT_NO_START_CODON,C|upstream_gene_variant|MODIFIER|NS4|GENE_NS4|transcript|TRANSCRIPT_NS4|protein_coding||c.-2557T>C|||||2557|WARNING_TRANSCRIPT_NO_START_CODON,C|upstream_gene_variant|MODIFIER|capsid|GENE_capsid|transcript|TRANSCRIPT_capsid|protein_coding||c.-4458T>C|||||4458|WARNING_TRANSCRIPT_NO_STOP_CODON,C|downstream_gene_variant|MODIFIER|NS1|GENE_NS1|transcript|TRANSCRIPT_NS1|protein_coding||c.*1428T>C|||||1428|WARNING_TRANSCRIPT_NO_STOP_CODON,C|non_coding_transcript_variant|MODIFIER|EDEN.1|null|transcript|EDEN.1|protein_coding||||||||WARNING_TRANSCRIPT_NO_START_CODON","LOW","Synonymous","GT:PL","0/1:255,0,255"]
["KP164568_BHI3734_H804698_2014_08_26_Human_Brazil",3116,".","T",500,{"$f":"E18*100/J18","v":46.4684014869888},"C",576,{"$f":"H18*100/J18","v":53.5315985130112},{"$f":"H18+E18","v":1076},225.009,"PASS","DP=1071;VDB=8.40611e-28;SGB=-0.693147;RPB=9.44514e-06;MQB=0;MQSB=2.20047e-08;BQB=0.00225038;MQ0F=0.00186741;AF1=0.5;AC1=1;DP4=195,198,117,341;MQ=32;FQ=225.007;PV4=4.15852e-13,1,0,1;ANN=C|synonymous_variant|LOW|NS2|GENE_NS2|transcript|TRANSCRIPT_NS2|protein_coding|1/1|c.1434T>C|p.Cys478Cys|1434/2394|1434/2394|478/797||WARNING_TRANSCRIPT_NO_START_CODON,C|upstream_gene_variant|MODIFIER|NS3|GENE_NS3|transcript|TRANSCRIPT_NS3|protein_coding||c.-961T>C|||||961|WARNING_TRANSCRIPT_NO_START_CODON,C|upstream_gene_variant|MODIFIER|NS4|GENE_NS4|transcript|TRANSCRIPT_NS4|protein_coding||c.-2551T>C|||||2551|WARNING_TRANSCRIPT_NO_START_CODON,C|upstream_gene_variant|MODIFIER|capsid|GENE_capsid|transcript|TRANSCRIPT_capsid|protein_coding||c.-4452T>C|||||4452|WARNING_TRANSCRIPT_NO_STOP_CODON,C|downstream_gene_variant|MODIFIER|NS1|GENE_NS1|transcript|TRANSCRIPT_NS1|protein_coding||c.*1434T>C|||||1434|WARNING_TRANSCRIPT_NO_STOP_CODON,C|non_coding_transcript_variant|MODIFIER|EDEN.1|null|transcript|EDEN.1|protein_coding||||||||WARNING_TRANSCRIPT_NO_START_CODON","LOW","Synonymous","GT:PL","0/1:255,0,255"]
["KP164568_BHI3734_H804698_2014_08_26_Human_Brazil",3819,".","T",11,{"$f":"E19*100/J19","v":5.72916666666667},"C,A",181,{"$f":"H19*100/J19","v":94.2708333333333},{"$f":"H19+E19","v":192},204.999,"PASS","DP=220;VDB=0;SGB=-0.693147;RPB=0.00525894;MQB=0.0314107;BQB=0.384601;MQ0F=0.00909091;AF1=1;AC1=2;DP4=7,0,167,0;MQ=40;FQ=-281.989;PV4=1,0.0262835,1,0.138095;ANN=A|missense_variant|MODERATE|NS2|GENE_NS2|transcript|TRANSCRIPT_NS2|protein_coding|1/1|c.2137T>A|p.Leu713Met|2137/2394|2137/2394|713/797||WARNING_TRANSCRIPT_NO_START_CODON,C|synonymous_variant|LOW|NS2|GENE_NS2|transcript|TRANSCRIPT_NS2|protein_coding|1/1|c.2137T>C|p.Leu713Leu|2137/2394|2137/2394|713/797||WARNING_TRANSCRIPT_NO_START_CODON,C|upstream_gene_variant|MODIFIER|NS3|GENE_NS3|transcript|TRANSCRIPT_NS3|protein_coding||c.-258T>C|||||258|WARNING_TRANSCRIPT_NO_START_CODON,A|upstream_gene_variant|MODIFIER|NS3|GENE_NS3|transcript|TRANSCRIPT_NS3|protein_coding||c.-258T>A|||||258|WARNING_TRANSCRIPT_NO_START_CODON,C|upstream_gene_variant|MODIFIER|NS4|GENE_NS4|transcript|TRANSCRIPT_NS4|protein_coding||c.-1848T>C|||||1848|WARNING_TRANSCRIPT_NO_START_CODON,A|upstream_gene_variant|MODIFIER|NS4|GENE_NS4|transcript|TRANSCRIPT_NS4|protein_coding||c.-1848T>A|||||1848|WARNING_TRANSCRIPT_NO_START_CODON,C|upstream_gene_variant|MODIFIER|capsid|GENE_capsid|transcript|TRANSCRIPT_capsid|protein_coding||c.-3749T>C|||||3749|WARNING_TRANSCRIPT_NO_STOP_CODON,A|upstream_gene_variant|MODIFIER|capsid|GENE_capsid|transcript|TRANSCRIPT_capsid|protein_coding||c.-3749T>A|||||3749|WARNING_TRANSCRIPT_NO_STOP_CODON,C|upstream_gene_variant|MODIFIER|E3|GENE_E3|transcript|TRANSCRIPT_E3|protein_coding||c.-4541T>C|||||4541|WARNING_TRANSCRIPT_NO_START_CODON,A|upstream_gene_variant|MODIFIER|E3|GENE_E3|transcript|TRANSCRIPT_E3|protein_coding||c.-4541T>A|||||4541|WARNING_TRANSCRIPT_NO_START_CODON,C|upstream_gene_variant|MODIFIER|E2|GENE_E2|transcript|TRANSCRIPT_E2|protein_coding||c.-4724T>C|||||4724|WARNING_TRANSCRIPT_NO_START_CODON,A|upstream_gene_variant|MODIFIER|E2|GENE_E2|transcript|TRANSCRIPT_E2|protein_coding||c.-4724T>A|||||4724|WARNING_TRANSCRIPT_NO_START_CODON,C|downstream_gene_variant|MODIFIER|NS1|GENE_NS1|transcript|TRANSCRIPT_NS1|protein_coding||c.*2137T>C|||||2137|WARNING_TRANSCRIPT_NO_STOP_CODON,A|downstream_gene_variant|MODIFIER|NS1|GENE_NS1|transcript|TRANSCRIPT_NS1|protein_coding||c.*2137T>A|||||2137|WARNING_TRANSCRIPT_NO_STOP_CODON,C|non_coding_transcript_variant|MODIFIER|EDEN.1|null|transcript|EDEN.1|protein_coding||||||||WARNING_TRANSCRIPT_NO_START_CODON,A|non_coding_transcript_variant|MODIFIER|EDEN.1|null|transcript|EDEN.1|protein_coding||||||||WARNING_TRANSCRIPT_NO_START_CODON","MODERATE","Non-synonymous","GT:PL","1/1:238,255,0,149,126,176"]
["KP164568_BHI3734_H804698_2014_08_26_Human_Brazil",5204,".","A",1679,{"$f":"E20*100/J20","v":50.6638503319252},"C",1635,{"$f":"H20*100/J20","v":49.3361496680748},{"$f":"H20+E20","v":3314},225.009,"PASS","DP=3296;VDB=0.996682;SGB=-0.693147;RPB=1.59702e-35;MQB=0.779079;MQSB=0.806565;BQB=9.79165e-05;MQ0F=0.000606796;AF1=0.5;AC1=1;DP4=672,629,876,414;MQ=42;FQ=225.007;PV4=3.35238e-17,0.000736041,0.00252994,0.0118567;ANN=C|synonymous_variant|LOW|NS3|GENE_NS3|transcript|TRANSCRIPT_NS3|protein_coding|1/1|c.1128A>C|p.Thr376Thr|1128/1572|1128/1572|376/523||WARNING_TRANSCRIPT_NO_START_CODON,C|upstream_gene_variant|MODIFIER|NS4|GENE_NS4|transcript|TRANSCRIPT_NS4|protein_coding||c.-463A>C|||||463|WARNING_TRANSCRIPT_NO_START_CODON,C|upstream_gene_variant|MODIFIER|capsid|GENE_capsid|transcript|TRANSCRIPT_capsid|protein_coding||c.-2364A>C|||||2364|WARNING_TRANSCRIPT_NO_STOP_CODON,C|upstream_gene_variant|MODIFIER|E3|GENE_E3|transcript|TRANSCRIPT_E3|protein_coding||c.-3156A>C|||||3156|WARNING_TRANSCRIPT_NO_START_CODON,C|upstream_gene_variant|MODIFIER|E2|GENE_E2|transcript|TRANSCRIPT_E2|protein_coding||c.-3339A>C|||||3339|WARNING_TRANSCRIPT_NO_START_CODON,C|upstream_gene_variant|MODIFIER|6K|GENE_6K|transcript|TRANSCRIPT_6K|protein_coding||c.-4608A>C|||||4608|WARNING_TRANSCRIPT_NO_START_CODON,C|upstream_gene_variant|MODIFIER|E1|GENE_E1|transcript|TRANSCRIPT_E1|protein_coding||c.-4791A>C|||||4791|WARNING_TRANSCRIPT_NO_START_CODON,C|downstream_gene_variant|MODIFIER|NS1|GENE_NS1|transcript|TRANSCRIPT_NS1|protein_coding||c.*3522A>C|||||3522|WARNING_TRANSCRIPT_NO_STOP_CODON,C|downstream_gene_variant|MODIFIER|NS2|GENE_NS2|transcript|TRANSCRIPT_NS2|protein_coding||c.*1128A>C|||||1128|WARNING_TRANSCRIPT_NO_START_CODON,C|non_coding_transcript_variant|MODIFIER|EDEN.1|null|transcript|EDEN.1|protein_coding||||||||WARNING_TRANSCRIPT_NO_START_CODON","LOW","Synonymous","GT:PL","0/1:255,0,255"]
["KP164568_BHI3734_H804698_2014_08_26_Human_Brazil",5321,".","C",951,{"$f":"E21*100/J21","v":34.7207009857612},"T",1788,{"$f":"H21*100/J21","v":65.2792990142388},{"$f":"H21+E21","v":2739},225.009,"PASS","DP=2722;VDB=0.991274;SGB=-0.693147;RPB=9.18411e-08;MQB=0.890937;MQSB=0.758999;BQB=0.0468365;MQ0F=0;AF1=0.5;AC1=1;DP4=246,473,376,1043;MQ=42;FQ=204.996;PV4=0.000233313,0.00724187,0.211455,0.0453798;ANN=T|synonymous_variant|LOW|NS3|GENE_NS3|transcript|TRANSCRIPT_NS3|protein_coding|1/1|c.1245C>T|p.Asp415Asp|1245/1572|1245/1572|415/523||WARNING_TRANSCRIPT_NO_START_CODON,T|upstream_gene_variant|MODIFIER|NS4|GENE_NS4|transcript|TRANSCRIPT_NS4|protein_coding||c.-346C>T|||||346|WARNING_TRANSCRIPT_NO_START_CODON,T|upstream_gene_variant|MODIFIER|capsid|GENE_capsid|transcript|TRANSCRIPT_capsid|protein_coding||c.-2247C>T|||||2247|WARNING_TRANSCRIPT_NO_STOP_CODON,T|upstream_gene_variant|MODIFIER|E3|GENE_E3|transcript|TRANSCRIPT_E3|protein_coding||c.-3039C>T|||||3039|WARNING_TRANSCRIPT_NO_START_CODON,T|upstream_gene_variant|MODIFIER|E2|GENE_E2|transcript|TRANSCRIPT_E2|protein_coding||c.-3222C>T|||||3222|WARNING_TRANSCRIPT_NO_START_CODON,T|upstream_gene_variant|MODIFIER|6K|GENE_6K|transcript|TRANSCRIPT_6K|protein_coding||c.-4491C>T|||||4491|WARNING_TRANSCRIPT_NO_START_CODON,T|upstream_gene_variant|MODIFIER|E1|GENE_E1|transcript|TRANSCRIPT_E1|protein_coding||c.-4674C>T|||||4674|WARNING_TRANSCRIPT_NO_START_CODON,T|downstream_gene_variant|MODIFIER|NS1|GENE_NS1|transcript|TRANSCRIPT_NS1|protein_coding||c.*3639C>T|||||3639|WARNING_TRANSCRIPT_NO_STOP_CODON,T|downstream_gene_variant|MODIFIER|NS2|GENE_NS2|transcript|TRANSCRIPT_NS2|protein_coding||c.*1245C>T|||||1245|WARNING_TRANSCRIPT_NO_START_CODON,T|non_coding_transcript_variant|MODIFIER|EDEN.1|null|transcript|EDEN.1|protein_coding||||||||WARNING_TRANSCRIPT_NO_START_CODON","LOW","Synonymous","GT:PL","0/1:255,0,232"]
["KP164568_BHI3734_H804698_2014_08_26_Human_Brazil",5861,null,"G",617,{"$f":"E22*100/J22","v":76.7412935323383},"A",187,{"$f":"H22*100/J22","v":23.2587064676617},{"$f":"H22+E22","v":804},null,null,null,"LOW","Synonymous"]
["KP164568_BHI3734_H804698_2014_08_26_Human_Brazil",5864,null,"G",585,{"$f":"E23*100/J23","v":75.875486381323},"A",186,{"$f":"H23*100/J23","v":24.124513618677},{"$f":"H23+E23","v":771},null,null,null,"LOW","Synonymous"]
["KP164568_BHI3734_H804698_2014_08_26_Human_Brazil",5873,null,"A",521,{"$f":"E24*100/J24","v":72.5626740947075},"G",197,{"$f":"H24*100/J24","v":27.4373259052925},{"$f":"H24+E24","v":718},null,null,null,"LOW","Synonymous"]
["KP164568_BHI3734_H804698_2014_08_26_Human_Brazil",5879,null,"C",472,{"$f":"E25*100/J25","v":71.4069591527988},"T",189,{"$f":"H25*100/J25","v":28.5930408472012},{"$f":"H25+E25","v":661},null,null,null,"LOW","Synonymous"]
["KP164568_BHI3734_H804698_2014_08_26_Human_Brazil",5954,null,"T",2,{"$f":"E26*100/J26","v":0.72992700729927},"G",272,{"$f":"H26*100/J26","v":99.2700729927007},{"$f":"H26+E26","v":274},null,null,null,"LOW","Synonymous"]
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["KP164568_BHI3734_H804698_2014_08_26_Human_Brazil",5967,".","A",2,{"$f":"E28*100/J28","v":0.342465753424657},"G",582,{"$f":"H28*100/J28","v":99.6575342465753},{"$f":"H28+E28","v":584},68.9971,"PASS","DP=581;VDB=1.9103e-14;SGB=-0.693147;RPB=0.00218341;MQB=0.00218341;MQSB=0.0652526;BQB=0.962882;MQ0F=0.457831;AF1=1;AC1=2;DP4=2,0,413,45;MQ=9;FQ=-281.989;PV4=1,1,4.71162e-13,0.332792;ANN=G|missense_variant|MODERATE|NS4|GENE_NS4|transcript|TRANSCRIPT_NS4|protein_coding|1/1|c.301A>G|p.Thr101Ala|301/1833|301/1833|101/610||WARNING_TRANSCRIPT_NO_START_CODON,G|upstream_gene_variant|MODIFIER|capsid|GENE_capsid|transcript|TRANSCRIPT_capsid|protein_coding||c.-1601A>G|||||1601|WARNING_TRANSCRIPT_NO_STOP_CODON,G|upstream_gene_variant|MODIFIER|E3|GENE_E3|transcript|TRANSCRIPT_E3|protein_coding||c.-2393A>G|||||2393|WARNING_TRANSCRIPT_NO_START_CODON,G|upstream_gene_variant|MODIFIER|E2|GENE_E2|transcript|TRANSCRIPT_E2|protein_coding||c.-2576A>G|||||2576|WARNING_TRANSCRIPT_NO_START_CODON,G|upstream_gene_variant|MODIFIER|6K|GENE_6K|transcript|TRANSCRIPT_6K|protein_coding||c.-3845A>G|||||3845|WARNING_TRANSCRIPT_NO_START_CODON,G|upstream_gene_variant|MODIFIER|E1|GENE_E1|transcript|TRANSCRIPT_E1|protein_coding||c.-4028A>G|||||4028|WARNING_TRANSCRIPT_NO_START_CODON,G|downstream_gene_variant|MODIFIER|NS1|GENE_NS1|transcript|TRANSCRIPT_NS1|protein_coding||c.*4285A>G|||||4285|WARNING_TRANSCRIPT_NO_STOP_CODON,G|downstream_gene_variant|MODIFIER|NS2|GENE_NS2|transcript|TRANSCRIPT_NS2|protein_coding||c.*1891A>G|||||1891|WARNING_TRANSCRIPT_NO_START_CODON,G|downstream_gene_variant|MODIFIER|NS3|GENE_NS3|transcript|TRANSCRIPT_NS3|protein_coding||c.*319A>G|||||319|WARNING_TRANSCRIPT_NO_START_CODON,G|non_coding_transcript_variant|MODIFIER|EDEN.1|null|transcript|EDEN.1|protein_coding||||||||WARNING_TRANSCRIPT_NO_START_CODON","MODERATE","Non-synonymous","GT:PL","1/1:102,255,0"]
["KP164568_BHI3734_H804698_2014_08_26_Human_Brazil",5968,".","C",2,{"$f":"E29*100/J29","v":0.33955857385399},"T",587,{"$f":"H29*100/J29","v":99.660441426146},{"$f":"H29+E29","v":589},64.997,"PASS","DP=587;VDB=2.12764e-14;SGB=-0.693147;RPB=0.00217865;MQB=0.00217865;MQSB=0.0601331;BQB=0.995643;MQ0F=0.454855;AF1=1;AC1=2;DP4=2,0,414,45;MQ=9;FQ=-281.989;PV4=1,1,4.5382e-13,0.415852;ANN=T|missense_variant|MODERATE|NS4|GENE_NS4|transcript|TRANSCRIPT_NS4|protein_coding|1/1|c.302C>T|p.Thr101Ile|302/1833|302/1833|101/610||WARNING_TRANSCRIPT_NO_START_CODON,T|upstream_gene_variant|MODIFIER|capsid|GENE_capsid|transcript|TRANSCRIPT_capsid|protein_coding||c.-1600C>T|||||1600|WARNING_TRANSCRIPT_NO_STOP_CODON,T|upstream_gene_variant|MODIFIER|E3|GENE_E3|transcript|TRANSCRIPT_E3|protein_coding||c.-2392C>T|||||2392|WARNING_TRANSCRIPT_NO_START_CODON,T|upstream_gene_variant|MODIFIER|E2|GENE_E2|transcript|TRANSCRIPT_E2|protein_coding||c.-2575C>T|||||2575|WARNING_TRANSCRIPT_NO_START_CODON,T|upstream_gene_variant|MODIFIER|6K|GENE_6K|transcript|TRANSCRIPT_6K|protein_coding||c.-3844C>T|||||3844|WARNING_TRANSCRIPT_NO_START_CODON,T|upstream_gene_variant|MODIFIER|E1|GENE_E1|transcript|TRANSCRIPT_E1|protein_coding||c.-4027C>T|||||4027|WARNING_TRANSCRIPT_NO_START_CODON,T|downstream_gene_variant|MODIFIER|NS1|GENE_NS1|transcript|TRANSCRIPT_NS1|protein_coding||c.*4286C>T|||||4286|WARNING_TRANSCRIPT_NO_STOP_CODON,T|downstream_gene_variant|MODIFIER|NS2|GENE_NS2|transcript|TRANSCRIPT_NS2|protein_coding||c.*1892C>T|||||1892|WARNING_TRANSCRIPT_NO_START_CODON,T|downstream_gene_variant|MODIFIER|NS3|GENE_NS3|transcript|TRANSCRIPT_NS3|protein_coding||c.*320C>T|||||320|WARNING_TRANSCRIPT_NO_START_CODON,T|non_coding_transcript_variant|MODIFIER|EDEN.1|null|transcript|EDEN.1|protein_coding||||||||WARNING_TRANSCRIPT_NO_START_CODON","MODERATE","Non-synonymous","GT:PL","1/1:98,255,0"]
["KP164568_BHI3734_H804698_2014_08_26_Human_Brazil",5972,".","T",2,{"$f":"E30*100/J30","v":0.286944045911047},"C",695,{"$f":"H30*100/J30","v":99.713055954089},{"$f":"H30+E30","v":697},108.998,"PASS","DP=694;VDB=3.81871e-11;SGB=-0.693147;RPB=0.00192678;MQB=0.00192678;MQSB=0.600389;BQB=0.493256;MQ0F=0.389049;AF1=1;AC1=2;DP4=2,0,458,61;MQ=11;FQ=-281.989;PV4=1,1,1.49698e-08,1;ANN=C|synonymous_variant|LOW|NS4|GENE_NS4|transcript|TRANSCRIPT_NS4|protein_coding|1/1|c.306T>C|p.Tyr102Tyr|306/1833|306/1833|102/610||WARNING_TRANSCRIPT_NO_START_CODON,C|upstream_gene_variant|MODIFIER|capsid|GENE_capsid|transcript|TRANSCRIPT_capsid|protein_coding||c.-1596T>C|||||1596|WARNING_TRANSCRIPT_NO_STOP_CODON,C|upstream_gene_variant|MODIFIER|E3|GENE_E3|transcript|TRANSCRIPT_E3|protein_coding||c.-2388T>C|||||2388|WARNING_TRANSCRIPT_NO_START_CODON,C|upstream_gene_variant|MODIFIER|E2|GENE_E2|transcript|TRANSCRIPT_E2|protein_coding||c.-2571T>C|||||2571|WARNING_TRANSCRIPT_NO_START_CODON,C|upstream_gene_variant|MODIFIER|6K|GENE_6K|transcript|TRANSCRIPT_6K|protein_coding||c.-3840T>C|||||3840|WARNING_TRANSCRIPT_NO_START_CODON,C|upstream_gene_variant|MODIFIER|E1|GENE_E1|transcript|TRANSCRIPT_E1|protein_coding||c.-4023T>C|||||4023|WARNING_TRANSCRIPT_NO_START_CODON,C|downstream_gene_variant|MODIFIER|NS1|GENE_NS1|transcript|TRANSCRIPT_NS1|protein_coding||c.*4290T>C|||||4290|WARNING_TRANSCRIPT_NO_STOP_CODON,C|downstream_gene_variant|MODIFIER|NS2|GENE_NS2|transcript|TRANSCRIPT_NS2|protein_coding||c.*1896T>C|||||1896|WARNING_TRANSCRIPT_NO_START_CODON,C|downstream_gene_variant|MODIFIER|NS3|GENE_NS3|transcript|TRANSCRIPT_NS3|protein_coding||c.*324T>C|||||324|WARNING_TRANSCRIPT_NO_START_CODON,C|non_coding_transcript_variant|MODIFIER|EDEN.1|null|transcript|EDEN.1|protein_coding||||||||WARNING_TRANSCRIPT_NO_START_CODON","LOW","Synonymous","GT:PL","1/1:142,255,0"]
["KP164568_BHI3734_H804698_2014_08_26_Human_Brazil",6009,".","C",2,{"$f":"E31*100/J31","v":0.200400801603206},"T",996,{"$f":"H31*100/J31","v":99.7995991983968},{"$f":"H31+E31","v":998},221.999,"PASS","DP=994;VDB=3.22843e-07;SGB=-0.693147;RPB=0.521407;MQB=0.106269;MQSB=3.54137e-10;BQB=0.37844;MQ0F=0.206237;AF1=1;AC1=2;DP4=2,0,519,135;MQ=16;FQ=-281.989;PV4=1,1,0.00412435,0.2463;ANN=T|synonymous_variant|LOW|NS4|GENE_NS4|transcript|TRANSCRIPT_NS4|protein_coding|1/1|c.343C>T|p.Leu115Leu|343/1833|343/1833|115/610||WARNING_TRANSCRIPT_NO_START_CODON,T|upstream_gene_variant|MODIFIER|capsid|GENE_capsid|transcript|TRANSCRIPT_capsid|protein_coding||c.-1559C>T|||||1559|WARNING_TRANSCRIPT_NO_STOP_CODON,T|upstream_gene_variant|MODIFIER|E3|GENE_E3|transcript|TRANSCRIPT_E3|protein_coding||c.-2351C>T|||||2351|WARNING_TRANSCRIPT_NO_START_CODON,T|upstream_gene_variant|MODIFIER|E2|GENE_E2|transcript|TRANSCRIPT_E2|protein_coding||c.-2534C>T|||||2534|WARNING_TRANSCRIPT_NO_START_CODON,T|upstream_gene_variant|MODIFIER|6K|GENE_6K|transcript|TRANSCRIPT_6K|protein_coding||c.-3803C>T|||||3803|WARNING_TRANSCRIPT_NO_START_CODON,T|upstream_gene_variant|MODIFIER|E1|GENE_E1|transcript|TRANSCRIPT_E1|protein_coding||c.-3986C>T|||||3986|WARNING_TRANSCRIPT_NO_START_CODON,T|downstream_gene_variant|MODIFIER|NS1|GENE_NS1|transcript|TRANSCRIPT_NS1|protein_coding||c.*4327C>T|||||4327|WARNING_TRANSCRIPT_NO_STOP_CODON,T|downstream_gene_variant|MODIFIER|NS2|GENE_NS2|transcript|TRANSCRIPT_NS2|protein_coding||c.*1933C>T|||||1933|WARNING_TRANSCRIPT_NO_START_CODON,T|downstream_gene_variant|MODIFIER|NS3|GENE_NS3|transcript|TRANSCRIPT_NS3|protein_coding||c.*361C>T|||||361|WARNING_TRANSCRIPT_NO_START_CODON,T|non_coding_transcript_variant|MODIFIER|EDEN.1|null|transcript|EDEN.1|protein_coding||||||||WARNING_TRANSCRIPT_NO_START_CODON","LOW","Synonymous","GT:PL","1/1:255,255,0"]
["KP164568_BHI3734_H804698_2014_08_26_Human_Brazil",6017,".","C",3,{"$f":"E32*100/J32","v":0.315457413249211},"T",948,{"$f":"H32*100/J32","v":99.6845425867508},{"$f":"H32+E32","v":951},221.999,"PASS","DP=953;VDB=2.5274e-07;SGB=-0.693147;RPB=0.927432;MQB=0.257576;MQSB=1.33911e-18;BQB=0.148325;MQ0F=0.160546;AF1=1;AC1=2;DP4=2,0,471,156;MQ=17;FQ=-281.989;PV4=1,1,0.00542372,0.130853;ANN=T|synonymous_variant|LOW|NS4|GENE_NS4|transcript|TRANSCRIPT_NS4|protein_coding|1/1|c.351C>T|p.Asn117Asn|351/1833|351/1833|117/610||WARNING_TRANSCRIPT_NO_START_CODON,T|upstream_gene_variant|MODIFIER|capsid|GENE_capsid|transcript|TRANSCRIPT_capsid|protein_coding||c.-1551C>T|||||1551|WARNING_TRANSCRIPT_NO_STOP_CODON,T|upstream_gene_variant|MODIFIER|E3|GENE_E3|transcript|TRANSCRIPT_E3|protein_coding||c.-2343C>T|||||2343|WARNING_TRANSCRIPT_NO_START_CODON,T|upstream_gene_variant|MODIFIER|E2|GENE_E2|transcript|TRANSCRIPT_E2|protein_coding||c.-2526C>T|||||2526|WARNING_TRANSCRIPT_NO_START_CODON,T|upstream_gene_variant|MODIFIER|6K|GENE_6K|transcript|TRANSCRIPT_6K|protein_coding||c.-3795C>T|||||3795|WARNING_TRANSCRIPT_NO_START_CODON,T|upstream_gene_variant|MODIFIER|E1|GENE_E1|transcript|TRANSCRIPT_E1|protein_coding||c.-3978C>T|||||3978|WARNING_TRANSCRIPT_NO_START_CODON,T|downstream_gene_variant|MODIFIER|NS1|GENE_NS1|transcript|TRANSCRIPT_NS1|protein_coding||c.*4335C>T|||||4335|WARNING_TRANSCRIPT_NO_STOP_CODON,T|downstream_gene_variant|MODIFIER|NS2|GENE_NS2|transcript|TRANSCRIPT_NS2|protein_coding||c.*1941C>T|||||1941|WARNING_TRANSCRIPT_NO_START_CODON,T|downstream_gene_variant|MODIFIER|NS3|GENE_NS3|transcript|TRANSCRIPT_NS3|protein_coding||c.*369C>T|||||369|WARNING_TRANSCRIPT_NO_START_CODON,T|non_coding_transcript_variant|MODIFIER|EDEN.1|null|transcript|EDEN.1|protein_coding||||||||WARNING_TRANSCRIPT_NO_START_CODON","LOW","Synonymous","GT:PL","1/1:255,255,0"]
["KP164568_BHI3734_H804698_2014_08_26_Human_Brazil",6041,".","C",48,{"$f":"E33*100/J33","v":6.34081902245707},"T",709,{"$f":"H33*100/J33","v":93.6591809775429},{"$f":"H33+E33","v":757},221.999,"PASS","DP=744;VDB=0.620855;SGB=-0.693147;RPB=8.312e-14;MQB=0.991383;MQSB=7.46052e-14;BQB=0.0336269;MQ0F=0.0927419;AF1=1;AC1=2;DP4=29,3,279,247;MQ=19;FQ=-281.989;PV4=1.28143e-05,1,0.121328,1;ANN=T|synonymous_variant|LOW|NS4|GENE_NS4|transcript|TRANSCRIPT_NS4|protein_coding|1/1|c.375C>T|p.Cys125Cys|375/1833|375/1833|125/610||WARNING_TRANSCRIPT_NO_START_CODON,T|upstream_gene_variant|MODIFIER|capsid|GENE_capsid|transcript|TRANSCRIPT_capsid|protein_coding||c.-1527C>T|||||1527|WARNING_TRANSCRIPT_NO_STOP_CODON,T|upstream_gene_variant|MODIFIER|E3|GENE_E3|transcript|TRANSCRIPT_E3|protein_coding||c.-2319C>T|||||2319|WARNING_TRANSCRIPT_NO_START_CODON,T|upstream_gene_variant|MODIFIER|E2|GENE_E2|transcript|TRANSCRIPT_E2|protein_coding||c.-2502C>T|||||2502|WARNING_TRANSCRIPT_NO_START_CODON,T|upstream_gene_variant|MODIFIER|6K|GENE_6K|transcript|TRANSCRIPT_6K|protein_coding||c.-3771C>T|||||3771|WARNING_TRANSCRIPT_NO_START_CODON,T|upstream_gene_variant|MODIFIER|E1|GENE_E1|transcript|TRANSCRIPT_E1|protein_coding||c.-3954C>T|||||3954|WARNING_TRANSCRIPT_NO_START_CODON,T|downstream_gene_variant|MODIFIER|NS1|GENE_NS1|transcript|TRANSCRIPT_NS1|protein_coding||c.*4359C>T|||||4359|WARNING_TRANSCRIPT_NO_STOP_CODON,T|downstream_gene_variant|MODIFIER|NS2|GENE_NS2|transcript|TRANSCRIPT_NS2|protein_coding||c.*1965C>T|||||1965|WARNING_TRANSCRIPT_NO_START_CODON,T|downstream_gene_variant|MODIFIER|NS3|GENE_NS3|transcript|TRANSCRIPT_NS3|protein_coding||c.*393C>T|||||393|WARNING_TRANSCRIPT_NO_START_CODON,T|non_coding_transcript_variant|MODIFIER|EDEN.1|null|transcript|EDEN.1|protein_coding||||||||WARNING_TRANSCRIPT_NO_START_CODON","LOW","Synonymous","GT:PL","1/1:255,255,0"]
["KP164568_BHI3734_H804698_2014_08_26_Human_Brazil",6051,".","C",278,{"$f":"E34*100/J34","v":39.4886363636364},"T",426,{"$f":"H34*100/J34","v":60.5113636363636},{"$f":"H34+E34","v":704},100.008,"PASS","DP=690;VDB=3.10005e-06;SGB=-0.693147;RPB=1.12177e-39;MQB=5.91607e-30;MQSB=5.8042e-17;BQB=4.42889e-09;MQ0F=0.104348;AF1=0.5;AC1=1;DP4=147,22,150,202;MQ=23;FQ=103.016;PV4=1.7333e-23,1.27626e-17,0,1;ANN=T|synonymous_variant|LOW|NS4|GENE_NS4|transcript|TRANSCRIPT_NS4|protein_coding|1/1|c.385C>T|p.Leu129Leu|385/1833|385/1833|129/610||WARNING_TRANSCRIPT_NO_START_CODON,T|upstream_gene_variant|MODIFIER|capsid|GENE_capsid|transcript|TRANSCRIPT_capsid|protein_coding||c.-1517C>T|||||1517|WARNING_TRANSCRIPT_NO_STOP_CODON,T|upstream_gene_variant|MODIFIER|E3|GENE_E3|transcript|TRANSCRIPT_E3|protein_coding||c.-2309C>T|||||2309|WARNING_TRANSCRIPT_NO_START_CODON,T|upstream_gene_variant|MODIFIER|E2|GENE_E2|transcript|TRANSCRIPT_E2|protein_coding||c.-2492C>T|||||2492|WARNING_TRANSCRIPT_NO_START_CODON,T|upstream_gene_variant|MODIFIER|6K|GENE_6K|transcript|TRANSCRIPT_6K|protein_coding||c.-3761C>T|||||3761|WARNING_TRANSCRIPT_NO_START_CODON,T|upstream_gene_variant|MODIFIER|E1|GENE_E1|transcript|TRANSCRIPT_E1|protein_coding||c.-3944C>T|||||3944|WARNING_TRANSCRIPT_NO_START_CODON,T|downstream_gene_variant|MODIFIER|NS1|GENE_NS1|transcript|TRANSCRIPT_NS1|protein_coding||c.*4369C>T|||||4369|WARNING_TRANSCRIPT_NO_STOP_CODON,T|downstream_gene_variant|MODIFIER|NS2|GENE_NS2|transcript|TRANSCRIPT_NS2|protein_coding||c.*1975C>T|||||1975|WARNING_TRANSCRIPT_NO_START_CODON,T|downstream_gene_variant|MODIFIER|NS3|GENE_NS3|transcript|TRANSCRIPT_NS3|protein_coding||c.*403C>T|||||403|WARNING_TRANSCRIPT_NO_START_CODON,T|non_coding_transcript_variant|MODIFIER|EDEN.1|null|transcript|EDEN.1|protein_coding||||||||WARNING_TRANSCRIPT_NO_START_CODON","LOW","Synonymous","GT:PL","0/1:130,0,201"]
["KP164568_BHI3734_H804698_2014_08_26_Human_Brazil",6065,".","T",414,{"$f":"E35*100/J35","v":57.9020979020979},"C",301,{"$f":"H35*100/J35","v":42.0979020979021},{"$f":"H35+E35","v":715},162.009,"PASS","DP=700;VDB=2.47087e-11;SGB=-0.693147;RPB=3.45779e-40;MQB=1.42333e-40;MQSB=1.54064e-22;BQB=1.35237e-18;MQ0F=0.0914286;AF1=0.5;AC1=1;DP4=202,41,96,164;MQ=28;FQ=165.017;PV4=5.40598e-27,1.09378e-32,0,2.92356e-06;ANN=C|synonymous_variant|LOW|NS4|GENE_NS4|transcript|TRANSCRIPT_NS4|protein_coding|1/1|c.399T>C|p.Tyr133Tyr|399/1833|399/1833|133/610||WARNING_TRANSCRIPT_NO_START_CODON,C|upstream_gene_variant|MODIFIER|capsid|GENE_capsid|transcript|TRANSCRIPT_capsid|protein_coding||c.-1503T>C|||||1503|WARNING_TRANSCRIPT_NO_STOP_CODON,C|upstream_gene_variant|MODIFIER|E3|GENE_E3|transcript|TRANSCRIPT_E3|protein_coding||c.-2295T>C|||||2295|WARNING_TRANSCRIPT_NO_START_CODON,C|upstream_gene_variant|MODIFIER|E2|GENE_E2|transcript|TRANSCRIPT_E2|protein_coding||c.-2478T>C|||||2478|WARNING_TRANSCRIPT_NO_START_CODON,C|upstream_gene_variant|MODIFIER|6K|GENE_6K|transcript|TRANSCRIPT_6K|protein_coding||c.-3747T>C|||||3747|WARNING_TRANSCRIPT_NO_START_CODON,C|upstream_gene_variant|MODIFIER|E1|GENE_E1|transcript|TRANSCRIPT_E1|protein_coding||c.-3930T>C|||||3930|WARNING_TRANSCRIPT_NO_START_CODON,C|downstream_gene_variant|MODIFIER|NS1|GENE_NS1|transcript|TRANSCRIPT_NS1|protein_coding||c.*4383T>C|||||4383|WARNING_TRANSCRIPT_NO_STOP_CODON,C|downstream_gene_variant|MODIFIER|NS2|GENE_NS2|transcript|TRANSCRIPT_NS2|protein_coding||c.*1989T>C|||||1989|WARNING_TRANSCRIPT_NO_START_CODON,C|downstream_gene_variant|MODIFIER|NS3|GENE_NS3|transcript|TRANSCRIPT_NS3|protein_coding||c.*417T>C|||||417|WARNING_TRANSCRIPT_NO_START_CODON,C|non_coding_transcript_variant|MODIFIER|EDEN.1|null|transcript|EDEN.1|protein_coding||||||||WARNING_TRANSCRIPT_NO_START_CODON","LOW","Synonymous","GT:PL","0/1:192,0,255"]
["KP164568_BHI3734_H804698_2014_08_26_Human_Brazil",6074,".","C",518,{"$f":"E36*100/J36","v":66.1558109833972},"T",265,{"$f":"H36*100/J36","v":33.8441890166028},{"$f":"H36+E36","v":783},171.009,"PASS","DP=767;VDB=1.19034e-11;SGB=-0.693147;RPB=6.40393e-43;MQB=2.8026e-45;MQSB=1.3762e-26;BQB=2.75389e-25;MQ0F=0.0782269;AF1=0.5;AC1=1;DP4=251,40,85,138;MQ=30;FQ=174.017;PV4=1.17346e-30,2.31116e-41,0,6.60005e-30;ANN=T|synonymous_variant|LOW|NS4|GENE_NS4|transcript|TRANSCRIPT_NS4|protein_coding|1/1|c.408C>T|p.Val136Val|408/1833|408/1833|136/610||WARNING_TRANSCRIPT_NO_START_CODON,T|upstream_gene_variant|MODIFIER|capsid|GENE_capsid|transcript|TRANSCRIPT_capsid|protein_coding||c.-1494C>T|||||1494|WARNING_TRANSCRIPT_NO_STOP_CODON,T|upstream_gene_variant|MODIFIER|E3|GENE_E3|transcript|TRANSCRIPT_E3|protein_coding||c.-2286C>T|||||2286|WARNING_TRANSCRIPT_NO_START_CODON,T|upstream_gene_variant|MODIFIER|E2|GENE_E2|transcript|TRANSCRIPT_E2|protein_coding||c.-2469C>T|||||2469|WARNING_TRANSCRIPT_NO_START_CODON,T|upstream_gene_variant|MODIFIER|6K|GENE_6K|transcript|TRANSCRIPT_6K|protein_coding||c.-3738C>T|||||3738|WARNING_TRANSCRIPT_NO_START_CODON,T|upstream_gene_variant|MODIFIER|E1|GENE_E1|transcript|TRANSCRIPT_E1|protein_coding||c.-3921C>T|||||3921|WARNING_TRANSCRIPT_NO_START_CODON,T|downstream_gene_variant|MODIFIER|NS1|GENE_NS1|transcript|TRANSCRIPT_NS1|protein_coding||c.*4392C>T|||||4392|WARNING_TRANSCRIPT_NO_STOP_CODON,T|downstream_gene_variant|MODIFIER|NS2|GENE_NS2|transcript|TRANSCRIPT_NS2|protein_coding||c.*1998C>T|||||1998|WARNING_TRANSCRIPT_NO_START_CODON,T|downstream_gene_variant|MODIFIER|NS3|GENE_NS3|transcript|TRANSCRIPT_NS3|protein_coding||c.*426C>T|||||426|WARNING_TRANSCRIPT_NO_START_CODON,T|non_coding_transcript_variant|MODIFIER|EDEN.1|null|transcript|EDEN.1|protein_coding||||||||WARNING_TRANSCRIPT_NO_START_CODON","LOW","Synonymous","GT:PL","0/1:201,0,255"]
["KP164568_BHI3734_H804698_2014_08_26_Human_Brazil",6111,".","T",597,{"$f":"E37*100/J37","v":59.9397590361446},"C",399,{"$f":"H37*100/J37","v":40.0602409638554},{"$f":"H37+E37","v":996},220.009,"PASS","DP=987;VDB=9.5867e-41;SGB=-0.693147;RPB=0;MQB=0;MQSB=0;BQB=3.6015e-18;MQ0F=0.0526849;AF1=0.5;AC1=1;DP4=260,68,103,193;MQ=32;FQ=221.824;PV4=6.7026e-30,7.8219e-30,0,3.30457e-23;ANN=C|synonymous_variant|LOW|NS4|GENE_NS4|transcript|TRANSCRIPT_NS4|protein_coding|1/1|c.445T>C|p.Leu149Leu|445/1833|445/1833|149/610||WARNING_TRANSCRIPT_NO_START_CODON,C|upstream_gene_variant|MODIFIER|capsid|GENE_capsid|transcript|TRANSCRIPT_capsid|protein_coding||c.-1457T>C|||||1457|WARNING_TRANSCRIPT_NO_STOP_CODON,C|upstream_gene_variant|MODIFIER|E3|GENE_E3|transcript|TRANSCRIPT_E3|protein_coding||c.-2249T>C|||||2249|WARNING_TRANSCRIPT_NO_START_CODON,C|upstream_gene_variant|MODIFIER|E2|GENE_E2|transcript|TRANSCRIPT_E2|protein_coding||c.-2432T>C|||||2432|WARNING_TRANSCRIPT_NO_START_CODON,C|upstream_gene_variant|MODIFIER|6K|GENE_6K|transcript|TRANSCRIPT_6K|protein_coding||c.-3701T>C|||||3701|WARNING_TRANSCRIPT_NO_START_CODON,C|upstream_gene_variant|MODIFIER|E1|GENE_E1|transcript|TRANSCRIPT_E1|protein_coding||c.-3884T>C|||||3884|WARNING_TRANSCRIPT_NO_START_CODON,C|downstream_gene_variant|MODIFIER|NS1|GENE_NS1|transcript|TRANSCRIPT_NS1|protein_coding||c.*4429T>C|||||4429|WARNING_TRANSCRIPT_NO_STOP_CODON,C|downstream_gene_variant|MODIFIER|NS2|GENE_NS2|transcript|TRANSCRIPT_NS2|protein_coding||c.*2035T>C|||||2035|WARNING_TRANSCRIPT_NO_START_CODON,C|downstream_gene_variant|MODIFIER|NS3|GENE_NS3|transcript|TRANSCRIPT_NS3|protein_coding||c.*463T>C|||||463|WARNING_TRANSCRIPT_NO_START_CODON,C|non_coding_transcript_variant|MODIFIER|EDEN.1|null|transcript|EDEN.1|protein_coding||||||||WARNING_TRANSCRIPT_NO_START_CODON","LOW","Synonymous","GT:PL","0/1:250,0,255"]
["KP164568_BHI3734_H804698_2014_08_26_Human_Brazil",6141,".","C",243,{"$f":"E38*100/J38","v":41.0472972972973},"T",349,{"$f":"H38*100/J38","v":58.9527027027027},{"$f":"H38+E38","v":592},185.009,"PASS","DP=591;VDB=1.198e-37;SGB=-0.693147;RPB=2.87618e-06;MQB=0;MQSB=4.87817e-20;BQB=1.74824e-05;MQ0F=0.0829103;AF1=0.5;AC1=1;DP4=91,62,81,186;MQ=28;FQ=188.017;PV4=6.32037e-09,1.24671e-08,0,1;ANN=T|synonymous_variant|LOW|NS4|GENE_NS4|transcript|TRANSCRIPT_NS4|protein_coding|1/1|c.475C>T|p.Leu159Leu|475/1833|475/1833|159/610||WARNING_TRANSCRIPT_NO_START_CODON,T|upstream_gene_variant|MODIFIER|capsid|GENE_capsid|transcript|TRANSCRIPT_capsid|protein_coding||c.-1427C>T|||||1427|WARNING_TRANSCRIPT_NO_STOP_CODON,T|upstream_gene_variant|MODIFIER|E3|GENE_E3|transcript|TRANSCRIPT_E3|protein_coding||c.-2219C>T|||||2219|WARNING_TRANSCRIPT_NO_START_CODON,T|upstream_gene_variant|MODIFIER|E2|GENE_E2|transcript|TRANSCRIPT_E2|protein_coding||c.-2402C>T|||||2402|WARNING_TRANSCRIPT_NO_START_CODON,T|upstream_gene_variant|MODIFIER|6K|GENE_6K|transcript|TRANSCRIPT_6K|protein_coding||c.-3671C>T|||||3671|WARNING_TRANSCRIPT_NO_START_CODON,T|upstream_gene_variant|MODIFIER|E1|GENE_E1|transcript|TRANSCRIPT_E1|protein_coding||c.-3854C>T|||||3854|WARNING_TRANSCRIPT_NO_START_CODON,T|downstream_gene_variant|MODIFIER|NS1|GENE_NS1|transcript|TRANSCRIPT_NS1|protein_coding||c.*4459C>T|||||4459|WARNING_TRANSCRIPT_NO_STOP_CODON,T|downstream_gene_variant|MODIFIER|NS2|GENE_NS2|transcript|TRANSCRIPT_NS2|protein_coding||c.*2065C>T|||||2065|WARNING_TRANSCRIPT_NO_START_CODON,T|downstream_gene_variant|MODIFIER|NS3|GENE_NS3|transcript|TRANSCRIPT_NS3|protein_coding||c.*493C>T|||||493|WARNING_TRANSCRIPT_NO_START_CODON,T|non_coding_transcript_variant|MODIFIER|EDEN.1|null|transcript|EDEN.1|protein_coding||||||||WARNING_TRANSCRIPT_NO_START_CODON","LOW","Synonymous","GT:PL","0/1:215,0,255"]
["KP164568_BHI3734_H804698_2014_08_26_Human_Brazil",6146,".","T",213,{"$f":"E39*100/J39","v":42.0948616600791},"C",293,{"$f":"H39*100/J39","v":57.905138339921},{"$f":"H39+E39","v":506},137.008,"PASS","DP=505;VDB=5.90017e-41;SGB=-0.693147;RPB=1.31758e-05;MQB=0;MQSB=1.53431e-13;BQB=6.01908e-05;MQ0F=0.0851485;AF1=0.5;AC1=1;DP4=78,58,63,165;MQ=28;FQ=140.016;PV4=2.26745e-08,8.04801e-07,0,1;ANN=C|synonymous_variant|LOW|NS4|GENE_NS4|transcript|TRANSCRIPT_NS4|protein_coding|1/1|c.480T>C|p.Asp160Asp|480/1833|480/1833|160/610||WARNING_TRANSCRIPT_NO_START_CODON,C|upstream_gene_variant|MODIFIER|capsid|GENE_capsid|transcript|TRANSCRIPT_capsid|protein_coding||c.-1422T>C|||||1422|WARNING_TRANSCRIPT_NO_STOP_CODON,C|upstream_gene_variant|MODIFIER|E3|GENE_E3|transcript|TRANSCRIPT_E3|protein_coding||c.-2214T>C|||||2214|WARNING_TRANSCRIPT_NO_START_CODON,C|upstream_gene_variant|MODIFIER|E2|GENE_E2|transcript|TRANSCRIPT_E2|protein_coding||c.-2397T>C|||||2397|WARNING_TRANSCRIPT_NO_START_CODON,C|upstream_gene_variant|MODIFIER|6K|GENE_6K|transcript|TRANSCRIPT_6K|protein_coding||c.-3666T>C|||||3666|WARNING_TRANSCRIPT_NO_START_CODON,C|upstream_gene_variant|MODIFIER|E1|GENE_E1|transcript|TRANSCRIPT_E1|protein_coding||c.-3849T>C|||||3849|WARNING_TRANSCRIPT_NO_START_CODON,C|downstream_gene_variant|MODIFIER|NS1|GENE_NS1|transcript|TRANSCRIPT_NS1|protein_coding||c.*4464T>C|||||4464|WARNING_TRANSCRIPT_NO_STOP_CODON,C|downstream_gene_variant|MODIFIER|NS2|GENE_NS2|transcript|TRANSCRIPT_NS2|protein_coding||c.*2070T>C|||||2070|WARNING_TRANSCRIPT_NO_START_CODON,C|downstream_gene_variant|MODIFIER|NS3|GENE_NS3|transcript|TRANSCRIPT_NS3|protein_coding||c.*498T>C|||||498|WARNING_TRANSCRIPT_NO_START_CODON,C|non_coding_transcript_variant|MODIFIER|EDEN.1|null|transcript|EDEN.1|protein_coding||||||||WARNING_TRANSCRIPT_NO_START_CODON","LOW","Synonymous","GT:PL","0/1:167,0,255"]
["KP164568_BHI3734_H804698_2014_08_26_Human_Brazil",6370,null,"A",709,{"$f":"E40*100/J40","v":81.1212814645309},"G",165,{"$f":"H40*100/J40","v":18.8787185354691},{"$f":"H40+E40","v":874},null,null,"Gln -> Arg","MODERATE","Non-synonymous"]
["KP164568_BHI3734_H804698_2014_08_26_Human_Brazil",6404,null,"T",877,{"$f":"E41*100/J41","v":87.5249500998004},"C",125,{"$f":"H41*100/J41","v":12.4750499001996},{"$f":"H41+E41","v":1002},null,null,null,"LOW","Synonymous"]
["KP164568_BHI3734_H804698_2014_08_26_Human_Brazil",6413,null,"A",784,{"$f":"E42*100/J42","v":88.3878241262683},"G",103,{"$f":"H42*100/J42","v":11.6121758737317},{"$f":"H42+E42","v":887},null,null,null,"LOW","Synonymous"]
["KP164568_BHI3734_H804698_2014_08_26_Human_Brazil",6423,null,"T",782,{"$f":"E43*100/J43","v":82.8389830508475},"C",162,{"$f":"H43*100/J43","v":17.1610169491525},{"$f":"H43+E43","v":944},null,null,null,"LOW","Synonymous"]
["KP164568_BHI3734_H804698_2014_08_26_Human_Brazil",6437,null,"T",936,{"$f":"E44*100/J44","v":79.6595744680851},"C",239,{"$f":"H44*100/J44","v":20.3404255319149},{"$f":"H44+E44","v":1175},null,null,null,"LOW","Synonymous"]
["KP164568_BHI3734_H804698_2014_08_26_Human_Brazil",6444,null,"C",893,{"$f":"E45*100/J45","v":79.0265486725664},"T",237,{"$f":"H45*100/J45","v":20.9734513274336},{"$f":"H45+E45","v":1130},null,null,null,"LOW","Synonymous"]
["KP164568_BHI3734_H804698_2014_08_26_Human_Brazil",6449,null,"A",898,{"$f":"E46*100/J46","v":80.5381165919283},"G",217,{"$f":"H46*100/J46","v":19.4618834080718},{"$f":"H46+E46","v":1115},null,null,null,"LOW","Synonymous"]
["KP164568_BHI3734_H804698_2014_08_26_Human_Brazil",6468,null,"C",1072,{"$f":"E47*100/J47","v":76.0283687943262},"T",338,{"$f":"H47*100/J47","v":23.9716312056738},{"$f":"H47+E47","v":1410},null,null,null,"LOW","Synonymous"]
["KP164568_BHI3734_H804698_2014_08_26_Human_Brazil",6470,null,"A",1085,{"$f":"E48*100/J48","v":76.140350877193},"G",340,{"$f":"H48*100/J48","v":23.859649122807},{"$f":"H48+E48","v":1425},null,null,null,"LOW","Synonymous"]
["KP164568_BHI3734_H804698_2014_08_26_Human_Brazil",6471,null,"T",1084,{"$f":"E49*100/J49","v":75.9635599159075},"C",343,{"$f":"H49*100/J49","v":24.0364400840925},{"$f":"H49+E49","v":1427},null,null,"Phe -> Leu","MODERATE","Non-synonymous"]
["KP164568_BHI3734_H804698_2014_08_26_Human_Brazil",6478,null,"A",934,{"$f":"E50*100/J50","v":78.0936454849498},"G",262,{"$f":"H50*100/J50","v":21.9063545150502},{"$f":"H50+E50","v":1196},null,null,"Lys  -> Arg","MODERATE","Non-synonymous"]
["KP164568_BHI3734_H804698_2014_08_26_Human_Brazil",6485,null,"C",1012,{"$f":"E51*100/J51","v":79.6223446105429},"T",259,{"$f":"H51*100/J51","v":20.3776553894571},{"$f":"H51+E51","v":1271},null,null,null,"LOW","Synonymous"]
["KP164568_BHI3734_H804698_2014_08_26_Human_Brazil",6497,null,"A",985,{"$f":"E52*100/J52","v":78.548644338118},"G",269,{"$f":"H52*100/J52","v":21.451355661882},{"$f":"H52+E52","v":1254},null,null,null,"LOW","Synonymous"]
["KP164568_BHI3734_H804698_2014_08_26_Human_Brazil",6506,".","A",1039,{"$f":"E53*100/J53","v":72.3537604456825},"T",397,{"$f":"H53*100/J53","v":27.6462395543175},{"$f":"H53+E53","v":1436},143.008,"PASS","DP=1432;VDB=0.998816;SGB=-0.693147;RPB=0.000908175;MQB=0;MQSB=3.09523e-06;BQB=0.0921273;MQ0F=0.0467877;AF1=0.5;AC1=1;DP4=425,359,197,77;MQ=38;FQ=146.016;PV4=2.54138e-07,1,0,0.192391;ANN=T|missense_variant|MODERATE|NS4|GENE_NS4|transcript|TRANSCRIPT_NS4|protein_coding|1/1|c.840A>T|p.Glu280Asp|840/1833|840/1833|280/610||WARNING_TRANSCRIPT_NO_START_CODON,T|upstream_gene_variant|MODIFIER|capsid|GENE_capsid|transcript|TRANSCRIPT_capsid|protein_coding||c.-1062A>T|||||1062|WARNING_TRANSCRIPT_NO_STOP_CODON,T|upstream_gene_variant|MODIFIER|E3|GENE_E3|transcript|TRANSCRIPT_E3|protein_coding||c.-1854A>T|||||1854|WARNING_TRANSCRIPT_NO_START_CODON,T|upstream_gene_variant|MODIFIER|E2|GENE_E2|transcript|TRANSCRIPT_E2|protein_coding||c.-2037A>T|||||2037|WARNING_TRANSCRIPT_NO_START_CODON,T|upstream_gene_variant|MODIFIER|6K|GENE_6K|transcript|TRANSCRIPT_6K|protein_coding||c.-3306A>T|||||3306|WARNING_TRANSCRIPT_NO_START_CODON,T|upstream_gene_variant|MODIFIER|E1|GENE_E1|transcript|TRANSCRIPT_E1|protein_coding||c.-3489A>T|||||3489|WARNING_TRANSCRIPT_NO_START_CODON,T|downstream_gene_variant|MODIFIER|NS1|GENE_NS1|transcript|TRANSCRIPT_NS1|protein_coding||c.*4824A>T|||||4824|WARNING_TRANSCRIPT_NO_STOP_CODON,T|downstream_gene_variant|MODIFIER|NS2|GENE_NS2|transcript|TRANSCRIPT_NS2|protein_coding||c.*2430A>T|||||2430|WARNING_TRANSCRIPT_NO_START_CODON,T|downstream_gene_variant|MODIFIER|NS3|GENE_NS3|transcript|TRANSCRIPT_NS3|protein_coding||c.*858A>T|||||858|WARNING_TRANSCRIPT_NO_START_CODON,T|non_coding_transcript_variant|MODIFIER|EDEN.1|null|transcript|EDEN.1|protein_coding||||||||WARNING_TRANSCRIPT_NO_START_CODON","MODERATE","Non-synonymous","GT:PL","0/1:173,0,255"]
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["KP164568_BHI3734_H804698_2014_08_26_Human_Brazil",8521,".","T",4,{"$f":"E62*100/J62","v":0.293040293040293},"C",1361,{"$f":"H62*100/J62","v":99.7069597069597},{"$f":"H62+E62","v":1365},221.999,"PASS","DP=1348;VDB=0.861765;SGB=-0.693147;RPB=0.801236;MQB=0.70223;MQSB=0.00208609;BQB=0.993065;MQ0F=0;AF1=1;AC1=2;DP4=1,2,550,516;MQ=42;FQ=-281.989;PV4=0.613409,0.431268,1,1;ANN=C|synonymous_variant|LOW|E3|GENE_E3|transcript|TRANSCRIPT_E3|protein_coding|1/1|c.162T>C|p.Cys54Cys|162/183|162/183|54/60||WARNING_TRANSCRIPT_NO_START_CODON,C|upstream_gene_variant|MODIFIER|E2|GENE_E2|transcript|TRANSCRIPT_E2|protein_coding||c.-22T>C|||||22|WARNING_TRANSCRIPT_NO_START_CODON,C|upstream_gene_variant|MODIFIER|6K|GENE_6K|transcript|TRANSCRIPT_6K|protein_coding||c.-1291T>C|||||1291|WARNING_TRANSCRIPT_NO_START_CODON,C|upstream_gene_variant|MODIFIER|E1|GENE_E1|transcript|TRANSCRIPT_E1|protein_coding||c.-1474T>C|||||1474|WARNING_TRANSCRIPT_NO_START_CODON,C|downstream_gene_variant|MODIFIER|NS2|GENE_NS2|transcript|TRANSCRIPT_NS2|protein_coding||c.*4445T>C|||||4445|WARNING_TRANSCRIPT_NO_START_CODON,C|downstream_gene_variant|MODIFIER|NS3|GENE_NS3|transcript|TRANSCRIPT_NS3|protein_coding||c.*2873T>C|||||2873|WARNING_TRANSCRIPT_NO_START_CODON,C|downstream_gene_variant|MODIFIER|NS4|GENE_NS4|transcript|TRANSCRIPT_NS4|protein_coding||c.*1022T>C|||||1022|WARNING_TRANSCRIPT_NO_START_CODON,C|downstream_gene_variant|MODIFIER|capsid|GENE_capsid|transcript|TRANSCRIPT_capsid|protein_coding||c.*162T>C|||||162|WARNING_TRANSCRIPT_NO_STOP_CODON,C|non_coding_transcript_variant|MODIFIER|EDEN.1|null|transcript|EDEN.1|protein_coding||||||||WARNING_TRANSCRIPT_NO_START_CODON","LOW","Synonymous","GT:PL","1/1:255,255,0"]
["KP164568_BHI3734_H804698_2014_08_26_Human_Brazil",8588,".","T",962,{"$f":"E63*100/J63","v":71.1012564671101},"C",391,{"$f":"H63*100/J63","v":28.8987435328899},{"$f":"H63+E63","v":1353},225.009,"PASS","DP=1335;VDB=0.872411;SGB=-0.693147;RPB=0;MQB=0.235795;MQSB=0.975841;BQB=3.78818e-12;MQ0F=0;AF1=0.5;AC1=1;DP4=378,395,273,53;MQ=42;FQ=225.007;PV4=7.27066e-29,0.00621196,0.00963727,0;ANN=C|synonymous_variant|LOW|E2|GENE_E2|transcript|TRANSCRIPT_E2|protein_coding|1/1|c.46T>C|p.Leu16Leu|46/1269|46/1269|16/422||WARNING_TRANSCRIPT_NO_START_CODON,C|upstream_gene_variant|MODIFIER|6K|GENE_6K|transcript|TRANSCRIPT_6K|protein_coding||c.-1224T>C|||||1224|WARNING_TRANSCRIPT_NO_START_CODON,C|upstream_gene_variant|MODIFIER|E1|GENE_E1|transcript|TRANSCRIPT_E1|protein_coding||c.-1407T>C|||||1407|WARNING_TRANSCRIPT_NO_START_CODON,C|downstream_gene_variant|MODIFIER|NS2|GENE_NS2|transcript|TRANSCRIPT_NS2|protein_coding||c.*4512T>C|||||4512|WARNING_TRANSCRIPT_NO_START_CODON,C|downstream_gene_variant|MODIFIER|NS3|GENE_NS3|transcript|TRANSCRIPT_NS3|protein_coding||c.*2940T>C|||||2940|WARNING_TRANSCRIPT_NO_START_CODON,C|downstream_gene_variant|MODIFIER|NS4|GENE_NS4|transcript|TRANSCRIPT_NS4|protein_coding||c.*1089T>C|||||1089|WARNING_TRANSCRIPT_NO_START_CODON,C|downstream_gene_variant|MODIFIER|capsid|GENE_capsid|transcript|TRANSCRIPT_capsid|protein_coding||c.*229T>C|||||229|WARNING_TRANSCRIPT_NO_STOP_CODON,C|downstream_gene_variant|MODIFIER|E3|GENE_E3|transcript|TRANSCRIPT_E3|protein_coding||c.*46T>C|||||46|WARNING_TRANSCRIPT_NO_START_CODON,C|non_coding_transcript_variant|MODIFIER|EDEN.1|null|transcript|EDEN.1|protein_coding||||||||WARNING_TRANSCRIPT_NO_START_CODON","LOW","Synonymous","GT:PL","0/1:255,0,255"]
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["KP164568_BHI3734_H804698_2014_08_26_Human_Brazil",9334,null,"A",0,{"$f":"E65*100/J65","v":0},"G",540,{"$f":"H65*100/J65","v":100},{"$f":"H65+E65","v":540},null,null,null,"LOW","Synonymous"]
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["KP164568_BHI3734_H804698_2014_08_26_Human_Brazil",10846,".","T",151,{"$f":"E67*100/J67","v":39.0180878552972},"C",236,{"$f":"H67*100/J67","v":60.9819121447028},{"$f":"H67+E67","v":387},204.009,"PASS","DP=384;VDB=0;SGB=-0.693147;RPB=1.46936e-08;MQB=0.907424;MQSB=0.97764;BQB=0.0226365;MQ0F=0;AF1=0.5;AC1=1;DP4=85,15,191,0;MQ=42;FQ=206.983;PV4=5.26235e-08,6.16497e-05,1,2.79149e-09;ANN=C|synonymous_variant|LOW|E1|GENE_E1|transcript|TRANSCRIPT_E1|protein_coding|1/1|c.852T>C|p.Asp284Asp|852/1317|852/1317|284/438||WARNING_TRANSCRIPT_NO_START_CODON,C|downstream_gene_variant|MODIFIER|NS4|GENE_NS4|transcript|TRANSCRIPT_NS4|protein_coding||c.*3347T>C|||||3347|WARNING_TRANSCRIPT_NO_START_CODON,C|downstream_gene_variant|MODIFIER|capsid|GENE_capsid|transcript|TRANSCRIPT_capsid|protein_coding||c.*2487T>C|||||2487|WARNING_TRANSCRIPT_NO_STOP_CODON,C|downstream_gene_variant|MODIFIER|E3|GENE_E3|transcript|TRANSCRIPT_E3|protein_coding||c.*2304T>C|||||2304|WARNING_TRANSCRIPT_NO_START_CODON,C|downstream_gene_variant|MODIFIER|E2|GENE_E2|transcript|TRANSCRIPT_E2|protein_coding||c.*1035T>C|||||1035|WARNING_TRANSCRIPT_NO_START_CODON,C|downstream_gene_variant|MODIFIER|6K|GENE_6K|transcript|TRANSCRIPT_6K|protein_coding||c.*852T>C|||||852|WARNING_TRANSCRIPT_NO_START_CODON,C|non_coding_transcript_variant|MODIFIER|EDEN.1|null|transcript|EDEN.1|protein_coding||||||||WARNING_TRANSCRIPT_NO_START_CODON","LOW","Synonymous","GT:PL","0/1:234,0,255"]
["KP164568_BHI3734_H804698_2014_08_26_Human_Brazil",11057,".","T",486,{"$f":"E68*100/J68","v":44.6280991735537},"C",603,{"$f":"H68*100/J68","v":55.3719008264463},{"$f":"H68+E68","v":1089},225.009,"PASS","DP=1086;VDB=0.443251;SGB=-0.693147;RPB=0.157029;MQB=0.978159;MQSB=0.93091;BQB=0.00171695;MQ0F=0;AF1=0.5;AC1=1;DP4=110,276,171,283;MQ=42;FQ=225.007;PV4=0.0053178,1,0.419547,1;ANN=C|missense_variant|MODERATE|E1|GENE_E1|transcript|TRANSCRIPT_E1|protein_coding|1/1|c.1063T>C|p.Ser355Pro|1063/1317|1063/1317|355/438||WARNING_TRANSCRIPT_NO_START_CODON,C|downstream_gene_variant|MODIFIER|NS4|GENE_NS4|transcript|TRANSCRIPT_NS4|protein_coding||c.*3558T>C|||||3558|WARNING_TRANSCRIPT_NO_START_CODON,C|downstream_gene_variant|MODIFIER|capsid|GENE_capsid|transcript|TRANSCRIPT_capsid|protein_coding||c.*2698T>C|||||2698|WARNING_TRANSCRIPT_NO_STOP_CODON,C|downstream_gene_variant|MODIFIER|E3|GENE_E3|transcript|TRANSCRIPT_E3|protein_coding||c.*2515T>C|||||2515|WARNING_TRANSCRIPT_NO_START_CODON,C|downstream_gene_variant|MODIFIER|E2|GENE_E2|transcript|TRANSCRIPT_E2|protein_coding||c.*1246T>C|||||1246|WARNING_TRANSCRIPT_NO_START_CODON,C|downstream_gene_variant|MODIFIER|6K|GENE_6K|transcript|TRANSCRIPT_6K|protein_coding||c.*1063T>C|||||1063|WARNING_TRANSCRIPT_NO_START_CODON,C|non_coding_transcript_variant|MODIFIER|EDEN.1|null|transcript|EDEN.1|protein_coding||||||||WARNING_TRANSCRIPT_NO_START_CODON","MODERATE","Non-synonymous","GT:PL","0/1:255,0,255"]

{"sheet":"290P274","index":4,"n_rows":21,"n_cols":17,"rows_kept":21,"cut":false,"hidden":false,"merged":[]}
["#CHROM","POS","ID","REF","Nº reads","BHI3734 reads support","ALT","Nº reads","PER160 reas support","Total reads","QUAL","FILTER","INFO","Impact","Nucleotide change","FORMAT","BHI3734_290P274.sorted.dupli.removed.bam"]
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["KP164568_BHI3734_H804698_2014_08_26_Human_Brazil",476,".","C",1524,{"$f":"E3*100/J3","v":61.9764131760878},"T",935,{"$f":"H3*100/J3","v":38.0235868239122},{"$f":"E3+H3","v":2459},225.009,"PASS","DP=2449;VDB=0.00134339;SGB=-0.693147;RPB=0.916474;MQB=0;MQSB=4.72305e-11;BQB=0.154126;MQ0F=0.00285831;AF1=0.5;AC1=1;DP4=587,633,423,283;MQ=39;FQ=225.007;PV4=6.45315e-07,1,0,0.0274472;ANN=T|synonymous_variant|LOW|NS1|GENE_NS1|transcript|TRANSCRIPT_NS1|protein_coding|1/1|c.399C>T|p.Phe133Phe|399/1605|399/1605|133/534||WARNING_TRANSCRIPT_NO_STOP_CODON,T|upstream_gene_variant|MODIFIER|NS2|GENE_NS2|transcript|TRANSCRIPT_NS2|protein_coding||c.-1207C>T|||||1207|WARNING_TRANSCRIPT_NO_START_CODON,T|upstream_gene_variant|MODIFIER|NS3|GENE_NS3|transcript|TRANSCRIPT_NS3|protein_coding||c.-3601C>T|||||3601|WARNING_TRANSCRIPT_NO_START_CODON,T|non_coding_transcript_variant|MODIFIER|EDEN.1|null|transcript|EDEN.1|protein_coding||||||||WARNING_TRANSCRIPT_NO_START_CODON","LOW","Synonymous","GT:PL","0/1:255,0,255"]
["KP164568_BHI3734_H804698_2014_08_26_Human_Brazil",482,".","G",1311,{"$f":"E4*100/J4","v":63.2416787264834},"A",762,{"$f":"H4*100/J4","v":36.7583212735166},{"$f":"E4+H4","v":2073},225.009,"PASS","DP=2065;VDB=3.75518e-08;SGB=-0.693147;RPB=0.080346;MQB=0;MQSB=5.90113e-12;BQB=0.180358;MQ0F=0.00338983;AF1=0.5;AC1=1;DP4=519,537,363,219;MQ=39;FQ=225.007;PV4=2.85279e-07,1,0,1;ANN=A|synonymous_variant|LOW|NS1|GENE_NS1|transcript|TRANSCRIPT_NS1|protein_coding|1/1|c.405G>A|p.Leu135Leu|405/1605|405/1605|135/534||WARNING_TRANSCRIPT_NO_STOP_CODON,A|upstream_gene_variant|MODIFIER|NS2|GENE_NS2|transcript|TRANSCRIPT_NS2|protein_coding||c.-1201G>A|||||1201|WARNING_TRANSCRIPT_NO_START_CODON,A|upstream_gene_variant|MODIFIER|NS3|GENE_NS3|transcript|TRANSCRIPT_NS3|protein_coding||c.-3595G>A|||||3595|WARNING_TRANSCRIPT_NO_START_CODON,A|non_coding_transcript_variant|MODIFIER|EDEN.1|null|transcript|EDEN.1|protein_coding||||||||WARNING_TRANSCRIPT_NO_START_CODON","LOW","Synonymous","GT:PL","0/1:255,0,255"]
["KP164568_BHI3734_H804698_2014_08_26_Human_Brazil",548,".","C",1305,{"$f":"E5*100/J5","v":70.655116404981},"T",542,{"$f":"H5*100/J5","v":29.3448835950189},{"$f":"E5+H5","v":1847},179.009,"PASS","DP=1843;VDB=8.15629e-35;SGB=-0.693147;RPB=0.000102923;MQB=1.48538e-43;MQSB=0.0363161;BQB=0.0847426;MQ0F=0;AF1=0.5;AC1=1;DP4=361,695,76,387;MQ=40;FQ=182.017;PV4=4.11011e-13,0.000779361,1.4013e-45,0.177815;ANN=T|synonymous_variant|LOW|NS1|GENE_NS1|transcript|TRANSCRIPT_NS1|protein_coding|1/1|c.471C>T|p.His157His|471/1605|471/1605|157/534||WARNING_TRANSCRIPT_NO_STOP_CODON,T|upstream_gene_variant|MODIFIER|NS2|GENE_NS2|transcript|TRANSCRIPT_NS2|protein_coding||c.-1135C>T|||||1135|WARNING_TRANSCRIPT_NO_START_CODON,T|upstream_gene_variant|MODIFIER|NS3|GENE_NS3|transcript|TRANSCRIPT_NS3|protein_coding||c.-3529C>T|||||3529|WARNING_TRANSCRIPT_NO_START_CODON,T|non_coding_transcript_variant|MODIFIER|EDEN.1|null|transcript|EDEN.1|protein_coding||||||||WARNING_TRANSCRIPT_NO_START_CODON","LOW","Synonymous","GT:PL","0/1:209,0,255"]
["KP164568_BHI3734_H804698_2014_08_26_Human_Brazil",566,".","C",1467,{"$f":"E6*100/J6","v":74.3914807302231},"T",505,{"$f":"H6*100/J6","v":25.6085192697769},{"$f":"E6+H6","v":1972},115.008,"PASS","DP=1967;VDB=2.29417e-16;SGB=-0.693147;RPB=7.07252e-09;MQB=4.87091e-42;MQSB=0.00272029;BQB=1.77415e-08;MQ0F=0;AF1=0.5;AC1=1;DP4=456,696,70,364;MQ=40;FQ=118.016;PV4=3.86373e-20,4.24014e-07,1.26117e-44,1.85427e-05;ANN=T|synonymous_variant|LOW|NS1|GENE_NS1|transcript|TRANSCRIPT_NS1|protein_coding|1/1|c.489C>T|p.Tyr163Tyr|489/1605|489/1605|163/534||WARNING_TRANSCRIPT_NO_STOP_CODON,T|upstream_gene_variant|MODIFIER|NS2|GENE_NS2|transcript|TRANSCRIPT_NS2|protein_coding||c.-1117C>T|||||1117|WARNING_TRANSCRIPT_NO_START_CODON,T|upstream_gene_variant|MODIFIER|NS3|GENE_NS3|transcript|TRANSCRIPT_NS3|protein_coding||c.-3511C>T|||||3511|WARNING_TRANSCRIPT_NO_START_CODON,T|non_coding_transcript_variant|MODIFIER|EDEN.1|null|transcript|EDEN.1|protein_coding||||||||WARNING_TRANSCRIPT_NO_START_CODON","LOW","Synonymous","GT:PL","0/1:145,0,255"]
["KP164568_BHI3734_H804698_2014_08_26_Human_Brazil",850,".","G",804,{"$f":"E7*100/J7","v":72.3021582733813},"T",308,{"$f":"H7*100/J7","v":27.6978417266187},{"$f":"E7+H7","v":1112},63.0073,"PASS","DP=1111;VDB=0.0159834;SGB=-0.693147;RPB=1.90556e-08;MQB=0.438549;BQB=0.0126963;MQ0F=0;AF1=0.5;AC1=1;DP4=591,0,237,0;MQ=42;FQ=66.0155;PV4=1,0.020426,0.035421,1.40278e-11;ANN=T|missense_variant|MODERATE|NS1|GENE_NS1|transcript|TRANSCRIPT_NS1|protein_coding|1/1|c.773G>T|p.Trp258Leu|773/1605|773/1605|258/534||WARNING_TRANSCRIPT_NO_STOP_CODON,T|upstream_gene_variant|MODIFIER|NS2|GENE_NS2|transcript|TRANSCRIPT_NS2|protein_coding||c.-833G>T|||||833|WARNING_TRANSCRIPT_NO_START_CODON,T|upstream_gene_variant|MODIFIER|NS3|GENE_NS3|transcript|TRANSCRIPT_NS3|protein_coding||c.-3227G>T|||||3227|WARNING_TRANSCRIPT_NO_START_CODON,T|upstream_gene_variant|MODIFIER|NS4|GENE_NS4|transcript|TRANSCRIPT_NS4|protein_coding||c.-4817G>T|||||4817|WARNING_TRANSCRIPT_NO_START_CODON,T|non_coding_transcript_variant|MODIFIER|EDEN.1|null|transcript|EDEN.1|protein_coding||||||||WARNING_TRANSCRIPT_NO_START_CODON","MODERATE","Non-synonymous","GT:PL","0/1:93,0,216"]
["KP164568_BHI3734_H804698_2014_08_26_Human_Brazil",924,".","G",381,{"$f":"E8*100/J8","v":25.9360108917631},"T",1088,{"$f":"H8*100/J8","v":74.0639891082369},{"$f":"E8+H8","v":1469},225.009,"PASS","DP=1461;VDB=0.995982;SGB=-0.693147;RPB=0.00811432;MQB=0.66357;MQSB=0.980143;BQB=0.0392676;MQ0F=0;AF1=0.5;AC1=1;DP4=165,112,509,254;MQ=42;FQ=215.752;PV4=0.0396051,1,0.0343265,1;ANN=T|stop_gained|HIGH|NS1|GENE_NS1|transcript|TRANSCRIPT_NS1|protein_coding|1/1|c.847G>T|p.Glu283*|847/1605|847/1605|283/534||WARNING_TRANSCRIPT_NO_STOP_CODON,T|upstream_gene_variant|MODIFIER|NS2|GENE_NS2|transcript|TRANSCRIPT_NS2|protein_coding||c.-759G>T|||||759|WARNING_TRANSCRIPT_NO_START_CODON,T|upstream_gene_variant|MODIFIER|NS3|GENE_NS3|transcript|TRANSCRIPT_NS3|protein_coding||c.-3153G>T|||||3153|WARNING_TRANSCRIPT_NO_START_CODON,T|upstream_gene_variant|MODIFIER|NS4|GENE_NS4|transcript|TRANSCRIPT_NS4|protein_coding||c.-4743G>T|||||4743|WARNING_TRANSCRIPT_NO_START_CODON,T|non_coding_transcript_variant|MODIFIER|EDEN.1|null|transcript|EDEN.1|protein_coding||||||||WARNING_TRANSCRIPT_NO_START_CODON","HIGH","Stop codon","GT:PL","0/1:255,0,243"]
["KP164568_BHI3734_H804698_2014_08_26_Human_Brazil",3323,".","C",333,{"$f":"E9*100/J9","v":43.586387434555},"T",431,{"$f":"H9*100/J9","v":56.413612565445},{"$f":"E9+H9","v":764},225.009,"PASS","DP=758;VDB=0.00595587;SGB=-0.693147;RPB=0;MQB=0.618656;MQSB=0.650123;BQB=2.49167e-28;MQ0F=0;AF1=0.5;AC1=1;DP4=277,0,146,142;MQ=42;FQ=203.004;PV4=0,1,0.375621,1;ANN=T|synonymous_variant|LOW|NS2|GENE_NS2|transcript|TRANSCRIPT_NS2|protein_coding|1/1|c.1641C>T|p.Asn547Asn|1641/2394|1641/2394|547/797||WARNING_TRANSCRIPT_NO_START_CODON,T|upstream_gene_variant|MODIFIER|NS3|GENE_NS3|transcript|TRANSCRIPT_NS3|protein_coding||c.-754C>T|||||754|WARNING_TRANSCRIPT_NO_START_CODON,T|upstream_gene_variant|MODIFIER|NS4|GENE_NS4|transcript|TRANSCRIPT_NS4|protein_coding||c.-2344C>T|||||2344|WARNING_TRANSCRIPT_NO_START_CODON,T|upstream_gene_variant|MODIFIER|capsid|GENE_capsid|transcript|TRANSCRIPT_capsid|protein_coding||c.-4245C>T|||||4245|WARNING_TRANSCRIPT_NO_STOP_CODON,T|downstream_gene_variant|MODIFIER|NS1|GENE_NS1|transcript|TRANSCRIPT_NS1|protein_coding||c.*1641C>T|||||1641|WARNING_TRANSCRIPT_NO_STOP_CODON,T|non_coding_transcript_variant|MODIFIER|EDEN.1|null|transcript|EDEN.1|protein_coding||||||||WARNING_TRANSCRIPT_NO_START_CODON","LOW","Synonymous","GT:PL","0/1:255,0,230"]
["KP164568_BHI3734_H804698_2014_08_26_Human_Brazil",3491,".","G",57,{"$f":"E10*100/J10","v":2.01841359773371},"A",2767,{"$f":"H10*100/J10","v":97.9815864022663},{"$f":"E10+H10","v":2824},221.999,"PASS","DP=2816;VDB=0.056663;SGB=-0.693147;RPB=4.88684e-27;MQB=6.75255e-30;MQSB=0.00418299;BQB=1.58719e-13;MQ0F=0.00639205;AF1=1;AC1=2;DP4=9,37,937,974;MQ=41;FQ=-281.989;PV4=6.85472e-05,1,1,1;ANN=A|synonymous_variant|LOW|NS2|GENE_NS2|transcript|TRANSCRIPT_NS2|protein_coding|1/1|c.1809G>A|p.Pro603Pro|1809/2394|1809/2394|603/797||WARNING_TRANSCRIPT_NO_START_CODON,A|upstream_gene_variant|MODIFIER|NS3|GENE_NS3|transcript|TRANSCRIPT_NS3|protein_coding||c.-586G>A|||||586|WARNING_TRANSCRIPT_NO_START_CODON,A|upstream_gene_variant|MODIFIER|NS4|GENE_NS4|transcript|TRANSCRIPT_NS4|protein_coding||c.-2176G>A|||||2176|WARNING_TRANSCRIPT_NO_START_CODON,A|upstream_gene_variant|MODIFIER|capsid|GENE_capsid|transcript|TRANSCRIPT_capsid|protein_coding||c.-4077G>A|||||4077|WARNING_TRANSCRIPT_NO_STOP_CODON,A|upstream_gene_variant|MODIFIER|E3|GENE_E3|transcript|TRANSCRIPT_E3|protein_coding||c.-4869G>A|||||4869|WARNING_TRANSCRIPT_NO_START_CODON,A|downstream_gene_variant|MODIFIER|NS1|GENE_NS1|transcript|TRANSCRIPT_NS1|protein_coding||c.*1809G>A|||||1809|WARNING_TRANSCRIPT_NO_STOP_CODON,A|non_coding_transcript_variant|MODIFIER|EDEN.1|null|transcript|EDEN.1|protein_coding||||||||WARNING_TRANSCRIPT_NO_START_CODON","LOW","Synonymous","GT:PL","1/1:255,255,0"]
["KP164568_BHI3734_H804698_2014_08_26_Human_Brazil",3599,".","C",760,{"$f":"E11*100/J11","v":76.4587525150905},"T",234,{"$f":"H11*100/J11","v":23.5412474849095},{"$f":"E11+H11","v":994},145.008,"PASS","DP=998;VDB=0;SGB=-0.693147;RPB=0;MQB=8.4897e-18;MQSB=4.04656e-07;BQB=8.97885e-23;MQ0F=0;AF1=0.5;AC1=1;DP4=587,7,41,155;MQ=41;FQ=148.017;PV4=0,3.64939e-05,4.32163e-25,0;ANN=T|synonymous_variant|LOW|NS2|GENE_NS2|transcript|TRANSCRIPT_NS2|protein_coding|1/1|c.1917C>T|p.Val639Val|1917/2394|1917/2394|639/797||WARNING_TRANSCRIPT_NO_START_CODON,T|upstream_gene_variant|MODIFIER|NS3|GENE_NS3|transcript|TRANSCRIPT_NS3|protein_coding||c.-478C>T|||||478|WARNING_TRANSCRIPT_NO_START_CODON,T|upstream_gene_variant|MODIFIER|NS4|GENE_NS4|transcript|TRANSCRIPT_NS4|protein_coding||c.-2068C>T|||||2068|WARNING_TRANSCRIPT_NO_START_CODON,T|upstream_gene_variant|MODIFIER|capsid|GENE_capsid|transcript|TRANSCRIPT_capsid|protein_coding||c.-3969C>T|||||3969|WARNING_TRANSCRIPT_NO_STOP_CODON,T|upstream_gene_variant|MODIFIER|E3|GENE_E3|transcript|TRANSCRIPT_E3|protein_coding||c.-4761C>T|||||4761|WARNING_TRANSCRIPT_NO_START_CODON,T|upstream_gene_variant|MODIFIER|E2|GENE_E2|transcript|TRANSCRIPT_E2|protein_coding||c.-4944C>T|||||4944|WARNING_TRANSCRIPT_NO_START_CODON,T|downstream_gene_variant|MODIFIER|NS1|GENE_NS1|transcript|TRANSCRIPT_NS1|protein_coding||c.*1917C>T|||||1917|WARNING_TRANSCRIPT_NO_STOP_CODON,T|non_coding_transcript_variant|MODIFIER|EDEN.1|null|transcript|EDEN.1|protein_coding||||||||WARNING_TRANSCRIPT_NO_START_CODON","LOW","Synonymous","GT:PL","0/1:175,0,255"]
["KP164568_BHI3734_H804698_2014_08_26_Human_Brazil",3812,".","T",1,{"$f":"E12*100/J12","v":0.0779423226812159},"C",1282,{"$f":"H12*100/J12","v":99.9220576773188},{"$f":"E12+H12","v":1283},221.999,"PASS","DP=1280;VDB=0.0254129;SGB=-0.693147;RPB=1;MQB=1;MQSB=0.752564;BQB=1;MQ0F=0;AF1=1;AC1=2;DP4=0,1,352,571;MQ=42;FQ=-281.989;PV4=1,1,0.472613,1;ANN=C|synonymous_variant|LOW|NS2|GENE_NS2|transcript|TRANSCRIPT_NS2|protein_coding|1/1|c.2130T>C|p.Gly710Gly|2130/2394|2130/2394|710/797||WARNING_TRANSCRIPT_NO_START_CODON,C|upstream_gene_variant|MODIFIER|NS3|GENE_NS3|transcript|TRANSCRIPT_NS3|protein_coding||c.-265T>C|||||265|WARNING_TRANSCRIPT_NO_START_CODON,C|upstream_gene_variant|MODIFIER|NS4|GENE_NS4|transcript|TRANSCRIPT_NS4|protein_coding||c.-1855T>C|||||1855|WARNING_TRANSCRIPT_NO_START_CODON,C|upstream_gene_variant|MODIFIER|capsid|GENE_capsid|transcript|TRANSCRIPT_capsid|protein_coding||c.-3756T>C|||||3756|WARNING_TRANSCRIPT_NO_STOP_CODON,C|upstream_gene_variant|MODIFIER|E3|GENE_E3|transcript|TRANSCRIPT_E3|protein_coding||c.-4548T>C|||||4548|WARNING_TRANSCRIPT_NO_START_CODON,C|upstream_gene_variant|MODIFIER|E2|GENE_E2|transcript|TRANSCRIPT_E2|protein_coding||c.-4731T>C|||||4731|WARNING_TRANSCRIPT_NO_START_CODON,C|downstream_gene_variant|MODIFIER|NS1|GENE_NS1|transcript|TRANSCRIPT_NS1|protein_coding||c.*2130T>C|||||2130|WARNING_TRANSCRIPT_NO_STOP_CODON,C|non_coding_transcript_variant|MODIFIER|EDEN.1|null|transcript|EDEN.1|protein_coding||||||||WARNING_TRANSCRIPT_NO_START_CODON","LOW","Synonymous","GT:PL","1/1:255,255,0"]
["KP164568_BHI3734_H804698_2014_08_26_Human_Brazil",5094,null,"C",636,{"$f":"E13*100/J13","v":78.3251231527094},"G",176,{"$f":"H13*100/J13","v":21.6748768472906},{"$f":"E13+H13","v":812},null,null,"Leu -> Val","MODERATE","Non-synonymous"]
["KP164568_BHI3734_H804698_2014_08_26_Human_Brazil",7648,".","A",2959,{"$f":"E14*100/J14","v":83.7294850028296},"C",575,{"$f":"H14*100/J14","v":16.2705149971703},{"$f":"E14+H14","v":3534},46.0072,"PASS","DP=3483;VDB=1;SGB=-0.693147;RPB=0.974631;MQB=1.18093e-07;MQSB=0.989681;BQB=2.63822e-32;MQ0F=0.000574218;AF1=0.5;AC1=1;DP4=1737,668,265,224;MQ=42;FQ=49.0153;PV4=2.1645e-14,9.66952e-07,7.55531e-24,0;ANN=C|synonymous_variant|LOW|capsid|GENE_capsid|transcript|TRANSCRIPT_capsid|protein_coding|1/1|c.81A>C|p.Val27Val|81/792|81/792|27/263||WARNING_TRANSCRIPT_NO_STOP_CODON,C|upstream_gene_variant|MODIFIER|E3|GENE_E3|transcript|TRANSCRIPT_E3|protein_coding||c.-712A>C|||||712|WARNING_TRANSCRIPT_NO_START_CODON,C|upstream_gene_variant|MODIFIER|E2|GENE_E2|transcript|TRANSCRIPT_E2|protein_coding||c.-895A>C|||||895|WARNING_TRANSCRIPT_NO_START_CODON,C|upstream_gene_variant|MODIFIER|6K|GENE_6K|transcript|TRANSCRIPT_6K|protein_coding||c.-2164A>C|||||2164|WARNING_TRANSCRIPT_NO_START_CODON,C|upstream_gene_variant|MODIFIER|E1|GENE_E1|transcript|TRANSCRIPT_E1|protein_coding||c.-2347A>C|||||2347|WARNING_TRANSCRIPT_NO_START_CODON,C|downstream_gene_variant|MODIFIER|NS2|GENE_NS2|transcript|TRANSCRIPT_NS2|protein_coding||c.*3572A>C|||||3572|WARNING_TRANSCRIPT_NO_START_CODON,C|downstream_gene_variant|MODIFIER|NS3|GENE_NS3|transcript|TRANSCRIPT_NS3|protein_coding||c.*2000A>C|||||2000|WARNING_TRANSCRIPT_NO_START_CODON,C|downstream_gene_variant|MODIFIER|NS4|GENE_NS4|transcript|TRANSCRIPT_NS4|protein_coding||c.*149A>C|||||149|WARNING_TRANSCRIPT_NO_START_CODON,C|non_coding_transcript_variant|MODIFIER|EDEN.1|null|transcript|EDEN.1|protein_coding||||||||WARNING_TRANSCRIPT_NO_START_CODON","LOW","Synonymous","GT:PL","0/1:76,0,255"]
["KP164568_BHI3734_H804698_2014_08_26_Human_Brazil",7654,".","G",3073,{"$f":"E15*100/J15","v":78.4729315628192},"A",843,{"$f":"H15*100/J15","v":21.5270684371808},{"$f":"E15+H15","v":3916},138.008,"PASS","DP=3860;VDB=0.999633;SGB=-0.693147;RPB=0;MQB=2.09809e-05;MQSB=0.998033;BQB=1.02367e-34;MQ0F=0.000518135;AF1=0.5;AC1=1;DP4=1883,563,557,167;MQ=42;FQ=141.016;PV4=1,3.24979e-11,3.71751e-20,0;ANN=A|synonymous_variant|LOW|capsid|GENE_capsid|transcript|TRANSCRIPT_capsid|protein_coding|1/1|c.87G>A|p.Arg29Arg|87/792|87/792|29/263||WARNING_TRANSCRIPT_NO_STOP_CODON,A|upstream_gene_variant|MODIFIER|E3|GENE_E3|transcript|TRANSCRIPT_E3|protein_coding||c.-706G>A|||||706|WARNING_TRANSCRIPT_NO_START_CODON,A|upstream_gene_variant|MODIFIER|E2|GENE_E2|transcript|TRANSCRIPT_E2|protein_coding||c.-889G>A|||||889|WARNING_TRANSCRIPT_NO_START_CODON,A|upstream_gene_variant|MODIFIER|6K|GENE_6K|transcript|TRANSCRIPT_6K|protein_coding||c.-2158G>A|||||2158|WARNING_TRANSCRIPT_NO_START_CODON,A|upstream_gene_variant|MODIFIER|E1|GENE_E1|transcript|TRANSCRIPT_E1|protein_coding||c.-2341G>A|||||2341|WARNING_TRANSCRIPT_NO_START_CODON,A|downstream_gene_variant|MODIFIER|NS2|GENE_NS2|transcript|TRANSCRIPT_NS2|protein_coding||c.*3578G>A|||||3578|WARNING_TRANSCRIPT_NO_START_CODON,A|downstream_gene_variant|MODIFIER|NS3|GENE_NS3|transcript|TRANSCRIPT_NS3|protein_coding||c.*2006G>A|||||2006|WARNING_TRANSCRIPT_NO_START_CODON,A|downstream_gene_variant|MODIFIER|NS4|GENE_NS4|transcript|TRANSCRIPT_NS4|protein_coding||c.*155G>A|||||155|WARNING_TRANSCRIPT_NO_START_CODON,A|non_coding_transcript_variant|MODIFIER|EDEN.1|null|transcript|EDEN.1|protein_coding||||||||WARNING_TRANSCRIPT_NO_START_CODON","LOW","Synonymous","GT:PL","0/1:168,0,255"]
["KP164568_BHI3734_H804698_2014_08_26_Human_Brazil",8484,".","C",23,{"$f":"E16*100/J16","v":1.31054131054131},"A",1732,{"$f":"H16*100/J16","v":98.6894586894587},{"$f":"E16+H16","v":1755},221.999,"PASS","DP=1747;VDB=0.907507;SGB=-0.693147;RPB=0.201997;MQB=0.851317;MQSB=3.01486e-09;BQB=0.998953;MQ0F=0;AF1=1;AC1=2;DP4=12,5,837,540;MQ=41;FQ=-281.989;PV4=0.464604,1,0.222373,1;ANN=A|missense_variant|MODERATE|E3|GENE_E3|transcript|TRANSCRIPT_E3|protein_coding|1/1|c.125C>A|p.Pro42His|125/183|125/183|42/60||WARNING_TRANSCRIPT_NO_START_CODON,A|upstream_gene_variant|MODIFIER|E2|GENE_E2|transcript|TRANSCRIPT_E2|protein_coding||c.-59C>A|||||59|WARNING_TRANSCRIPT_NO_START_CODON,A|upstream_gene_variant|MODIFIER|6K|GENE_6K|transcript|TRANSCRIPT_6K|protein_coding||c.-1328C>A|||||1328|WARNING_TRANSCRIPT_NO_START_CODON,A|upstream_gene_variant|MODIFIER|E1|GENE_E1|transcript|TRANSCRIPT_E1|protein_coding||c.-1511C>A|||||1511|WARNING_TRANSCRIPT_NO_START_CODON,A|downstream_gene_variant|MODIFIER|NS2|GENE_NS2|transcript|TRANSCRIPT_NS2|protein_coding||c.*4408C>A|||||4408|WARNING_TRANSCRIPT_NO_START_CODON,A|downstream_gene_variant|MODIFIER|NS3|GENE_NS3|transcript|TRANSCRIPT_NS3|protein_coding||c.*2836C>A|||||2836|WARNING_TRANSCRIPT_NO_START_CODON,A|downstream_gene_variant|MODIFIER|NS4|GENE_NS4|transcript|TRANSCRIPT_NS4|protein_coding||c.*985C>A|||||985|WARNING_TRANSCRIPT_NO_START_CODON,A|downstream_gene_variant|MODIFIER|capsid|GENE_capsid|transcript|TRANSCRIPT_capsid|protein_coding||c.*125C>A|||||125|WARNING_TRANSCRIPT_NO_STOP_CODON,A|non_coding_transcript_variant|MODIFIER|EDEN.1|null|transcript|EDEN.1|protein_coding||||||||WARNING_TRANSCRIPT_NO_START_CODON","MODERATE","Non-synonymous","GT:PL","1/1:255,255,0"]
["KP164568_BHI3734_H804698_2014_08_26_Human_Brazil",8521,".","T",11,{"$f":"E17*100/J17","v":0.586666666666667},"C",1864,{"$f":"H17*100/J17","v":99.4133333333333},{"$f":"E17+H17","v":1875},221.999,"PASS","DP=1860;VDB=0.703604;SGB=-0.693147;RPB=0.994895;MQB=0.80711;MQSB=0.00135848;BQB=0.995298;MQ0F=0;AF1=1;AC1=2;DP4=5,5,766,701;MQ=41;FQ=-281.989;PV4=1,1,0.265512,0.115549;ANN=C|synonymous_variant|LOW|E3|GENE_E3|transcript|TRANSCRIPT_E3|protein_coding|1/1|c.162T>C|p.Cys54Cys|162/183|162/183|54/60||WARNING_TRANSCRIPT_NO_START_CODON,C|upstream_gene_variant|MODIFIER|E2|GENE_E2|transcript|TRANSCRIPT_E2|protein_coding||c.-22T>C|||||22|WARNING_TRANSCRIPT_NO_START_CODON,C|upstream_gene_variant|MODIFIER|6K|GENE_6K|transcript|TRANSCRIPT_6K|protein_coding||c.-1291T>C|||||1291|WARNING_TRANSCRIPT_NO_START_CODON,C|upstream_gene_variant|MODIFIER|E1|GENE_E1|transcript|TRANSCRIPT_E1|protein_coding||c.-1474T>C|||||1474|WARNING_TRANSCRIPT_NO_START_CODON,C|downstream_gene_variant|MODIFIER|NS2|GENE_NS2|transcript|TRANSCRIPT_NS2|protein_coding||c.*4445T>C|||||4445|WARNING_TRANSCRIPT_NO_START_CODON,C|downstream_gene_variant|MODIFIER|NS3|GENE_NS3|transcript|TRANSCRIPT_NS3|protein_coding||c.*2873T>C|||||2873|WARNING_TRANSCRIPT_NO_START_CODON,C|downstream_gene_variant|MODIFIER|NS4|GENE_NS4|transcript|TRANSCRIPT_NS4|protein_coding||c.*1022T>C|||||1022|WARNING_TRANSCRIPT_NO_START_CODON,C|downstream_gene_variant|MODIFIER|capsid|GENE_capsid|transcript|TRANSCRIPT_capsid|protein_coding||c.*162T>C|||||162|WARNING_TRANSCRIPT_NO_STOP_CODON,C|non_coding_transcript_variant|MODIFIER|EDEN.1|null|transcript|EDEN.1|protein_coding||||||||WARNING_TRANSCRIPT_NO_START_CODON","LOW","Synonymous","GT:PL","1/1:255,255,0"]
["KP164568_BHI3734_H804698_2014_08_26_Human_Brazil",8588,".","T",670,{"$f":"E18*100/J18","v":56.1139028475712},"C",524,{"$f":"H18*100/J18","v":43.8860971524288},{"$f":"E18+H18","v":1194},225.009,"PASS","DP=1198;VDB=1;SGB=-0.693147;RPB=2.32687e-31;MQB=0.289358;MQSB=0.207542;BQB=1.74074e-08;MQ0F=0.00417362;AF1=0.5;AC1=1;DP4=290,250,333,116;MQ=42;FQ=225.007;PV4=3.03939e-11,0.0268224,1,0;ANN=C|synonymous_variant|LOW|E2|GENE_E2|transcript|TRANSCRIPT_E2|protein_coding|1/1|c.46T>C|p.Leu16Leu|46/1269|46/1269|16/422||WARNING_TRANSCRIPT_NO_START_CODON,C|upstream_gene_variant|MODIFIER|6K|GENE_6K|transcript|TRANSCRIPT_6K|protein_coding||c.-1224T>C|||||1224|WARNING_TRANSCRIPT_NO_START_CODON,C|upstream_gene_variant|MODIFIER|E1|GENE_E1|transcript|TRANSCRIPT_E1|protein_coding||c.-1407T>C|||||1407|WARNING_TRANSCRIPT_NO_START_CODON,C|downstream_gene_variant|MODIFIER|NS2|GENE_NS2|transcript|TRANSCRIPT_NS2|protein_coding||c.*4512T>C|||||4512|WARNING_TRANSCRIPT_NO_START_CODON,C|downstream_gene_variant|MODIFIER|NS3|GENE_NS3|transcript|TRANSCRIPT_NS3|protein_coding||c.*2940T>C|||||2940|WARNING_TRANSCRIPT_NO_START_CODON,C|downstream_gene_variant|MODIFIER|NS4|GENE_NS4|transcript|TRANSCRIPT_NS4|protein_coding||c.*1089T>C|||||1089|WARNING_TRANSCRIPT_NO_START_CODON,C|downstream_gene_variant|MODIFIER|capsid|GENE_capsid|transcript|TRANSCRIPT_capsid|protein_coding||c.*229T>C|||||229|WARNING_TRANSCRIPT_NO_STOP_CODON,C|downstream_gene_variant|MODIFIER|E3|GENE_E3|transcript|TRANSCRIPT_E3|protein_coding||c.*46T>C|||||46|WARNING_TRANSCRIPT_NO_START_CODON,C|non_coding_transcript_variant|MODIFIER|EDEN.1|null|transcript|EDEN.1|protein_coding||||||||WARNING_TRANSCRIPT_NO_START_CODON","LOW","Synonymous","GT:PL","0/1:255,0,255"]
["KP164568_BHI3734_H804698_2014_08_26_Human_Brazil",9400,".","A",76,{"$f":"E19*100/J19","v":34.0807174887892},"G",147,{"$f":"H19*100/J19","v":65.9192825112108},{"$f":"E19+H19","v":223},225.009,"PASS","DP=220;VDB=8.49477e-17;SGB=-0.693147;RPB=3.59699e-05;MQB=0.828174;MQSB=0.0155724;BQB=0.780535;MQ0F=0.0181818;AF1=0.5;AC1=1;DP4=28,31,39,82;MQ=41;FQ=225.007;PV4=0.0509095,0.221413,0.13841,1.02458e-06;ANN=G|synonymous_variant|LOW|E2|GENE_E2|transcript|TRANSCRIPT_E2|protein_coding|1/1|c.858A>G|p.Leu286Leu|858/1269|858/1269|286/422||WARNING_TRANSCRIPT_NO_START_CODON,G|upstream_gene_variant|MODIFIER|6K|GENE_6K|transcript|TRANSCRIPT_6K|protein_coding||c.-412A>G|||||412|WARNING_TRANSCRIPT_NO_START_CODON,G|upstream_gene_variant|MODIFIER|E1|GENE_E1|transcript|TRANSCRIPT_E1|protein_coding||c.-595A>G|||||595|WARNING_TRANSCRIPT_NO_START_CODON,G|downstream_gene_variant|MODIFIER|NS3|GENE_NS3|transcript|TRANSCRIPT_NS3|protein_coding||c.*3752A>G|||||3752|WARNING_TRANSCRIPT_NO_START_CODON,G|downstream_gene_variant|MODIFIER|NS4|GENE_NS4|transcript|TRANSCRIPT_NS4|protein_coding||c.*1901A>G|||||1901|WARNING_TRANSCRIPT_NO_START_CODON,G|downstream_gene_variant|MODIFIER|capsid|GENE_capsid|transcript|TRANSCRIPT_capsid|protein_coding||c.*1041A>G|||||1041|WARNING_TRANSCRIPT_NO_STOP_CODON,G|downstream_gene_variant|MODIFIER|E3|GENE_E3|transcript|TRANSCRIPT_E3|protein_coding||c.*858A>G|||||858|WARNING_TRANSCRIPT_NO_START_CODON,G|non_coding_transcript_variant|MODIFIER|EDEN.1|null|transcript|EDEN.1|protein_coding||||||||WARNING_TRANSCRIPT_NO_START_CODON","LOW","Synonymous","GT:PL","0/1:255,0,255"]
["KP164568_BHI3734_H804698_2014_08_26_Human_Brazil",10600,".","T",199,{"$f":"E20*100/J20","v":39.0962671905697},"C",310,{"$f":"H20*100/J20","v":60.9037328094303},{"$f":"E20+H20","v":509},225.009,"PASS","DP=496;VDB=0;SGB=-0.693147;RPB=2.84494e-10;MQB=0.999841;MQSB=0.426507;BQB=0.0568883;MQ0F=0.0282258;AF1=0.5;AC1=1;DP4=71,71,228,18;MQ=41;FQ=225.007;PV4=1.35561e-21,0.0246264,1,1.19627e-17;ANN=C|synonymous_variant|LOW|E1|GENE_E1|transcript|TRANSCRIPT_E1|protein_coding|1/1|c.606T>C|p.Asp202Asp|606/1317|606/1317|202/438||WARNING_TRANSCRIPT_NO_START_CODON,C|downstream_gene_variant|MODIFIER|NS3|GENE_NS3|transcript|TRANSCRIPT_NS3|protein_coding||c.*4952T>C|||||4952|WARNING_TRANSCRIPT_NO_START_CODON,C|downstream_gene_variant|MODIFIER|NS4|GENE_NS4|transcript|TRANSCRIPT_NS4|protein_coding||c.*3101T>C|||||3101|WARNING_TRANSCRIPT_NO_START_CODON,C|downstream_gene_variant|MODIFIER|capsid|GENE_capsid|transcript|TRANSCRIPT_capsid|protein_coding||c.*2241T>C|||||2241|WARNING_TRANSCRIPT_NO_STOP_CODON,C|downstream_gene_variant|MODIFIER|E3|GENE_E3|transcript|TRANSCRIPT_E3|protein_coding||c.*2058T>C|||||2058|WARNING_TRANSCRIPT_NO_START_CODON,C|downstream_gene_variant|MODIFIER|E2|GENE_E2|transcript|TRANSCRIPT_E2|protein_coding||c.*789T>C|||||789|WARNING_TRANSCRIPT_NO_START_CODON,C|downstream_gene_variant|MODIFIER|6K|GENE_6K|transcript|TRANSCRIPT_6K|protein_coding||c.*606T>C|||||606|WARNING_TRANSCRIPT_NO_START_CODON,C|non_coding_transcript_variant|MODIFIER|EDEN.1|null|transcript|EDEN.1|protein_coding||||||||WARNING_TRANSCRIPT_NO_START_CODON","LOW","Synonymous","GT:PL","0/1:255,0,255"]
["KP164568_BHI3734_H804698_2014_08_26_Human_Brazil",11124,".","T",179,{"$f":"E21*100/J21","v":52.3391812865497},"C",163,{"$f":"H21*100/J21","v":47.6608187134503},{"$f":"E21+H21","v":342},225.009,"PASS","DP=338;VDB=0;SGB=-0.693147;RPB=0.80309;MQB=0.126153;MQSB=0.48094;BQB=8.66411e-26;MQ0F=0;AF1=0.5;AC1=1;DP4=87,6,139,3;MQ=41;FQ=225.007;PV4=0.160571,0,0.0358234,0.011691;ANN=C|missense_variant|MODERATE|E1|GENE_E1|transcript|TRANSCRIPT_E1|protein_coding|1/1|c.1130T>C|p.Val377Ala|1130/1317|1130/1317|377/438||WARNING_TRANSCRIPT_NO_START_CODON,C|downstream_gene_variant|MODIFIER|NS4|GENE_NS4|transcript|TRANSCRIPT_NS4|protein_coding||c.*3625T>C|||||3625|WARNING_TRANSCRIPT_NO_START_CODON,C|downstream_gene_variant|MODIFIER|capsid|GENE_capsid|transcript|TRANSCRIPT_capsid|protein_coding||c.*2765T>C|||||2765|WARNING_TRANSCRIPT_NO_STOP_CODON,C|downstream_gene_variant|MODIFIER|E3|GENE_E3|transcript|TRANSCRIPT_E3|protein_coding||c.*2582T>C|||||2582|WARNING_TRANSCRIPT_NO_START_CODON,C|downstream_gene_variant|MODIFIER|E2|GENE_E2|transcript|TRANSCRIPT_E2|protein_coding||c.*1313T>C|||||1313|WARNING_TRANSCRIPT_NO_START_CODON,C|downstream_gene_variant|MODIFIER|6K|GENE_6K|transcript|TRANSCRIPT_6K|protein_coding||c.*1130T>C|||||1130|WARNING_TRANSCRIPT_NO_START_CODON,C|non_coding_transcript_variant|MODIFIER|EDEN.1|null|transcript|EDEN.1|protein_coding||||||||WARNING_TRANSCRIPT_NO_START_CODON","MODERATE","Non-synonymous","GT:PL","0/1:255,0,255"]

{"sheet":"53P41","index":5,"n_rows":142,"n_cols":17,"rows_kept":142,"cut":false,"hidden":false,"merged":[]}
["#CHROM","POS","ID","REF","Nº reads","BHI3734 reads support","ALT","Nº reads","PER160 reas support","Total reads","QUAL","FILTER","INFO","Impact","Nucleotide change","FORMAT","BHI3734_53P51.sorted.dupli.removed.bam"]
["KP164568_BHI3734_H804698_2014_08_26_Human_Brazil",359,".","C",8,{"$f":"E2*100/J2","v":1.40105078809107},"T",563,{"$f":"H2*100/J2","v":98.5989492119089},{"$f":"H2+E2","v":571},221.999,"PASS","DP=569;VDB=3.82733e-19;SGB=-0.693147;RPB=0.652345;MQB=0.00255669;MQSB=0.0024635;BQB=0.299701;MQ0F=0;AF1=1;AC1=2;DP4=6,0,479,14;MQ=24;FQ=-281.989;PV4=1,1,1.37787e-07,0.377443;ANN=T|synonymous_variant|LOW|NS1|GENE_NS1|transcript|TRANSCRIPT_NS1|protein_coding|1/1|c.282C>T|p.Ala94Ala|282/1605|282/1605|94/534||WARNING_TRANSCRIPT_NO_STOP_CODON,T|upstream_gene_variant|MODIFIER|NS2|GENE_NS2|transcript|TRANSCRIPT_NS2|protein_coding||c.-1324C>T|||||1324|WARNING_TRANSCRIPT_NO_START_CODON,T|upstream_gene_variant|MODIFIER|NS3|GENE_NS3|transcript|TRANSCRIPT_NS3|protein_coding||c.-3718C>T|||||3718|WARNING_TRANSCRIPT_NO_START_CODON,T|non_coding_transcript_variant|MODIFIER|EDEN.1|null|transcript|EDEN.1|protein_coding||||||||WARNING_TRANSCRIPT_NO_START_CODON","LOW","Synonymous","GT:PL","1/1:255,255,0"]
["KP164568_BHI3734_H804698_2014_08_26_Human_Brazil",377,".","A",7,{"$f":"E3*100/J3","v":0.958904109589041},"C",723,{"$f":"H3*100/J3","v":99.041095890411},{"$f":"H3+E3","v":730},221.999,"PASS","DP=729;VDB=8.74528e-06;SGB=-0.693147;RPB=0.500166;MQB=0.000500907;MQSB=0.000773059;BQB=0.998401;MQ0F=0.00137174;AF1=1;AC1=2;DP4=6,0,567,17;MQ=23;FQ=-281.989;PV4=1,1,4.09898e-11,1;ANN=C|synonymous_variant|LOW|NS1|GENE_NS1|transcript|TRANSCRIPT_NS1|protein_coding|1/1|c.300A>C|p.Leu100Leu|300/1605|300/1605|100/534||WARNING_TRANSCRIPT_NO_STOP_CODON,C|upstream_gene_variant|MODIFIER|NS2|GENE_NS2|transcript|TRANSCRIPT_NS2|protein_coding||c.-1306A>C|||||1306|WARNING_TRANSCRIPT_NO_START_CODON,C|upstream_gene_variant|MODIFIER|NS3|GENE_NS3|transcript|TRANSCRIPT_NS3|protein_coding||c.-3700A>C|||||3700|WARNING_TRANSCRIPT_NO_START_CODON,C|non_coding_transcript_variant|MODIFIER|EDEN.1|null|transcript|EDEN.1|protein_coding||||||||WARNING_TRANSCRIPT_NO_START_CODON","LOW","Synonymous","GT:PL","1/1:255,255,0"]
["KP164568_BHI3734_H804698_2014_08_26_Human_Brazil",386,".","T",6,{"$f":"E4*100/J4","v":0.77720207253886},"C",766,{"$f":"H4*100/J4","v":99.2227979274611},{"$f":"H4+E4","v":772},221.999,"PASS","DP=770;VDB=0.0078075;SGB=-0.693147;RPB=0.918905;MQB=0.000624522;MQSB=0.00269056;BQB=0.940767;MQ0F=0.0012987;AF1=1;AC1=2;DP4=4,1,588,23;MQ=23;FQ=-281.989;PV4=0.180748,1,9.25301e-12,1;ANN=C|synonymous_variant|LOW|NS1|GENE_NS1|transcript|TRANSCRIPT_NS1|protein_coding|1/1|c.309T>C|p.Ala103Ala|309/1605|309/1605|103/534||WARNING_TRANSCRIPT_NO_STOP_CODON,C|upstream_gene_variant|MODIFIER|NS2|GENE_NS2|transcript|TRANSCRIPT_NS2|protein_coding||c.-1297T>C|||||1297|WARNING_TRANSCRIPT_NO_START_CODON,C|upstream_gene_variant|MODIFIER|NS3|GENE_NS3|transcript|TRANSCRIPT_NS3|protein_coding||c.-3691T>C|||||3691|WARNING_TRANSCRIPT_NO_START_CODON,C|non_coding_transcript_variant|MODIFIER|EDEN.1|null|transcript|EDEN.1|protein_coding||||||||WARNING_TRANSCRIPT_NO_START_CODON","LOW","Synonymous","GT:PL","1/1:255,255,0"]
["KP164568_BHI3734_H804698_2014_08_26_Human_Brazil",413,".","C",8,{"$f":"E5*100/J5","v":0.968523002421308},"T",818,{"$f":"H5*100/J5","v":99.0314769975787},{"$f":"H5+E5","v":826},221.999,"PASS","DP=826;VDB=0.998232;SGB=-0.693147;RPB=0.756783;MQB=0.000647355;MQSB=1.43915e-07;BQB=0.99868;MQ0F=0.0108959;AF1=1;AC1=2;DP4=3,2,533,127;MQ=21;FQ=-281.989;PV4=0.250104,0.208325,7.38739e-10,1;ANN=T|synonymous_variant|LOW|NS1|GENE_NS1|transcript|TRANSCRIPT_NS1|protein_coding|1/1|c.336C>T|p.Ile112Ile|336/1605|336/1605|112/534||WARNING_TRANSCRIPT_NO_STOP_CODON,T|upstream_gene_variant|MODIFIER|NS2|GENE_NS2|transcript|TRANSCRIPT_NS2|protein_coding||c.-1270C>T|||||1270|WARNING_TRANSCRIPT_NO_START_CODON,T|upstream_gene_variant|MODIFIER|NS3|GENE_NS3|transcript|TRANSCRIPT_NS3|protein_coding||c.-3664C>T|||||3664|WARNING_TRANSCRIPT_NO_START_CODON,T|non_coding_transcript_variant|MODIFIER|EDEN.1|null|transcript|EDEN.1|protein_coding||||||||WARNING_TRANSCRIPT_NO_START_CODON","LOW","Synonymous","GT:PL","1/1:255,255,0"]
["KP164568_BHI3734_H804698_2014_08_26_Human_Brazil",439,".","C",6,{"$f":"E6*100/J6","v":0.54005400540054},"A",1105,{"$f":"H6*100/J6","v":99.4599459945995},{"$f":"H6+E6","v":1111},203.999,"PASS","DP=1159;VDB=0.94457;SGB=-0.693147;RPB=0.385382;MQB=0.011349;MQSB=4.59076e-14;BQB=0.998369;MQ0F=0.0267472;AF1=1;AC1=2;DP4=2,1,558,280;MQ=19;FQ=-281.989;PV4=1,1,2.16068e-07,1;ANN=A|missense_variant|MODERATE|NS1|GENE_NS1|transcript|TRANSCRIPT_NS1|protein_coding|1/1|c.362C>A|p.Ala121Glu|362/1605|362/1605|121/534||WARNING_TRANSCRIPT_NO_STOP_CODON,A|upstream_gene_variant|MODIFIER|NS2|GENE_NS2|transcript|TRANSCRIPT_NS2|protein_coding||c.-1244C>A|||||1244|WARNING_TRANSCRIPT_NO_START_CODON,A|upstream_gene_variant|MODIFIER|NS3|GENE_NS3|transcript|TRANSCRIPT_NS3|protein_coding||c.-3638C>A|||||3638|WARNING_TRANSCRIPT_NO_START_CODON,A|non_coding_transcript_variant|MODIFIER|EDEN.1|null|transcript|EDEN.1|protein_coding||||||||WARNING_TRANSCRIPT_NO_START_CODON","MODERATE","Non-synonymous","GT:PL","1/1:237,255,0"]
["KP164568_BHI3734_H804698_2014_08_26_Human_Brazil",440,".","A",3,{"$f":"E7*100/J7","v":0.25273799494524},"G",1184,{"$f":"H7*100/J7","v":99.7472620050548},{"$f":"H7+E7","v":1187},209.999,"PASS","DP=1188;VDB=0.868559;SGB=-0.693147;RPB=0.707807;MQB=0;MQSB=3.42272e-13;BQB=0.926521;MQ0F=0.0260943;AF1=1;AC1=2;DP4=1,1,575,296;MQ=19;FQ=-281.989;PV4=1,0.347859,1.62847e-05,1;ANN=G|synonymous_variant|LOW|NS1|GENE_NS1|transcript|TRANSCRIPT_NS1|protein_coding|1/1|c.363A>G|p.Ala121Ala|363/1605|363/1605|121/534||WARNING_TRANSCRIPT_NO_STOP_CODON,G|upstream_gene_variant|MODIFIER|NS2|GENE_NS2|transcript|TRANSCRIPT_NS2|protein_coding||c.-1243A>G|||||1243|WARNING_TRANSCRIPT_NO_START_CODON,G|upstream_gene_variant|MODIFIER|NS3|GENE_NS3|transcript|TRANSCRIPT_NS3|protein_coding||c.-3637A>G|||||3637|WARNING_TRANSCRIPT_NO_START_CODON,G|non_coding_transcript_variant|MODIFIER|EDEN.1|null|transcript|EDEN.1|protein_coding||||||||WARNING_TRANSCRIPT_NO_START_CODON","LOW","Synonymous","GT:PL","1/1:243,255,0"]
["KP164568_BHI3734_H804698_2014_08_26_Human_Brazil",443,".","A",3,{"$f":"E8*100/J8","v":0.240192153722978},"G",1246,{"$f":"H8*100/J8","v":99.759807846277},{"$f":"H8+E8","v":1249},217.999,"PASS","DP=1249;VDB=0.621685;SGB=-0.693147;RPB=0.607744;MQB=0;MQSB=1.12042e-13;BQB=0.810326;MQ0F=0.0248199;AF1=1;AC1=2;DP4=1,1,585,306;MQ=19;FQ=-281.989;PV4=1,1,2.01573e-05,1;ANN=G|synonymous_variant|LOW|NS1|GENE_NS1|transcript|TRANSCRIPT_NS1|protein_coding|1/1|c.366A>G|p.Val122Val|366/1605|366/1605|122/534||WARNING_TRANSCRIPT_NO_STOP_CODON,G|upstream_gene_variant|MODIFIER|NS2|GENE_NS2|transcript|TRANSCRIPT_NS2|protein_coding||c.-1240A>G|||||1240|WARNING_TRANSCRIPT_NO_START_CODON,G|upstream_gene_variant|MODIFIER|NS3|GENE_NS3|transcript|TRANSCRIPT_NS3|protein_coding||c.-3634A>G|||||3634|WARNING_TRANSCRIPT_NO_START_CODON,G|non_coding_transcript_variant|MODIFIER|EDEN.1|null|transcript|EDEN.1|protein_coding||||||||WARNING_TRANSCRIPT_NO_START_CODON","LOW","Synonymous","GT:PL","1/1:251,255,0"]
["KP164568_BHI3734_H804698_2014_08_26_Human_Brazil",476,".","C",4,{"$f":"E9*100/J9","v":0.349956255468066},"T",1139,{"$f":"H9*100/J9","v":99.6500437445319},{"$f":"H9+E9","v":1143},221.999,"PASS","DP=1143;VDB=2.20682e-16;SGB=-0.693147;RPB=0.609387;MQB=0.013417;MQSB=0.160259;BQB=0.577261;MQ0F=0.0227472;AF1=1;AC1=2;DP4=2,1,512,335;MQ=21;FQ=-281.989;PV4=1,1,2.48593e-05,1;ANN=T|synonymous_variant|LOW|NS1|GENE_NS1|transcript|TRANSCRIPT_NS1|protein_coding|1/1|c.399C>T|p.Phe133Phe|399/1605|399/1605|133/534||WARNING_TRANSCRIPT_NO_STOP_CODON,T|upstream_gene_variant|MODIFIER|NS2|GENE_NS2|transcript|TRANSCRIPT_NS2|protein_coding||c.-1207C>T|||||1207|WARNING_TRANSCRIPT_NO_START_CODON,T|upstream_gene_variant|MODIFIER|NS3|GENE_NS3|transcript|TRANSCRIPT_NS3|protein_coding||c.-3601C>T|||||3601|WARNING_TRANSCRIPT_NO_START_CODON,T|non_coding_transcript_variant|MODIFIER|EDEN.1|null|transcript|EDEN.1|protein_coding||||||||WARNING_TRANSCRIPT_NO_START_CODON","LOW","Synonymous","GT:PL","1/1:255,255,0"]
["KP164568_BHI3734_H804698_2014_08_26_Human_Brazil",482,".","G",3,{"$f":"E10*100/J10","v":0.282485875706215},"A",1059,{"$f":"H10*100/J10","v":99.7175141242938},{"$f":"H10+E10","v":1062},221.999,"PASS","DP=1062;VDB=2.88274e-23;SGB=-0.693147;RPB=1;MQB=1;MQSB=0.927504;BQB=1;MQ0F=0.0207156;AF1=1;AC1=2;DP4=1,0,457,351;MQ=21;FQ=-281.989;PV4=1,0.300236,0.00950017,1;ANN=A|synonymous_variant|LOW|NS1|GENE_NS1|transcript|TRANSCRIPT_NS1|protein_coding|1/1|c.405G>A|p.Leu135Leu|405/1605|405/1605|135/534||WARNING_TRANSCRIPT_NO_STOP_CODON,A|upstream_gene_variant|MODIFIER|NS2|GENE_NS2|transcript|TRANSCRIPT_NS2|protein_coding||c.-1201G>A|||||1201|WARNING_TRANSCRIPT_NO_START_CODON,A|upstream_gene_variant|MODIFIER|NS3|GENE_NS3|transcript|TRANSCRIPT_NS3|protein_coding||c.-3595G>A|||||3595|WARNING_TRANSCRIPT_NO_START_CODON,A|non_coding_transcript_variant|MODIFIER|EDEN.1|null|transcript|EDEN.1|protein_coding||||||||WARNING_TRANSCRIPT_NO_START_CODON","LOW","Synonymous","GT:PL","1/1:255,255,0"]
["KP164568_BHI3734_H804698_2014_08_26_Human_Brazil",548,".","C",143,{"$f":"E11*100/J11","v":17.9874213836478},"T",652,{"$f":"H11*100/J11","v":82.0125786163522},{"$f":"H11+E11","v":795},182.999,"PASS","DP=790;VDB=3.78491e-42;SGB=-0.693147;RPB=1.10236e-08;MQB=0;MQSB=0;BQB=0.0708957;MQ0F=0.00253165;AF1=1;AC1=2;DP4=113,2,135,386;MQ=29;FQ=-142.987;PV4=0,1,0,1;ANN=T|synonymous_variant|LOW|NS1|GENE_NS1|transcript|TRANSCRIPT_NS1|protein_coding|1/1|c.471C>T|p.His157His|471/1605|471/1605|157/534||WARNING_TRANSCRIPT_NO_STOP_CODON,T|upstream_gene_variant|MODIFIER|NS2|GENE_NS2|transcript|TRANSCRIPT_NS2|protein_coding||c.-1135C>T|||||1135|WARNING_TRANSCRIPT_NO_START_CODON,T|upstream_gene_variant|MODIFIER|NS3|GENE_NS3|transcript|TRANSCRIPT_NS3|protein_coding||c.-3529C>T|||||3529|WARNING_TRANSCRIPT_NO_START_CODON,T|non_coding_transcript_variant|MODIFIER|EDEN.1|null|transcript|EDEN.1|protein_coding||||||||WARNING_TRANSCRIPT_NO_START_CODON","LOW","Synonymous","GT:PL","1/1:216,116,0"]
["KP164568_BHI3734_H804698_2014_08_26_Human_Brazil",566,".","C",169,{"$f":"E12*100/J12","v":20.0474495848161},"T",674,{"$f":"H12*100/J12","v":79.9525504151839},{"$f":"H12+E12","v":843},148.094,"PASS","DP=838;VDB=5.75807e-19;SGB=-0.693147;RPB=3.65249e-10;MQB=0;MQSB=0;BQB=0.879055;MQ0F=0;AF1=0.510155;AC1=1;DP4=138,2,145,386;MQ=29;FQ=-13.1986;PV4=0,1,0,0.0258232;ANN=T|synonymous_variant|LOW|NS1|GENE_NS1|transcript|TRANSCRIPT_NS1|protein_coding|1/1|c.489C>T|p.Tyr163Tyr|489/1605|489/1605|163/534||WARNING_TRANSCRIPT_NO_STOP_CODON,T|upstream_gene_variant|MODIFIER|NS2|GENE_NS2|transcript|TRANSCRIPT_NS2|protein_coding||c.-1117C>T|||||1117|WARNING_TRANSCRIPT_NO_START_CODON,T|upstream_gene_variant|MODIFIER|NS3|GENE_NS3|transcript|TRANSCRIPT_NS3|protein_coding||c.-3511C>T|||||3511|WARNING_TRANSCRIPT_NO_START_CODON,T|non_coding_transcript_variant|MODIFIER|EDEN.1|null|transcript|EDEN.1|protein_coding||||||||WARNING_TRANSCRIPT_NO_START_CODON","LOW","Synonymous","GT:PL","0/1:178,0,14"]
["KP164568_BHI3734_H804698_2014_08_26_Human_Brazil",584,".","G",153,{"$f":"E13*100/J13","v":23.0769230769231},"A",510,{"$f":"H13*100/J13","v":76.9230769230769},{"$f":"H13+E13","v":663},181.009,"PASS","DP=660;VDB=1.4013e-45;SGB=-0.693147;RPB=0.841516;MQB=0;MQSB=4.2081e-42;BQB=0.00036763;MQ0F=0;AF1=0.5;AC1=1;DP4=128,4,124,264;MQ=31;FQ=105.016;PV4=2.24208e-44,1,0,1;ANN=A|synonymous_variant|LOW|NS1|GENE_NS1|transcript|TRANSCRIPT_NS1|protein_coding|1/1|c.507G>A|p.Gly169Gly|507/1605|507/1605|169/534||WARNING_TRANSCRIPT_NO_STOP_CODON,A|upstream_gene_variant|MODIFIER|NS2|GENE_NS2|transcript|TRANSCRIPT_NS2|protein_coding||c.-1099G>A|||||1099|WARNING_TRANSCRIPT_NO_START_CODON,A|upstream_gene_variant|MODIFIER|NS3|GENE_NS3|transcript|TRANSCRIPT_NS3|protein_coding||c.-3493G>A|||||3493|WARNING_TRANSCRIPT_NO_START_CODON,A|non_coding_transcript_variant|MODIFIER|EDEN.1|null|transcript|EDEN.1|protein_coding||||||||WARNING_TRANSCRIPT_NO_START_CODON","LOW","Synonymous","GT:PL","0/1:211,0,132"]
["KP164568_BHI3734_H804698_2014_08_26_Human_Brazil",818,null,"C",249,{"$f":"E14*100/J14","v":78.5488958990536},"T",68,{"$f":"H14*100/J14","v":21.4511041009464},{"$f":"H14+E14","v":317},null,null,null,"LOW","Synonymous"]
["KP164568_BHI3734_H804698_2014_08_26_Human_Brazil",855,".","T",522,{"$f":"E15*100/J15","v":63.2727272727273},"C",303,{"$f":"H15*100/J15","v":36.7272727272727},{"$f":"H15+E15","v":825},103.008,"PASS","DP=818;VDB=5.24942e-23;SGB=-0.693147;RPB=1.41146e-34;MQB=1.30082e-16;BQB=0.016075;MQ0F=0;AF1=0.5;AC1=1;DP4=356,0,216,0;MQ=38;FQ=106.016;PV4=1,0.016819,3.88129e-25,2.8026e-45;ANN=C|synonymous_variant|LOW|NS1|GENE_NS1|transcript|TRANSCRIPT_NS1|protein_coding|1/1|c.778T>C|p.Leu260Leu|778/1605|778/1605|260/534||WARNING_TRANSCRIPT_NO_STOP_CODON,C|upstream_gene_variant|MODIFIER|NS2|GENE_NS2|transcript|TRANSCRIPT_NS2|protein_coding||c.-828T>C|||||828|WARNING_TRANSCRIPT_NO_START_CODON,C|upstream_gene_variant|MODIFIER|NS3|GENE_NS3|transcript|TRANSCRIPT_NS3|protein_coding||c.-3222T>C|||||3222|WARNING_TRANSCRIPT_NO_START_CODON,C|upstream_gene_variant|MODIFIER|NS4|GENE_NS4|transcript|TRANSCRIPT_NS4|protein_coding||c.-4812T>C|||||4812|WARNING_TRANSCRIPT_NO_START_CODON,C|non_coding_transcript_variant|MODIFIER|EDEN.1|null|transcript|EDEN.1|protein_coding||||||||WARNING_TRANSCRIPT_NO_START_CODON","LOW","Synonymous","GT:PL","0/1:133,0,238"]
["KP164568_BHI3734_H804698_2014_08_26_Human_Brazil",884,".","A",652,{"$f":"E16*100/J16","v":54.0630182421227},"G",554,{"$f":"H16*100/J16","v":45.9369817578773},{"$f":"H16+E16","v":1206},204.009,"PASS","DP=1200;VDB=0.449089;SGB=-0.693147;RPB=5.54298e-05;MQB=0;MQSB=0.000447857;BQB=0.00536294;MQ0F=0;AF1=0.5;AC1=1;DP4=452,15,370,11;MQ=37;FQ=206.983;PV4=0.843396,1,0,1;ANN=G|synonymous_variant|LOW|NS1|GENE_NS1|transcript|TRANSCRIPT_NS1|protein_coding|1/1|c.807A>G|p.Lys269Lys|807/1605|807/1605|269/534||WARNING_TRANSCRIPT_NO_STOP_CODON,G|upstream_gene_variant|MODIFIER|NS2|GENE_NS2|transcript|TRANSCRIPT_NS2|protein_coding||c.-799A>G|||||799|WARNING_TRANSCRIPT_NO_START_CODON,G|upstream_gene_variant|MODIFIER|NS3|GENE_NS3|transcript|TRANSCRIPT_NS3|protein_coding||c.-3193A>G|||||3193|WARNING_TRANSCRIPT_NO_START_CODON,G|upstream_gene_variant|MODIFIER|NS4|GENE_NS4|transcript|TRANSCRIPT_NS4|protein_coding||c.-4783A>G|||||4783|WARNING_TRANSCRIPT_NO_START_CODON,G|non_coding_transcript_variant|MODIFIER|EDEN.1|null|transcript|EDEN.1|protein_coding||||||||WARNING_TRANSCRIPT_NO_START_CODON","LOW","Synonymous","GT:PL","0/1:234,0,255"]
["KP164568_BHI3734_H804698_2014_08_26_Human_Brazil",887,".","C",653,{"$f":"E17*100/J17","v":54.4166666666667},"T",547,{"$f":"H17*100/J17","v":45.5833333333333},{"$f":"H17+E17","v":1200},225.009,"PASS","DP=1194;VDB=0.38502;SGB=-0.693147;RPB=1.88284e-05;MQB=0;MQSB=5.58612e-05;BQB=0.0281573;MQ0F=0;AF1=0.5;AC1=1;DP4=454,19,364,15;MQ=37;FQ=225.007;PV4=1,1,0,1;ANN=T|synonymous_variant|LOW|NS1|GENE_NS1|transcript|TRANSCRIPT_NS1|protein_coding|1/1|c.810C>T|p.Leu270Leu|810/1605|810/1605|270/534||WARNING_TRANSCRIPT_NO_STOP_CODON,T|upstream_gene_variant|MODIFIER|NS2|GENE_NS2|transcript|TRANSCRIPT_NS2|protein_coding||c.-796C>T|||||796|WARNING_TRANSCRIPT_NO_START_CODON,T|upstream_gene_variant|MODIFIER|NS3|GENE_NS3|transcript|TRANSCRIPT_NS3|protein_coding||c.-3190C>T|||||3190|WARNING_TRANSCRIPT_NO_START_CODON,T|upstream_gene_variant|MODIFIER|NS4|GENE_NS4|transcript|TRANSCRIPT_NS4|protein_coding||c.-4780C>T|||||4780|WARNING_TRANSCRIPT_NO_START_CODON,T|non_coding_transcript_variant|MODIFIER|EDEN.1|null|transcript|EDEN.1|protein_coding||||||||WARNING_TRANSCRIPT_NO_START_CODON","LOW","Synonymous","GT:PL","0/1:255,0,255"]
["KP164568_BHI3734_H804698_2014_08_26_Human_Brazil",908,".","T",503,{"$f":"E18*100/J18","v":43.8535309503051},"C",644,{"$f":"H18*100/J18","v":56.1464690496949},{"$f":"H18+E18","v":1147},225.009,"PASS","DP=1143;VDB=0.881902;SGB=-0.693147;RPB=5.93969e-07;MQB=0;MQSB=2.59002e-05;BQB=0.99993;MQ0F=0;AF1=0.5;AC1=1;DP4=303,65,423,45;MQ=37;FQ=225.007;PV4=0.000908662,1,0,0.377465;ANN=C|synonymous_variant|LOW|NS1|GENE_NS1|transcript|TRANSCRIPT_NS1|protein_coding|1/1|c.831T>C|p.Asp277Asp|831/1605|831/1605|277/534||WARNING_TRANSCRIPT_NO_STOP_CODON,C|upstream_gene_variant|MODIFIER|NS2|GENE_NS2|transcript|TRANSCRIPT_NS2|protein_coding||c.-775T>C|||||775|WARNING_TRANSCRIPT_NO_START_CODON,C|upstream_gene_variant|MODIFIER|NS3|GENE_NS3|transcript|TRANSCRIPT_NS3|protein_coding||c.-3169T>C|||||3169|WARNING_TRANSCRIPT_NO_START_CODON,C|upstream_gene_variant|MODIFIER|NS4|GENE_NS4|transcript|TRANSCRIPT_NS4|protein_coding||c.-4759T>C|||||4759|WARNING_TRANSCRIPT_NO_START_CODON,C|non_coding_transcript_variant|MODIFIER|EDEN.1|null|transcript|EDEN.1|protein_coding||||||||WARNING_TRANSCRIPT_NO_START_CODON","LOW","Synonymous","GT:PL","0/1:255,0,255"]
["KP164568_BHI3734_H804698_2014_08_26_Human_Brazil",923,".","C",530,{"$f":"E19*100/J19","v":43.0194805194805},"T",702,{"$f":"H19*100/J19","v":56.9805194805195},{"$f":"H19+E19","v":1232},225.009,"PASS","DP=1229;VDB=0.548617;SGB=-0.693147;RPB=0.800411;MQB=0;MQSB=0.487819;BQB=0.299572;MQ0F=0;AF1=0.5;AC1=1;DP4=296,79,393,83;MQ=38;FQ=225.007;PV4=0.187963,1,0,1;ANN=T|synonymous_variant|LOW|NS1|GENE_NS1|transcript|TRANSCRIPT_NS1|protein_coding|1/1|c.846C>T|p.Cys282Cys|846/1605|846/1605|282/534||WARNING_TRANSCRIPT_NO_STOP_CODON,T|upstream_gene_variant|MODIFIER|NS2|GENE_NS2|transcript|TRANSCRIPT_NS2|protein_coding||c.-760C>T|||||760|WARNING_TRANSCRIPT_NO_START_CODON,T|upstream_gene_variant|MODIFIER|NS3|GENE_NS3|transcript|TRANSCRIPT_NS3|protein_coding||c.-3154C>T|||||3154|WARNING_TRANSCRIPT_NO_START_CODON,T|upstream_gene_variant|MODIFIER|NS4|GENE_NS4|transcript|TRANSCRIPT_NS4|protein_coding||c.-4744C>T|||||4744|WARNING_TRANSCRIPT_NO_START_CODON,T|non_coding_transcript_variant|MODIFIER|EDEN.1|null|transcript|EDEN.1|protein_coding||||||||WARNING_TRANSCRIPT_NO_START_CODON","LOW","Synonymous","GT:PL","0/1:255,0,255"]
["KP164568_BHI3734_H804698_2014_08_26_Human_Brazil",980,".","A",282,{"$f":"E20*100/J20","v":31.9004524886878},"G",602,{"$f":"H20*100/J20","v":68.0995475113122},{"$f":"H20+E20","v":884},225.009,"PASS","DP=884;VDB=1.26976e-05;SGB=-0.693147;RPB=0.00020595;MQB=1.15795e-14;MQSB=0.284475;BQB=0.0998172;MQ0F=0;AF1=0.5;AC1=1;DP4=114,120,234,222;MQ=40;FQ=225.007;PV4=0.521296,1,1.53432e-08,1;ANN=G|synonymous_variant|LOW|NS1|GENE_NS1|transcript|TRANSCRIPT_NS1|protein_coding|1/1|c.903A>G|p.Thr301Thr|903/1605|903/1605|301/534||WARNING_TRANSCRIPT_NO_STOP_CODON,G|upstream_gene_variant|MODIFIER|NS2|GENE_NS2|transcript|TRANSCRIPT_NS2|protein_coding||c.-703A>G|||||703|WARNING_TRANSCRIPT_NO_START_CODON,G|upstream_gene_variant|MODIFIER|NS3|GENE_NS3|transcript|TRANSCRIPT_NS3|protein_coding||c.-3097A>G|||||3097|WARNING_TRANSCRIPT_NO_START_CODON,G|upstream_gene_variant|MODIFIER|NS4|GENE_NS4|transcript|TRANSCRIPT_NS4|protein_coding||c.-4687A>G|||||4687|WARNING_TRANSCRIPT_NO_START_CODON,G|non_coding_transcript_variant|MODIFIER|EDEN.1|null|transcript|EDEN.1|protein_coding||||||||WARNING_TRANSCRIPT_NO_START_CODON","LOW","Synonymous","GT:PL","0/1:255,0,255"]
["KP164568_BHI3734_H804698_2014_08_26_Human_Brazil",1040,".","T",203,{"$f":"E21*100/J21","v":43.099787685775},"A",268,{"$f":"H21*100/J21","v":56.9002123142251},{"$f":"H21+E21","v":471},225.009,"PASS","DP=472;VDB=1.14695e-26;SGB=-0.693147;RPB=0.383787;MQB=0;MQSB=0.277088;BQB=0.737569;MQ0F=0;AF1=0.5;AC1=1;DP4=59,123,26,216;MQ=37;FQ=225.007;PV4=4.35516e-08,1,2.14821e-25,0.0249903;ANN=A|synonymous_variant|LOW|NS1|GENE_NS1|transcript|TRANSCRIPT_NS1|protein_coding|1/1|c.963T>A|p.Val321Val|963/1605|963/1605|321/534||WARNING_TRANSCRIPT_NO_STOP_CODON,A|upstream_gene_variant|MODIFIER|NS2|GENE_NS2|transcript|TRANSCRIPT_NS2|protein_coding||c.-643T>A|||||643|WARNING_TRANSCRIPT_NO_START_CODON,A|upstream_gene_variant|MODIFIER|NS3|GENE_NS3|transcript|TRANSCRIPT_NS3|protein_coding||c.-3037T>A|||||3037|WARNING_TRANSCRIPT_NO_START_CODON,A|upstream_gene_variant|MODIFIER|NS4|GENE_NS4|transcript|TRANSCRIPT_NS4|protein_coding||c.-4627T>A|||||4627|WARNING_TRANSCRIPT_NO_START_CODON,A|non_coding_transcript_variant|MODIFIER|EDEN.1|null|transcript|EDEN.1|protein_coding||||||||WARNING_TRANSCRIPT_NO_START_CODON","LOW","Synonymous","GT:PL","0/1:255,0,255"]
["KP164568_BHI3734_H804698_2014_08_26_Human_Brazil",1046,".","C",225,{"$f":"E22*100/J22","v":45.5465587044534},"T",269,{"$f":"H22*100/J22","v":54.4534412955466},{"$f":"H22+E22","v":494},225.009,"PASS","DP=493;VDB=0;SGB=-0.693147;RPB=0.936703;MQB=0;MQSB=0.125838;BQB=0.558621;MQ0F=0;AF1=0.5;AC1=1;DP4=72,125,31,207;MQ=37;FQ=225.007;PV4=9.80898e-09,1,3.23297e-27,0.0914358;ANN=T|synonymous_variant|LOW|NS1|GENE_NS1|transcript|TRANSCRIPT_NS1|protein_coding|1/1|c.969C>T|p.Gly323Gly|969/1605|969/1605|323/534||WARNING_TRANSCRIPT_NO_STOP_CODON,T|upstream_gene_variant|MODIFIER|NS2|GENE_NS2|transcript|TRANSCRIPT_NS2|protein_coding||c.-637C>T|||||637|WARNING_TRANSCRIPT_NO_START_CODON,T|upstream_gene_variant|MODIFIER|NS3|GENE_NS3|transcript|TRANSCRIPT_NS3|protein_coding||c.-3031C>T|||||3031|WARNING_TRANSCRIPT_NO_START_CODON,T|upstream_gene_variant|MODIFIER|NS4|GENE_NS4|transcript|TRANSCRIPT_NS4|protein_coding||c.-4621C>T|||||4621|WARNING_TRANSCRIPT_NO_START_CODON,T|non_coding_transcript_variant|MODIFIER|EDEN.1|null|transcript|EDEN.1|protein_coding||||||||WARNING_TRANSCRIPT_NO_START_CODON","LOW","Synonymous","GT:PL","0/1:255,0,255"]
["KP164568_BHI3734_H804698_2014_08_26_Human_Brazil",1073,".","A",218,{"$f":"E23*100/J23","v":42.4124513618677},"G",296,{"$f":"H23*100/J23","v":57.5875486381323},{"$f":"H23+E23","v":514},225.009,"PASS","DP=514;VDB=5.354e-24;SGB=-0.693147;RPB=9.49692e-06;MQB=9.48532e-24;MQSB=0.028225;BQB=0.220961;MQ0F=0;AF1=0.5;AC1=1;DP4=80,110,40,216;MQ=37;FQ=225.007;PV4=8.14076e-10,1,3.76691e-11,3.50794e-05;ANN=G|synonymous_variant|LOW|NS1|GENE_NS1|transcript|TRANSCRIPT_NS1|protein_coding|1/1|c.996A>G|p.Thr332Thr|996/1605|996/1605|332/534||WARNING_TRANSCRIPT_NO_STOP_CODON,G|upstream_gene_variant|MODIFIER|NS2|GENE_NS2|transcript|TRANSCRIPT_NS2|protein_coding||c.-610A>G|||||610|WARNING_TRANSCRIPT_NO_START_CODON,G|upstream_gene_variant|MODIFIER|NS3|GENE_NS3|transcript|TRANSCRIPT_NS3|protein_coding||c.-3004A>G|||||3004|WARNING_TRANSCRIPT_NO_START_CODON,G|upstream_gene_variant|MODIFIER|NS4|GENE_NS4|transcript|TRANSCRIPT_NS4|protein_coding||c.-4594A>G|||||4594|WARNING_TRANSCRIPT_NO_START_CODON,G|non_coding_transcript_variant|MODIFIER|EDEN.1|null|transcript|EDEN.1|protein_coding||||||||WARNING_TRANSCRIPT_NO_START_CODON","LOW","Synonymous","GT:PL","0/1:255,0,255"]
["KP164568_BHI3734_H804698_2014_08_26_Human_Brazil",2802,".","T",19,{"$f":"E24*100/J24","v":2.15175537938845},"C",864,{"$f":"H24*100/J24","v":97.8482446206116},{"$f":"H24+E24","v":883},221.999,"PASS","DP=883;VDB=7.65269e-29;SGB=-0.693147;RPB=0.000293394;MQB=1.75907e-09;MQSB=5.28414e-08;BQB=0.937951;MQ0F=0;AF1=1;AC1=2;DP4=3,15,699,1;MQ=32;FQ=-281.989;PV4=2.8356e-27,1,1.02186e-08,0.0233511;ANN=C|missense_variant|MODERATE|NS2|GENE_NS2|transcript|TRANSCRIPT_NS2|protein_coding|1/1|c.1120T>C|p.Tyr374His|1120/2394|1120/2394|374/797||WARNING_TRANSCRIPT_NO_START_CODON,C|upstream_gene_variant|MODIFIER|NS3|GENE_NS3|transcript|TRANSCRIPT_NS3|protein_coding||c.-1275T>C|||||1275|WARNING_TRANSCRIPT_NO_START_CODON,C|upstream_gene_variant|MODIFIER|NS4|GENE_NS4|transcript|TRANSCRIPT_NS4|protein_coding||c.-2865T>C|||||2865|WARNING_TRANSCRIPT_NO_START_CODON,C|upstream_gene_variant|MODIFIER|capsid|GENE_capsid|transcript|TRANSCRIPT_capsid|protein_coding||c.-4766T>C|||||4766|WARNING_TRANSCRIPT_NO_STOP_CODON,C|downstream_gene_variant|MODIFIER|NS1|GENE_NS1|transcript|TRANSCRIPT_NS1|protein_coding||c.*1120T>C|||||1120|WARNING_TRANSCRIPT_NO_STOP_CODON,C|non_coding_transcript_variant|MODIFIER|EDEN.1|null|transcript|EDEN.1|protein_coding||||||||WARNING_TRANSCRIPT_NO_START_CODON","MODERATE","Non-synonymous","GT:PL","1/1:255,255,0"]
["KP164568_BHI3734_H804698_2014_08_26_Human_Brazil",2855,".","T",10,{"$f":"E25*100/J25","v":0.892857142857143},"C",1110,{"$f":"H25*100/J25","v":99.1071428571429},{"$f":"H25+E25","v":1120},221.999,"PASS","DP=1119;VDB=1;SGB=-0.693147;RPB=0.959371;MQB=4.04352e-05;MQSB=4.195e-29;BQB=0.854796;MQ0F=0.00446828;AF1=1;AC1=2;DP4=6,1,781,81;MQ=24;FQ=-281.989;PV4=0.501592,1,5.38186e-10,1;ANN=C|synonymous_variant|LOW|NS2|GENE_NS2|transcript|TRANSCRIPT_NS2|protein_coding|1/1|c.1173T>C|p.Tyr391Tyr|1173/2394|1173/2394|391/797||WARNING_TRANSCRIPT_NO_START_CODON,C|upstream_gene_variant|MODIFIER|NS3|GENE_NS3|transcript|TRANSCRIPT_NS3|protein_coding||c.-1222T>C|||||1222|WARNING_TRANSCRIPT_NO_START_CODON,C|upstream_gene_variant|MODIFIER|NS4|GENE_NS4|transcript|TRANSCRIPT_NS4|protein_coding||c.-2812T>C|||||2812|WARNING_TRANSCRIPT_NO_START_CODON,C|upstream_gene_variant|MODIFIER|capsid|GENE_capsid|transcript|TRANSCRIPT_capsid|protein_coding||c.-4713T>C|||||4713|WARNING_TRANSCRIPT_NO_STOP_CODON,C|downstream_gene_variant|MODIFIER|NS1|GENE_NS1|transcript|TRANSCRIPT_NS1|protein_coding||c.*1173T>C|||||1173|WARNING_TRANSCRIPT_NO_STOP_CODON,C|non_coding_transcript_variant|MODIFIER|EDEN.1|null|transcript|EDEN.1|protein_coding||||||||WARNING_TRANSCRIPT_NO_START_CODON","LOW","Synonymous","GT:PL","1/1:255,255,0"]
["KP164568_BHI3734_H804698_2014_08_26_Human_Brazil",2856,".","G",115,{"$f":"E26*100/J26","v":10.3603603603604},"T",995,{"$f":"H26*100/J26","v":89.6396396396396},{"$f":"H26+E26","v":1110},85.9973,"PASS","DP=1109;VDB=0.99923;SGB=-0.693147;RPB=0.76181;MQB=3.35955e-09;MQSB=5.12437e-28;BQB=0.0300539;MQ0F=0.00450857;AF1=1;AC1=2;DP4=72,18,714,63;MQ=23;FQ=-248.989;PV4=0.000853517,1,1.24151e-16,1;ANN=T|missense_variant|MODERATE|NS2|GENE_NS2|transcript|TRANSCRIPT_NS2|protein_coding|1/1|c.1174G>T|p.Ala392Ser|1174/2394|1174/2394|392/797||WARNING_TRANSCRIPT_NO_START_CODON,T|upstream_gene_variant|MODIFIER|NS3|GENE_NS3|transcript|TRANSCRIPT_NS3|protein_coding||c.-1221G>T|||||1221|WARNING_TRANSCRIPT_NO_START_CODON,T|upstream_gene_variant|MODIFIER|NS4|GENE_NS4|transcript|TRANSCRIPT_NS4|protein_coding||c.-2811G>T|||||2811|WARNING_TRANSCRIPT_NO_START_CODON,T|upstream_gene_variant|MODIFIER|capsid|GENE_capsid|transcript|TRANSCRIPT_capsid|protein_coding||c.-4712G>T|||||4712|WARNING_TRANSCRIPT_NO_STOP_CODON,T|downstream_gene_variant|MODIFIER|NS1|GENE_NS1|transcript|TRANSCRIPT_NS1|protein_coding||c.*1174G>T|||||1174|WARNING_TRANSCRIPT_NO_STOP_CODON,T|non_coding_transcript_variant|MODIFIER|EDEN.1|null|transcript|EDEN.1|protein_coding||||||||WARNING_TRANSCRIPT_NO_START_CODON","MODERATE","Non-synonymous","GT:PL","1/1:119,222,0"]
["KP164568_BHI3734_H804698_2014_08_26_Human_Brazil",2876,".","T",9,{"$f":"E27*100/J27","v":0.816696914700544},"C",1093,{"$f":"H27*100/J27","v":99.1833030852995},{"$f":"H27+E27","v":1102},221.999,"PASS","DP=1102;VDB=0.934917;SGB=-0.693147;RPB=0.730844;MQB=0.000132108;MQSB=0;BQB=0.84059;MQ0F=0.00453721;AF1=1;AC1=2;DP4=5,1,677,241;MQ=23;FQ=-281.989;PV4=1,0.0458118,1.13733e-09,1;ANN=C|synonymous_variant|LOW|NS2|GENE_NS2|transcript|TRANSCRIPT_NS2|protein_coding|1/1|c.1194T>C|p.Asn398Asn|1194/2394|1194/2394|398/797||WARNING_TRANSCRIPT_NO_START_CODON,C|upstream_gene_variant|MODIFIER|NS3|GENE_NS3|transcript|TRANSCRIPT_NS3|protein_coding||c.-1201T>C|||||1201|WARNING_TRANSCRIPT_NO_START_CODON,C|upstream_gene_variant|MODIFIER|NS4|GENE_NS4|transcript|TRANSCRIPT_NS4|protein_coding||c.-2791T>C|||||2791|WARNING_TRANSCRIPT_NO_START_CODON,C|upstream_gene_variant|MODIFIER|capsid|GENE_capsid|transcript|TRANSCRIPT_capsid|protein_coding||c.-4692T>C|||||4692|WARNING_TRANSCRIPT_NO_STOP_CODON,C|downstream_gene_variant|MODIFIER|NS1|GENE_NS1|transcript|TRANSCRIPT_NS1|protein_coding||c.*1194T>C|||||1194|WARNING_TRANSCRIPT_NO_STOP_CODON,C|non_coding_transcript_variant|MODIFIER|EDEN.1|null|transcript|EDEN.1|protein_coding||||||||WARNING_TRANSCRIPT_NO_START_CODON","LOW","Synonymous","GT:PL","1/1:255,255,0"]
["KP164568_BHI3734_H804698_2014_08_26_Human_Brazil",2885,".","G",13,{"$f":"E28*100/J28","v":1.02848101265823},"A",1251,{"$f":"H28*100/J28","v":98.9715189873418},{"$f":"H28+E28","v":1264},221.999,"PASS","DP=1263;VDB=0.352109;SGB=-0.693147;RPB=0.700496;MQB=6.97733e-06;MQSB=0;BQB=0.953816;MQ0F=0.00395883;AF1=1;AC1=2;DP4=6,2,718,311;MQ=24;FQ=-281.989;PV4=1,0.0957363,4.06459e-12,1;ANN=A|synonymous_variant|LOW|NS2|GENE_NS2|transcript|TRANSCRIPT_NS2|protein_coding|1/1|c.1203G>A|p.Pro401Pro|1203/2394|1203/2394|401/797||WARNING_TRANSCRIPT_NO_START_CODON,A|upstream_gene_variant|MODIFIER|NS3|GENE_NS3|transcript|TRANSCRIPT_NS3|protein_coding||c.-1192G>A|||||1192|WARNING_TRANSCRIPT_NO_START_CODON,A|upstream_gene_variant|MODIFIER|NS4|GENE_NS4|transcript|TRANSCRIPT_NS4|protein_coding||c.-2782G>A|||||2782|WARNING_TRANSCRIPT_NO_START_CODON,A|upstream_gene_variant|MODIFIER|capsid|GENE_capsid|transcript|TRANSCRIPT_capsid|protein_coding||c.-4683G>A|||||4683|WARNING_TRANSCRIPT_NO_STOP_CODON,A|downstream_gene_variant|MODIFIER|NS1|GENE_NS1|transcript|TRANSCRIPT_NS1|protein_coding||c.*1203G>A|||||1203|WARNING_TRANSCRIPT_NO_STOP_CODON,A|non_coding_transcript_variant|MODIFIER|EDEN.1|null|transcript|EDEN.1|protein_coding||||||||WARNING_TRANSCRIPT_NO_START_CODON","LOW","Synonymous","GT:PL","1/1:255,255,0"]
["KP164568_BHI3734_H804698_2014_08_26_Human_Brazil",2900,".","G",10,{"$f":"E29*100/J29","v":0.593119810201661},"A",1676,{"$f":"H29*100/J29","v":99.4068801897983},{"$f":"H29+E29","v":1686},221.999,"PASS","DP=1684;VDB=0.96343;SGB=-0.693147;RPB=0.976533;MQB=6.90989e-06;MQSB=2.55982e-39;BQB=0.800944;MQ0F=0.00296912;AF1=1;AC1=2;DP4=4,4,969,350;MQ=24;FQ=-281.989;PV4=0.220557,1,8.20883e-11,1;ANN=A|synonymous_variant|LOW|NS2|GENE_NS2|transcript|TRANSCRIPT_NS2|protein_coding|1/1|c.1218G>A|p.Thr406Thr|1218/2394|1218/2394|406/797||WARNING_TRANSCRIPT_NO_START_CODON,A|upstream_gene_variant|MODIFIER|NS3|GENE_NS3|transcript|TRANSCRIPT_NS3|protein_coding||c.-1177G>A|||||1177|WARNING_TRANSCRIPT_NO_START_CODON,A|upstream_gene_variant|MODIFIER|NS4|GENE_NS4|transcript|TRANSCRIPT_NS4|protein_coding||c.-2767G>A|||||2767|WARNING_TRANSCRIPT_NO_START_CODON,A|upstream_gene_variant|MODIFIER|capsid|GENE_capsid|transcript|TRANSCRIPT_capsid|protein_coding||c.-4668G>A|||||4668|WARNING_TRANSCRIPT_NO_STOP_CODON,A|downstream_gene_variant|MODIFIER|NS1|GENE_NS1|transcript|TRANSCRIPT_NS1|protein_coding||c.*1218G>A|||||1218|WARNING_TRANSCRIPT_NO_STOP_CODON,A|non_coding_transcript_variant|MODIFIER|EDEN.1|null|transcript|EDEN.1|protein_coding||||||||WARNING_TRANSCRIPT_NO_START_CODON","LOW","Synonymous","GT:PL","1/1:255,255,0"]
["KP164568_BHI3734_H804698_2014_08_26_Human_Brazil",2927,".","A",9,{"$f":"E30*100/J30","v":0.420954162768943},"G",2129,{"$f":"H30*100/J30","v":99.5790458372311},{"$f":"H30+E30","v":2138},221.999,"PASS","DP=2134;VDB=0.129549;SGB=-0.693147;RPB=0.811827;MQB=8.94566e-06;MQSB=6.70509e-17;BQB=0.234777;MQ0F=0.00234302;AF1=1;AC1=2;DP4=4,4,1173,375;MQ=25;FQ=-281.989;PV4=0.104557,1,9.31944e-11,0.0921534;ANN=G|synonymous_variant|LOW|NS2|GENE_NS2|transcript|TRANSCRIPT_NS2|protein_coding|1/1|c.1245A>G|p.Thr415Thr|1245/2394|1245/2394|415/797||WARNING_TRANSCRIPT_NO_START_CODON,G|upstream_gene_variant|MODIFIER|NS3|GENE_NS3|transcript|TRANSCRIPT_NS3|protein_coding||c.-1150A>G|||||1150|WARNING_TRANSCRIPT_NO_START_CODON,G|upstream_gene_variant|MODIFIER|NS4|GENE_NS4|transcript|TRANSCRIPT_NS4|protein_coding||c.-2740A>G|||||2740|WARNING_TRANSCRIPT_NO_START_CODON,G|upstream_gene_variant|MODIFIER|capsid|GENE_capsid|transcript|TRANSCRIPT_capsid|protein_coding||c.-4641A>G|||||4641|WARNING_TRANSCRIPT_NO_STOP_CODON,G|downstream_gene_variant|MODIFIER|NS1|GENE_NS1|transcript|TRANSCRIPT_NS1|protein_coding||c.*1245A>G|||||1245|WARNING_TRANSCRIPT_NO_STOP_CODON,G|non_coding_transcript_variant|MODIFIER|EDEN.1|null|transcript|EDEN.1|protein_coding||||||||WARNING_TRANSCRIPT_NO_START_CODON","LOW","Synonymous","GT:PL","1/1:255,255,0"]
["KP164568_BHI3734_H804698_2014_08_26_Human_Brazil",2960,".","T",5,{"$f":"E31*100/J31","v":0.240384615384615},"C",2075,{"$f":"H31*100/J31","v":99.7596153846154},{"$f":"H31+E31","v":2080},221.999,"PASS","DP=2077;VDB=0.998531;SGB=-0.693147;RPB=0.200304;MQB=0.000597888;MQSB=6.97732e-16;BQB=0.104221;MQ0F=0;AF1=1;AC1=2;DP4=3,2,980,553;MQ=25;FQ=-281.989;PV4=1,1,9.32143e-10,1;ANN=C|synonymous_variant|LOW|NS2|GENE_NS2|transcript|TRANSCRIPT_NS2|protein_coding|1/1|c.1278T>C|p.Leu426Leu|1278/2394|1278/2394|426/797||WARNING_TRANSCRIPT_NO_START_CODON,C|upstream_gene_variant|MODIFIER|NS3|GENE_NS3|transcript|TRANSCRIPT_NS3|protein_coding||c.-1117T>C|||||1117|WARNING_TRANSCRIPT_NO_START_CODON,C|upstream_gene_variant|MODIFIER|NS4|GENE_NS4|transcript|TRANSCRIPT_NS4|protein_coding||c.-2707T>C|||||2707|WARNING_TRANSCRIPT_NO_START_CODON,C|upstream_gene_variant|MODIFIER|capsid|GENE_capsid|transcript|TRANSCRIPT_capsid|protein_coding||c.-4608T>C|||||4608|WARNING_TRANSCRIPT_NO_STOP_CODON,C|downstream_gene_variant|MODIFIER|NS1|GENE_NS1|transcript|TRANSCRIPT_NS1|protein_coding||c.*1278T>C|||||1278|WARNING_TRANSCRIPT_NO_STOP_CODON,C|non_coding_transcript_variant|MODIFIER|EDEN.1|null|transcript|EDEN.1|protein_coding||||||||WARNING_TRANSCRIPT_NO_START_CODON","LOW","Synonymous","GT:PL","1/1:255,255,0"]
["KP164568_BHI3734_H804698_2014_08_26_Human_Brazil",2963,".","C",5,{"$f":"E32*100/J32","v":0.24390243902439},"T",2045,{"$f":"H32*100/J32","v":99.7560975609756},{"$f":"H32+E32","v":2050},221.999,"PASS","DP=2047;VDB=0.999666;SGB=-0.693147;RPB=0.657698;MQB=0.00314855;MQSB=4.74443e-19;BQB=0.0945893;MQ0F=0;AF1=1;AC1=2;DP4=3,2,952,563;MQ=25;FQ=-281.989;PV4=1,1,1.01212e-06,1;ANN=T|synonymous_variant|LOW|NS2|GENE_NS2|transcript|TRANSCRIPT_NS2|protein_coding|1/1|c.1281C>T|p.Ser427Ser|1281/2394|1281/2394|427/797||WARNING_TRANSCRIPT_NO_START_CODON,T|upstream_gene_variant|MODIFIER|NS3|GENE_NS3|transcript|TRANSCRIPT_NS3|protein_coding||c.-1114C>T|||||1114|WARNING_TRANSCRIPT_NO_START_CODON,T|upstream_gene_variant|MODIFIER|NS4|GENE_NS4|transcript|TRANSCRIPT_NS4|protein_coding||c.-2704C>T|||||2704|WARNING_TRANSCRIPT_NO_START_CODON,T|upstream_gene_variant|MODIFIER|capsid|GENE_capsid|transcript|TRANSCRIPT_capsid|protein_coding||c.-4605C>T|||||4605|WARNING_TRANSCRIPT_NO_STOP_CODON,T|downstream_gene_variant|MODIFIER|NS1|GENE_NS1|transcript|TRANSCRIPT_NS1|protein_coding||c.*1281C>T|||||1281|WARNING_TRANSCRIPT_NO_STOP_CODON,T|non_coding_transcript_variant|MODIFIER|EDEN.1|null|transcript|EDEN.1|protein_coding||||||||WARNING_TRANSCRIPT_NO_START_CODON","LOW","Synonymous","GT:PL","1/1:255,255,0"]
["KP164568_BHI3734_H804698_2014_08_26_Human_Brazil",3014,".","A",0,{"$f":"E33*100/J33","v":0},"G",911,{"$f":"H33*100/J33","v":100},{"$f":"H33+E33","v":911},221.999,"PASS","DP=911;VDB=0;SGB=-0.693147;MQSB=1.93448e-16;MQ0F=0;AF1=1;AC1=2;DP4=0,0,422,344;MQ=25;FQ=-281.989;ANN=G|synonymous_variant|LOW|NS2|GENE_NS2|transcript|TRANSCRIPT_NS2|protein_coding|1/1|c.1332A>G|p.Lys444Lys|1332/2394|1332/2394|444/797||WARNING_TRANSCRIPT_NO_START_CODON,G|upstream_gene_variant|MODIFIER|NS3|GENE_NS3|transcript|TRANSCRIPT_NS3|protein_coding||c.-1063A>G|||||1063|WARNING_TRANSCRIPT_NO_START_CODON,G|upstream_gene_variant|MODIFIER|NS4|GENE_NS4|transcript|TRANSCRIPT_NS4|protein_coding||c.-2653A>G|||||2653|WARNING_TRANSCRIPT_NO_START_CODON,G|upstream_gene_variant|MODIFIER|capsid|GENE_capsid|transcript|TRANSCRIPT_capsid|protein_coding||c.-4554A>G|||||4554|WARNING_TRANSCRIPT_NO_STOP_CODON,G|downstream_gene_variant|MODIFIER|NS1|GENE_NS1|transcript|TRANSCRIPT_NS1|protein_coding||c.*1332A>G|||||1332|WARNING_TRANSCRIPT_NO_STOP_CODON,G|non_coding_transcript_variant|MODIFIER|EDEN.1|null|transcript|EDEN.1|protein_coding||||||||WARNING_TRANSCRIPT_NO_START_CODON","LOW","Synonymous","GT:PL","1/1:255,255,0"]
["KP164568_BHI3734_H804698_2014_08_26_Human_Brazil",3023,".","C",0,{"$f":"E34*100/J34","v":0},"T",570,{"$f":"H34*100/J34","v":100},{"$f":"H34+E34","v":570},221.999,"PASS","DP=569;VDB=0;SGB=-0.693147;MQSB=1.63137e-11;MQ0F=0;AF1=1;AC1=2;DP4=0,0,171,315;MQ=24;FQ=-281.989;ANN=T|synonymous_variant|LOW|NS2|GENE_NS2|transcript|TRANSCRIPT_NS2|protein_coding|1/1|c.1341C>T|p.Ile447Ile|1341/2394|1341/2394|447/797||WARNING_TRANSCRIPT_NO_START_CODON,T|upstream_gene_variant|MODIFIER|NS3|GENE_NS3|transcript|TRANSCRIPT_NS3|protein_coding||c.-1054C>T|||||1054|WARNING_TRANSCRIPT_NO_START_CODON,T|upstream_gene_variant|MODIFIER|NS4|GENE_NS4|transcript|TRANSCRIPT_NS4|protein_coding||c.-2644C>T|||||2644|WARNING_TRANSCRIPT_NO_START_CODON,T|upstream_gene_variant|MODIFIER|capsid|GENE_capsid|transcript|TRANSCRIPT_capsid|protein_coding||c.-4545C>T|||||4545|WARNING_TRANSCRIPT_NO_STOP_CODON,T|downstream_gene_variant|MODIFIER|NS1|GENE_NS1|transcript|TRANSCRIPT_NS1|protein_coding||c.*1341C>T|||||1341|WARNING_TRANSCRIPT_NO_STOP_CODON,T|non_coding_transcript_variant|MODIFIER|EDEN.1|null|transcript|EDEN.1|protein_coding||||||||WARNING_TRANSCRIPT_NO_START_CODON","LOW","Synonymous","GT:PL","1/1:255,255,0"]
["KP164568_BHI3734_H804698_2014_08_26_Human_Brazil",3044,".","T",1,{"$f":"E35*100/J35","v":0.182815356489945},"C",546,{"$f":"H35*100/J35","v":99.8171846435101},{"$f":"H35+E35","v":547},221.999,"PASS","DP=547;VDB=5.74687e-41;SGB=-0.693147;RPB=1;MQB=1;MQSB=3.92541e-18;BQB=1;MQ0F=0.0219378;AF1=1;AC1=2;DP4=0,1,122,383;MQ=19;FQ=-281.989;PV4=1,1,0.00159541,1;ANN=C|synonymous_variant|LOW|NS2|GENE_NS2|transcript|TRANSCRIPT_NS2|protein_coding|1/1|c.1362T>C|p.His454His|1362/2394|1362/2394|454/797||WARNING_TRANSCRIPT_NO_START_CODON,C|upstream_gene_variant|MODIFIER|NS3|GENE_NS3|transcript|TRANSCRIPT_NS3|protein_coding||c.-1033T>C|||||1033|WARNING_TRANSCRIPT_NO_START_CODON,C|upstream_gene_variant|MODIFIER|NS4|GENE_NS4|transcript|TRANSCRIPT_NS4|protein_coding||c.-2623T>C|||||2623|WARNING_TRANSCRIPT_NO_START_CODON,C|upstream_gene_variant|MODIFIER|capsid|GENE_capsid|transcript|TRANSCRIPT_capsid|protein_coding||c.-4524T>C|||||4524|WARNING_TRANSCRIPT_NO_STOP_CODON,C|downstream_gene_variant|MODIFIER|NS1|GENE_NS1|transcript|TRANSCRIPT_NS1|protein_coding||c.*1362T>C|||||1362|WARNING_TRANSCRIPT_NO_STOP_CODON,C|non_coding_transcript_variant|MODIFIER|EDEN.1|null|transcript|EDEN.1|protein_coding||||||||WARNING_TRANSCRIPT_NO_START_CODON","LOW","Synonymous","GT:PL","1/1:255,255,0"]
["KP164568_BHI3734_H804698_2014_08_26_Human_Brazil",3050,".","A",1,{"$f":"E36*100/J36","v":0.166666666666667},"G",599,{"$f":"H36*100/J36","v":99.8333333333333},{"$f":"H36+E36","v":600},221.999,"PASS","DP=599;VDB=0;SGB=-0.693147;RPB=1;MQB=1;MQSB=1.96545e-22;BQB=1;MQ0F=0.0233723;AF1=1;AC1=2;DP4=0,1,154,398;MQ=18;FQ=-281.989;PV4=1,1,0.00144293,1;ANN=G|synonymous_variant|LOW|NS2|GENE_NS2|transcript|TRANSCRIPT_NS2|protein_coding|1/1|c.1368A>G|p.Ser456Ser|1368/2394|1368/2394|456/797||WARNING_TRANSCRIPT_NO_START_CODON,G|upstream_gene_variant|MODIFIER|NS3|GENE_NS3|transcript|TRANSCRIPT_NS3|protein_coding||c.-1027A>G|||||1027|WARNING_TRANSCRIPT_NO_START_CODON,G|upstream_gene_variant|MODIFIER|NS4|GENE_NS4|transcript|TRANSCRIPT_NS4|protein_coding||c.-2617A>G|||||2617|WARNING_TRANSCRIPT_NO_START_CODON,G|upstream_gene_variant|MODIFIER|capsid|GENE_capsid|transcript|TRANSCRIPT_capsid|protein_coding||c.-4518A>G|||||4518|WARNING_TRANSCRIPT_NO_STOP_CODON,G|downstream_gene_variant|MODIFIER|NS1|GENE_NS1|transcript|TRANSCRIPT_NS1|protein_coding||c.*1368A>G|||||1368|WARNING_TRANSCRIPT_NO_STOP_CODON,G|non_coding_transcript_variant|MODIFIER|EDEN.1|null|transcript|EDEN.1|protein_coding||||||||WARNING_TRANSCRIPT_NO_START_CODON","LOW","Synonymous","GT:PL","1/1:255,255,0"]
["KP164568_BHI3734_H804698_2014_08_26_Human_Brazil",3078,".","A",6,{"$f":"E37*100/J37","v":0.474308300395257},"G",1259,{"$f":"H37*100/J37","v":99.5256916996047},{"$f":"H37+E37","v":1265},221.999,"PASS","DP=1261;VDB=0.575671;SGB=-0.693147;RPB=0.221438;MQB=0.000582746;MQSB=9.66896e-44;BQB=0.115564;MQ0F=0.0142744;AF1=1;AC1=2;DP4=2,3,222,863;MQ=20;FQ=-281.989;PV4=0.273861,1,1.48395e-11,1;ANN=G|missense_variant|MODERATE|NS2|GENE_NS2|transcript|TRANSCRIPT_NS2|protein_coding|1/1|c.1396A>G|p.Met466Val|1396/2394|1396/2394|466/797||WARNING_TRANSCRIPT_NO_START_CODON,G|upstream_gene_variant|MODIFIER|NS3|GENE_NS3|transcript|TRANSCRIPT_NS3|protein_coding||c.-999A>G|||||999|WARNING_TRANSCRIPT_NO_START_CODON,G|upstream_gene_variant|MODIFIER|NS4|GENE_NS4|transcript|TRANSCRIPT_NS4|protein_coding||c.-2589A>G|||||2589|WARNING_TRANSCRIPT_NO_START_CODON,G|upstream_gene_variant|MODIFIER|capsid|GENE_capsid|transcript|TRANSCRIPT_capsid|protein_coding||c.-4490A>G|||||4490|WARNING_TRANSCRIPT_NO_STOP_CODON,G|downstream_gene_variant|MODIFIER|NS1|GENE_NS1|transcript|TRANSCRIPT_NS1|protein_coding||c.*1396A>G|||||1396|WARNING_TRANSCRIPT_NO_STOP_CODON,G|non_coding_transcript_variant|MODIFIER|EDEN.1|null|transcript|EDEN.1|protein_coding||||||||WARNING_TRANSCRIPT_NO_START_CODON","MODERATE","Non-synonymous","GT:PL","1/1:255,255,0"]
["KP164568_BHI3734_H804698_2014_08_26_Human_Brazil",3089,".","T",6,{"$f":"E38*100/J38","v":0.500417014178482},"C",1193,{"$f":"H38*100/J38","v":99.4995829858215},{"$f":"H38+E38","v":1199},221.999,"PASS","DP=1195;VDB=0.0310427;SGB=-0.693147;RPB=0.071566;MQB=0.00255311;MQSB=9.80909e-44;BQB=0.936354;MQ0F=0.0142259;AF1=1;AC1=2;DP4=2,2,231,779;MQ=20;FQ=-281.989;PV4=0.227853,0.376949,7.93645e-10,1;ANN=C|synonymous_variant|LOW|NS2|GENE_NS2|transcript|TRANSCRIPT_NS2|protein_coding|1/1|c.1407T>C|p.Asp469Asp|1407/2394|1407/2394|469/797||WARNING_TRANSCRIPT_NO_START_CODON,C|upstream_gene_variant|MODIFIER|NS3|GENE_NS3|transcript|TRANSCRIPT_NS3|protein_coding||c.-988T>C|||||988|WARNING_TRANSCRIPT_NO_START_CODON,C|upstream_gene_variant|MODIFIER|NS4|GENE_NS4|transcript|TRANSCRIPT_NS4|protein_coding||c.-2578T>C|||||2578|WARNING_TRANSCRIPT_NO_START_CODON,C|upstream_gene_variant|MODIFIER|capsid|GENE_capsid|transcript|TRANSCRIPT_capsid|protein_coding||c.-4479T>C|||||4479|WARNING_TRANSCRIPT_NO_STOP_CODON,C|downstream_gene_variant|MODIFIER|NS1|GENE_NS1|transcript|TRANSCRIPT_NS1|protein_coding||c.*1407T>C|||||1407|WARNING_TRANSCRIPT_NO_STOP_CODON,C|non_coding_transcript_variant|MODIFIER|EDEN.1|null|transcript|EDEN.1|protein_coding||||||||WARNING_TRANSCRIPT_NO_START_CODON","LOW","Synonymous","GT:PL","1/1:255,255,0"]
["KP164568_BHI3734_H804698_2014_08_26_Human_Brazil",3092,".","A",5,{"$f":"E39*100/J39","v":0.45004500450045},"G",1106,{"$f":"H39*100/J39","v":99.5499549954996},{"$f":"H39+E39","v":1111},221.999,"PASS","DP=1107;VDB=5.5498e-06;SGB=-0.693147;RPB=0.0920351;MQB=0.0025594;MQSB=4.38466e-42;BQB=0.753421;MQ0F=0.0135501;AF1=1;AC1=2;DP4=2,2,228,704;MQ=20;FQ=-281.989;PV4=0.254292,0.461087,8.13312e-10,0.416636;ANN=G|synonymous_variant|LOW|NS2|GENE_NS2|transcript|TRANSCRIPT_NS2|protein_coding|1/1|c.1410A>G|p.Thr470Thr|1410/2394|1410/2394|470/797||WARNING_TRANSCRIPT_NO_START_CODON,G|upstream_gene_variant|MODIFIER|NS3|GENE_NS3|transcript|TRANSCRIPT_NS3|protein_coding||c.-985A>G|||||985|WARNING_TRANSCRIPT_NO_START_CODON,G|upstream_gene_variant|MODIFIER|NS4|GENE_NS4|transcript|TRANSCRIPT_NS4|protein_coding||c.-2575A>G|||||2575|WARNING_TRANSCRIPT_NO_START_CODON,G|upstream_gene_variant|MODIFIER|capsid|GENE_capsid|transcript|TRANSCRIPT_capsid|protein_coding||c.-4476A>G|||||4476|WARNING_TRANSCRIPT_NO_STOP_CODON,G|downstream_gene_variant|MODIFIER|NS1|GENE_NS1|transcript|TRANSCRIPT_NS1|protein_coding||c.*1410A>G|||||1410|WARNING_TRANSCRIPT_NO_STOP_CODON,G|non_coding_transcript_variant|MODIFIER|EDEN.1|null|transcript|EDEN.1|protein_coding||||||||WARNING_TRANSCRIPT_NO_START_CODON","LOW","Synonymous","GT:PL","1/1:255,255,0"]
["KP164568_BHI3734_H804698_2014_08_26_Human_Brazil",3110,".","T",5,{"$f":"E40*100/J40","v":0.531914893617021},"C",935,{"$f":"H40*100/J40","v":99.468085106383},{"$f":"H40+E40","v":940},221.999,"PASS","DP=935;VDB=9.61741e-22;SGB=-0.693147;RPB=0.779474;MQB=0.0113615;MQSB=1.52151e-09;BQB=0.867505;MQ0F=0.00748663;AF1=1;AC1=2;DP4=1,2,181,616;MQ=20;FQ=-281.989;PV4=0.539516,0.328556,1.02612e-07,0.422431;ANN=C|synonymous_variant|LOW|NS2|GENE_NS2|transcript|TRANSCRIPT_NS2|protein_coding|1/1|c.1428T>C|p.Asn476Asn|1428/2394|1428/2394|476/797||WARNING_TRANSCRIPT_NO_START_CODON,C|upstream_gene_variant|MODIFIER|NS3|GENE_NS3|transcript|TRANSCRIPT_NS3|protein_coding||c.-967T>C|||||967|WARNING_TRANSCRIPT_NO_START_CODON,C|upstream_gene_variant|MODIFIER|NS4|GENE_NS4|transcript|TRANSCRIPT_NS4|protein_coding||c.-2557T>C|||||2557|WARNING_TRANSCRIPT_NO_START_CODON,C|upstream_gene_variant|MODIFIER|capsid|GENE_capsid|transcript|TRANSCRIPT_capsid|protein_coding||c.-4458T>C|||||4458|WARNING_TRANSCRIPT_NO_STOP_CODON,C|downstream_gene_variant|MODIFIER|NS1|GENE_NS1|transcript|TRANSCRIPT_NS1|protein_coding||c.*1428T>C|||||1428|WARNING_TRANSCRIPT_NO_STOP_CODON,C|non_coding_transcript_variant|MODIFIER|EDEN.1|null|transcript|EDEN.1|protein_coding||||||||WARNING_TRANSCRIPT_NO_START_CODON","LOW","Synonymous","GT:PL","1/1:255,255,0"]
["KP164568_BHI3734_H804698_2014_08_26_Human_Brazil",3116,".","T",5,{"$f":"E41*100/J41","v":0.578703703703704},"C",859,{"$f":"H41*100/J41","v":99.4212962962963},{"$f":"H41+E41","v":864},221.999,"PASS","DP=860;VDB=3.31067e-33;SGB=-0.693147;RPB=0.915992;MQB=0.0113818;MQSB=2.75295e-07;BQB=0.993425;MQ0F=0.00813953;AF1=1;AC1=2;DP4=1,2,161,577;MQ=20;FQ=-281.989;PV4=0.523473,0.224448,9.12508e-08,1;ANN=C|synonymous_variant|LOW|NS2|GENE_NS2|transcript|TRANSCRIPT_NS2|protein_coding|1/1|c.1434T>C|p.Cys478Cys|1434/2394|1434/2394|478/797||WARNING_TRANSCRIPT_NO_START_CODON,C|upstream_gene_variant|MODIFIER|NS3|GENE_NS3|transcript|TRANSCRIPT_NS3|protein_coding||c.-961T>C|||||961|WARNING_TRANSCRIPT_NO_START_CODON,C|upstream_gene_variant|MODIFIER|NS4|GENE_NS4|transcript|TRANSCRIPT_NS4|protein_coding||c.-2551T>C|||||2551|WARNING_TRANSCRIPT_NO_START_CODON,C|upstream_gene_variant|MODIFIER|capsid|GENE_capsid|transcript|TRANSCRIPT_capsid|protein_coding||c.-4452T>C|||||4452|WARNING_TRANSCRIPT_NO_STOP_CODON,C|downstream_gene_variant|MODIFIER|NS1|GENE_NS1|transcript|TRANSCRIPT_NS1|protein_coding||c.*1434T>C|||||1434|WARNING_TRANSCRIPT_NO_STOP_CODON,C|non_coding_transcript_variant|MODIFIER|EDEN.1|null|transcript|EDEN.1|protein_coding||||||||WARNING_TRANSCRIPT_NO_START_CODON","LOW","Synonymous","GT:PL","1/1:255,255,0"]
["KP164568_BHI3734_H804698_2014_08_26_Human_Brazil",3224,".","T",0,{"$f":"E42*100/J42","v":0},"C",210,{"$f":"H42*100/J42","v":100},{"$f":"H42+E42","v":210},221.999,"PASS","DP=210;VDB=0.207018;SGB=-0.693147;MQSB=0.000685072;MQ0F=0;AF1=1;AC1=2;DP4=0,0,104,43;MQ=23;FQ=-281.989;ANN=C|synonymous_variant|LOW|NS2|GENE_NS2|transcript|TRANSCRIPT_NS2|protein_coding|1/1|c.1542T>C|p.Pro514Pro|1542/2394|1542/2394|514/797||WARNING_TRANSCRIPT_NO_START_CODON,C|upstream_gene_variant|MODIFIER|NS3|GENE_NS3|transcript|TRANSCRIPT_NS3|protein_coding||c.-853T>C|||||853|WARNING_TRANSCRIPT_NO_START_CODON,C|upstream_gene_variant|MODIFIER|NS4|GENE_NS4|transcript|TRANSCRIPT_NS4|protein_coding||c.-2443T>C|||||2443|WARNING_TRANSCRIPT_NO_START_CODON,C|upstream_gene_variant|MODIFIER|capsid|GENE_capsid|transcript|TRANSCRIPT_capsid|protein_coding||c.-4344T>C|||||4344|WARNING_TRANSCRIPT_NO_STOP_CODON,C|downstream_gene_variant|MODIFIER|NS1|GENE_NS1|transcript|TRANSCRIPT_NS1|protein_coding||c.*1542T>C|||||1542|WARNING_TRANSCRIPT_NO_STOP_CODON,C|non_coding_transcript_variant|MODIFIER|EDEN.1|null|transcript|EDEN.1|protein_coding||||||||WARNING_TRANSCRIPT_NO_START_CODON","LOW","Synonymous","GT:PL","1/1:255,255,0"]
["KP164568_BHI3734_H804698_2014_08_26_Human_Brazil",3446,".","C",5,{"$f":"E43*100/J43","v":1.71232876712329},"T",287,{"$f":"H43*100/J43","v":98.2876712328767},{"$f":"H43+E43","v":292},221.999,"PASS","DP=290;VDB=0.00667672;SGB=-0.693147;RPB=0.0621762;MQB=0.0103627;MQSB=0.998164;BQB=0.927461;MQ0F=0.00344828;AF1=1;AC1=2;DP4=1,1,165,28;MQ=22;FQ=-281.989;PV4=0.275971,1,0.000198579,1;ANN=T|synonymous_variant|LOW|NS2|GENE_NS2|transcript|TRANSCRIPT_NS2|protein_coding|1/1|c.1764C>T|p.Thr588Thr|1764/2394|1764/2394|588/797||WARNING_TRANSCRIPT_NO_START_CODON,T|upstream_gene_variant|MODIFIER|NS3|GENE_NS3|transcript|TRANSCRIPT_NS3|protein_coding||c.-631C>T|||||631|WARNING_TRANSCRIPT_NO_START_CODON,T|upstream_gene_variant|MODIFIER|NS4|GENE_NS4|transcript|TRANSCRIPT_NS4|protein_coding||c.-2221C>T|||||2221|WARNING_TRANSCRIPT_NO_START_CODON,T|upstream_gene_variant|MODIFIER|capsid|GENE_capsid|transcript|TRANSCRIPT_capsid|protein_coding||c.-4122C>T|||||4122|WARNING_TRANSCRIPT_NO_STOP_CODON,T|upstream_gene_variant|MODIFIER|E3|GENE_E3|transcript|TRANSCRIPT_E3|protein_coding||c.-4914C>T|||||4914|WARNING_TRANSCRIPT_NO_START_CODON,T|downstream_gene_variant|MODIFIER|NS1|GENE_NS1|transcript|TRANSCRIPT_NS1|protein_coding||c.*1764C>T|||||1764|WARNING_TRANSCRIPT_NO_STOP_CODON,T|non_coding_transcript_variant|MODIFIER|EDEN.1|null|transcript|EDEN.1|protein_coding||||||||WARNING_TRANSCRIPT_NO_START_CODON","LOW","Synonymous","GT:PL","1/1:255,255,0"]
["KP164568_BHI3734_H804698_2014_08_26_Human_Brazil",3467,".","T",10,{"$f":"E44*100/J44","v":3.71747211895911},"C",259,{"$f":"H44*100/J44","v":96.2825278810409},{"$f":"H44+E44","v":269},157.998,"PASS","DP=267;VDB=0.990789;SGB=-0.693147;RPB=0.447567;MQB=0.0144987;MQSB=3.25224e-06;BQB=0.722941;MQ0F=0;AF1=1;AC1=2;DP4=4,2,115,65;MQ=23;FQ=-281.989;PV4=1,1,1.35668e-07,1;ANN=C|synonymous_variant|LOW|NS2|GENE_NS2|transcript|TRANSCRIPT_NS2|protein_coding|1/1|c.1785T>C|p.Phe595Phe|1785/2394|1785/2394|595/797||WARNING_TRANSCRIPT_NO_START_CODON,C|upstream_gene_variant|MODIFIER|NS3|GENE_NS3|transcript|TRANSCRIPT_NS3|protein_coding||c.-610T>C|||||610|WARNING_TRANSCRIPT_NO_START_CODON,C|upstream_gene_variant|MODIFIER|NS4|GENE_NS4|transcript|TRANSCRIPT_NS4|protein_coding||c.-2200T>C|||||2200|WARNING_TRANSCRIPT_NO_START_CODON,C|upstream_gene_variant|MODIFIER|capsid|GENE_capsid|transcript|TRANSCRIPT_capsid|protein_coding||c.-4101T>C|||||4101|WARNING_TRANSCRIPT_NO_STOP_CODON,C|upstream_gene_variant|MODIFIER|E3|GENE_E3|transcript|TRANSCRIPT_E3|protein_coding||c.-4893T>C|||||4893|WARNING_TRANSCRIPT_NO_START_CODON,C|downstream_gene_variant|MODIFIER|NS1|GENE_NS1|transcript|TRANSCRIPT_NS1|protein_coding||c.*1785T>C|||||1785|WARNING_TRANSCRIPT_NO_STOP_CODON,C|non_coding_transcript_variant|MODIFIER|EDEN.1|null|transcript|EDEN.1|protein_coding||||||||WARNING_TRANSCRIPT_NO_START_CODON","LOW","Synonymous","GT:PL","1/1:191,255,0"]
["KP164568_BHI3734_H804698_2014_08_26_Human_Brazil",3482,".","T",11,{"$f":"E45*100/J45","v":3.33333333333333},"C",319,{"$f":"H45*100/J45","v":96.6666666666667},{"$f":"H45+E45","v":330},192.999,"PASS","DP=328;VDB=1;SGB=-0.693147;RPB=0.988394;MQB=0.000725489;MQSB=7.00393e-08;BQB=0.790427;MQ0F=0;AF1=1;AC1=2;DP4=3,2,127,88;MQ=24;FQ=-281.989;PV4=1,0.439532,2.38217e-12,0.118133;ANN=C|synonymous_variant|LOW|NS2|GENE_NS2|transcript|TRANSCRIPT_NS2|protein_coding|1/1|c.1800T>C|p.Asn600Asn|1800/2394|1800/2394|600/797||WARNING_TRANSCRIPT_NO_START_CODON,C|upstream_gene_variant|MODIFIER|NS3|GENE_NS3|transcript|TRANSCRIPT_NS3|protein_coding||c.-595T>C|||||595|WARNING_TRANSCRIPT_NO_START_CODON,C|upstream_gene_variant|MODIFIER|NS4|GENE_NS4|transcript|TRANSCRIPT_NS4|protein_coding||c.-2185T>C|||||2185|WARNING_TRANSCRIPT_NO_START_CODON,C|upstream_gene_variant|MODIFIER|capsid|GENE_capsid|transcript|TRANSCRIPT_capsid|protein_coding||c.-4086T>C|||||4086|WARNING_TRANSCRIPT_NO_STOP_CODON,C|upstream_gene_variant|MODIFIER|E3|GENE_E3|transcript|TRANSCRIPT_E3|protein_coding||c.-4878T>C|||||4878|WARNING_TRANSCRIPT_NO_START_CODON,C|downstream_gene_variant|MODIFIER|NS1|GENE_NS1|transcript|TRANSCRIPT_NS1|protein_coding||c.*1800T>C|||||1800|WARNING_TRANSCRIPT_NO_STOP_CODON,C|non_coding_transcript_variant|MODIFIER|EDEN.1|null|transcript|EDEN.1|protein_coding||||||||WARNING_TRANSCRIPT_NO_START_CODON","LOW","Synonymous","GT:PL","1/1:226,255,0"]
["KP164568_BHI3734_H804698_2014_08_26_Human_Brazil",3497,".","T",6,{"$f":"E46*100/J46","v":2.02020202020202},"C",291,{"$f":"H46*100/J46","v":97.979797979798},{"$f":"H46+E46","v":297},221.999,"PASS","DP=297;VDB=0.000291475;SGB=-0.693147;RPB=0.530406;MQB=0.0030774;MQSB=0.000187106;BQB=0.944094;MQ0F=0;AF1=1;AC1=2;DP4=2,2,112,77;MQ=25;FQ=-281.989;PV4=1,1,5.71804e-07,0.429135;ANN=C|synonymous_variant|LOW|NS2|GENE_NS2|transcript|TRANSCRIPT_NS2|protein_coding|1/1|c.1815T>C|p.Asn605Asn|1815/2394|1815/2394|605/797||WARNING_TRANSCRIPT_NO_START_CODON,C|upstream_gene_variant|MODIFIER|NS3|GENE_NS3|transcript|TRANSCRIPT_NS3|protein_coding||c.-580T>C|||||580|WARNING_TRANSCRIPT_NO_START_CODON,C|upstream_gene_variant|MODIFIER|NS4|GENE_NS4|transcript|TRANSCRIPT_NS4|protein_coding||c.-2170T>C|||||2170|WARNING_TRANSCRIPT_NO_START_CODON,C|upstream_gene_variant|MODIFIER|capsid|GENE_capsid|transcript|TRANSCRIPT_capsid|protein_coding||c.-4071T>C|||||4071|WARNING_TRANSCRIPT_NO_STOP_CODON,C|upstream_gene_variant|MODIFIER|E3|GENE_E3|transcript|TRANSCRIPT_E3|protein_coding||c.-4863T>C|||||4863|WARNING_TRANSCRIPT_NO_START_CODON,C|downstream_gene_variant|MODIFIER|NS1|GENE_NS1|transcript|TRANSCRIPT_NS1|protein_coding||c.*1815T>C|||||1815|WARNING_TRANSCRIPT_NO_STOP_CODON,C|non_coding_transcript_variant|MODIFIER|EDEN.1|null|transcript|EDEN.1|protein_coding||||||||WARNING_TRANSCRIPT_NO_START_CODON","LOW","Synonymous","GT:PL","1/1:255,255,0"]
["KP164568_BHI3734_H804698_2014_08_26_Human_Brazil",3503,".","A",5,{"$f":"E47*100/J47","v":1.71821305841924},"G",286,{"$f":"H47*100/J47","v":98.2817869415808},{"$f":"H47+E47","v":291},221.999,"PASS","DP=290;VDB=9.89304e-08;SGB=-0.693147;RPB=0.752591;MQB=0.0153497;MQSB=1.67367e-05;BQB=0.818168;MQ0F=0;AF1=1;AC1=2;DP4=2,1,107,82;MQ=26;FQ=-281.989;PV4=1,0.254031,4.59379e-05,0.139798;ANN=G|synonymous_variant|LOW|NS2|GENE_NS2|transcript|TRANSCRIPT_NS2|protein_coding|1/1|c.1821A>G|p.Arg607Arg|1821/2394|1821/2394|607/797||WARNING_TRANSCRIPT_NO_START_CODON,G|upstream_gene_variant|MODIFIER|NS3|GENE_NS3|transcript|TRANSCRIPT_NS3|protein_coding||c.-574A>G|||||574|WARNING_TRANSCRIPT_NO_START_CODON,G|upstream_gene_variant|MODIFIER|NS4|GENE_NS4|transcript|TRANSCRIPT_NS4|protein_coding||c.-2164A>G|||||2164|WARNING_TRANSCRIPT_NO_START_CODON,G|upstream_gene_variant|MODIFIER|capsid|GENE_capsid|transcript|TRANSCRIPT_capsid|protein_coding||c.-4065A>G|||||4065|WARNING_TRANSCRIPT_NO_STOP_CODON,G|upstream_gene_variant|MODIFIER|E3|GENE_E3|transcript|TRANSCRIPT_E3|protein_coding||c.-4857A>G|||||4857|WARNING_TRANSCRIPT_NO_START_CODON,G|downstream_gene_variant|MODIFIER|NS1|GENE_NS1|transcript|TRANSCRIPT_NS1|protein_coding||c.*1821A>G|||||1821|WARNING_TRANSCRIPT_NO_STOP_CODON,G|non_coding_transcript_variant|MODIFIER|EDEN.1|null|transcript|EDEN.1|protein_coding||||||||WARNING_TRANSCRIPT_NO_START_CODON","LOW","Synonymous","GT:PL","1/1:255,255,0"]
["KP164568_BHI3734_H804698_2014_08_26_Human_Brazil",3863,".","T",6,{"$f":"E48*100/J48","v":2.83018867924528},"C",206,{"$f":"H48*100/J48","v":97.1698113207547},{"$f":"H48+E48","v":212},135.998,"PASS","DP=210;VDB=1.2957e-40;SGB=-0.693147;RPB=0.0431958;MQB=0.00358904;MQSB=1;BQB=0.122837;MQ0F=0.161905;AF1=1;AC1=2;DP4=5,0,153,1;MQ=27;FQ=-281.989;PV4=1,1,0.00216729,1;ANN=C|synonymous_variant|LOW|NS2|GENE_NS2|transcript|TRANSCRIPT_NS2|protein_coding|1/1|c.2181T>C|p.Tyr727Tyr|2181/2394|2181/2394|727/797||WARNING_TRANSCRIPT_NO_START_CODON,C|upstream_gene_variant|MODIFIER|NS3|GENE_NS3|transcript|TRANSCRIPT_NS3|protein_coding||c.-214T>C|||||214|WARNING_TRANSCRIPT_NO_START_CODON,C|upstream_gene_variant|MODIFIER|NS4|GENE_NS4|transcript|TRANSCRIPT_NS4|protein_coding||c.-1804T>C|||||1804|WARNING_TRANSCRIPT_NO_START_CODON,C|upstream_gene_variant|MODIFIER|capsid|GENE_capsid|transcript|TRANSCRIPT_capsid|protein_coding||c.-3705T>C|||||3705|WARNING_TRANSCRIPT_NO_STOP_CODON,C|upstream_gene_variant|MODIFIER|E3|GENE_E3|transcript|TRANSCRIPT_E3|protein_coding||c.-4497T>C|||||4497|WARNING_TRANSCRIPT_NO_START_CODON,C|upstream_gene_variant|MODIFIER|E2|GENE_E2|transcript|TRANSCRIPT_E2|protein_coding||c.-4680T>C|||||4680|WARNING_TRANSCRIPT_NO_START_CODON,C|downstream_gene_variant|MODIFIER|NS1|GENE_NS1|transcript|TRANSCRIPT_NS1|protein_coding||c.*2181T>C|||||2181|WARNING_TRANSCRIPT_NO_STOP_CODON,C|non_coding_transcript_variant|MODIFIER|EDEN.1|null|transcript|EDEN.1|protein_coding||||||||WARNING_TRANSCRIPT_NO_START_CODON","LOW","Synonymous","GT:PL","1/1:169,255,0"]
["KP164568_BHI3734_H804698_2014_08_26_Human_Brazil",4082,".","G",10,{"$f":"E49*100/J49","v":3.57142857142857},"A",270,{"$f":"H49*100/J49","v":96.4285714285714},{"$f":"H49+E49","v":280},221.999,"PASS","DP=276;VDB=0;SGB=-0.693147;RPB=0.962106;MQB=7.52061e-06;MQSB=1.48396e-19;BQB=0.935791;MQ0F=0.202899;AF1=1;AC1=2;DP4=7,2,74,135;MQ=25;FQ=-281.989;PV4=0.0142969,1,1.04293e-05,0.0704071;ANN=A|synonymous_variant|LOW|NS3|GENE_NS3|transcript|TRANSCRIPT_NS3|protein_coding|1/1|c.6G>A|p.Pro2Pro|6/1572|6/1572|2/523||WARNING_TRANSCRIPT_NO_START_CODON,A|upstream_gene_variant|MODIFIER|NS4|GENE_NS4|transcript|TRANSCRIPT_NS4|protein_coding||c.-1585G>A|||||1585|WARNING_TRANSCRIPT_NO_START_CODON,A|upstream_gene_variant|MODIFIER|capsid|GENE_capsid|transcript|TRANSCRIPT_capsid|protein_coding||c.-3486G>A|||||3486|WARNING_TRANSCRIPT_NO_STOP_CODON,A|upstream_gene_variant|MODIFIER|E3|GENE_E3|transcript|TRANSCRIPT_E3|protein_coding||c.-4278G>A|||||4278|WARNING_TRANSCRIPT_NO_START_CODON,A|upstream_gene_variant|MODIFIER|E2|GENE_E2|transcript|TRANSCRIPT_E2|protein_coding||c.-4461G>A|||||4461|WARNING_TRANSCRIPT_NO_START_CODON,A|downstream_gene_variant|MODIFIER|NS1|GENE_NS1|transcript|TRANSCRIPT_NS1|protein_coding||c.*2400G>A|||||2400|WARNING_TRANSCRIPT_NO_STOP_CODON,A|downstream_gene_variant|MODIFIER|NS2|GENE_NS2|transcript|TRANSCRIPT_NS2|protein_coding||c.*6G>A|||||6|WARNING_TRANSCRIPT_NO_START_CODON,A|non_coding_transcript_variant|MODIFIER|EDEN.1|null|transcript|EDEN.1|protein_coding||||||||WARNING_TRANSCRIPT_NO_START_CODON","LOW","Synonymous","GT:PL","1/1:255,255,0"]
["KP164568_BHI3734_H804698_2014_08_26_Human_Brazil",4670,".","C",0,{"$f":"E50*100/J50","v":0},"T",202,{"$f":"H50*100/J50","v":100},{"$f":"H50+E50","v":202},221.999,"PASS","DP=202;VDB=0.198702;SGB=-0.693147;MQSB=0.0772932;MQ0F=0;AF1=1;AC1=2;DP4=0,0,110,39;MQ=19;FQ=-281.989;ANN=T|synonymous_variant|LOW|NS3|GENE_NS3|transcript|TRANSCRIPT_NS3|protein_coding|1/1|c.594C>T|p.Tyr198Tyr|594/1572|594/1572|198/523||WARNING_TRANSCRIPT_NO_START_CODON,T|upstream_gene_variant|MODIFIER|NS4|GENE_NS4|transcript|TRANSCRIPT_NS4|protein_coding||c.-997C>T|||||997|WARNING_TRANSCRIPT_NO_START_CODON,T|upstream_gene_variant|MODIFIER|capsid|GENE_capsid|transcript|TRANSCRIPT_capsid|protein_coding||c.-2898C>T|||||2898|WARNING_TRANSCRIPT_NO_STOP_CODON,T|upstream_gene_variant|MODIFIER|E3|GENE_E3|transcript|TRANSCRIPT_E3|protein_coding||c.-3690C>T|||||3690|WARNING_TRANSCRIPT_NO_START_CODON,T|upstream_gene_variant|MODIFIER|E2|GENE_E2|transcript|TRANSCRIPT_E2|protein_coding||c.-3873C>T|||||3873|WARNING_TRANSCRIPT_NO_START_CODON,T|downstream_gene_variant|MODIFIER|NS1|GENE_NS1|transcript|TRANSCRIPT_NS1|protein_coding||c.*2988C>T|||||2988|WARNING_TRANSCRIPT_NO_STOP_CODON,T|downstream_gene_variant|MODIFIER|NS2|GENE_NS2|transcript|TRANSCRIPT_NS2|protein_coding||c.*594C>T|||||594|WARNING_TRANSCRIPT_NO_START_CODON,T|non_coding_transcript_variant|MODIFIER|EDEN.1|null|transcript|EDEN.1|protein_coding||||||||WARNING_TRANSCRIPT_NO_START_CODON","LOW","Synonymous","GT:PL","1/1:255,255,0"]
["KP164568_BHI3734_H804698_2014_08_26_Human_Brazil",4688,".","T",2,{"$f":"E51*100/J51","v":0.900900900900901},"A",220,{"$f":"H51*100/J51","v":99.0990990990991},{"$f":"H51+E51","v":222},174.998,"PASS","DP=222;VDB=0.020176;SGB=-0.693147;RPB=1;MQB=1;MQSB=0.00121679;BQB=1;MQ0F=0;AF1=1;AC1=2;DP4=1,0,113,32;MQ=17;FQ=-281.989;PV4=1,0.150275,0.00194457,1;ANN=A|synonymous_variant|LOW|NS3|GENE_NS3|transcript|TRANSCRIPT_NS3|protein_coding|1/1|c.612T>A|p.Thr204Thr|612/1572|612/1572|204/523||WARNING_TRANSCRIPT_NO_START_CODON,A|upstream_gene_variant|MODIFIER|NS4|GENE_NS4|transcript|TRANSCRIPT_NS4|protein_coding||c.-979T>A|||||979|WARNING_TRANSCRIPT_NO_START_CODON,A|upstream_gene_variant|MODIFIER|capsid|GENE_capsid|transcript|TRANSCRIPT_capsid|protein_coding||c.-2880T>A|||||2880|WARNING_TRANSCRIPT_NO_STOP_CODON,A|upstream_gene_variant|MODIFIER|E3|GENE_E3|transcript|TRANSCRIPT_E3|protein_coding||c.-3672T>A|||||3672|WARNING_TRANSCRIPT_NO_START_CODON,A|upstream_gene_variant|MODIFIER|E2|GENE_E2|transcript|TRANSCRIPT_E2|protein_coding||c.-3855T>A|||||3855|WARNING_TRANSCRIPT_NO_START_CODON,A|downstream_gene_variant|MODIFIER|NS1|GENE_NS1|transcript|TRANSCRIPT_NS1|protein_coding||c.*3006T>A|||||3006|WARNING_TRANSCRIPT_NO_STOP_CODON,A|downstream_gene_variant|MODIFIER|NS2|GENE_NS2|transcript|TRANSCRIPT_NS2|protein_coding||c.*612T>A|||||612|WARNING_TRANSCRIPT_NO_START_CODON,A|non_coding_transcript_variant|MODIFIER|EDEN.1|null|transcript|EDEN.1|protein_coding||||||||WARNING_TRANSCRIPT_NO_START_CODON","LOW","Synonymous","GT:PL","1/1:208,255,0"]
["KP164568_BHI3734_H804698_2014_08_26_Human_Brazil",4712,".","C",2,{"$f":"E52*100/J52","v":0.947867298578199},"T",209,{"$f":"H52*100/J52","v":99.0521327014218},{"$f":"H52+E52","v":211},139.998,"PASS","DP=211;VDB=0.00565022;SGB=-0.693147;RPB=1;MQB=1;MQSB=0.495344;BQB=1;MQ0F=0.014218;AF1=1;AC1=2;DP4=1,0,87,60;MQ=16;FQ=-281.989;PV4=1,0.107662,0.000345816,0.447893;ANN=T|synonymous_variant|LOW|NS3|GENE_NS3|transcript|TRANSCRIPT_NS3|protein_coding|1/1|c.636C>T|p.Asp212Asp|636/1572|636/1572|212/523||WARNING_TRANSCRIPT_NO_START_CODON,T|upstream_gene_variant|MODIFIER|NS4|GENE_NS4|transcript|TRANSCRIPT_NS4|protein_coding||c.-955C>T|||||955|WARNING_TRANSCRIPT_NO_START_CODON,T|upstream_gene_variant|MODIFIER|capsid|GENE_capsid|transcript|TRANSCRIPT_capsid|protein_coding||c.-2856C>T|||||2856|WARNING_TRANSCRIPT_NO_STOP_CODON,T|upstream_gene_variant|MODIFIER|E3|GENE_E3|transcript|TRANSCRIPT_E3|protein_coding||c.-3648C>T|||||3648|WARNING_TRANSCRIPT_NO_START_CODON,T|upstream_gene_variant|MODIFIER|E2|GENE_E2|transcript|TRANSCRIPT_E2|protein_coding||c.-3831C>T|||||3831|WARNING_TRANSCRIPT_NO_START_CODON,T|downstream_gene_variant|MODIFIER|NS1|GENE_NS1|transcript|TRANSCRIPT_NS1|protein_coding||c.*3030C>T|||||3030|WARNING_TRANSCRIPT_NO_STOP_CODON,T|downstream_gene_variant|MODIFIER|NS2|GENE_NS2|transcript|TRANSCRIPT_NS2|protein_coding||c.*636C>T|||||636|WARNING_TRANSCRIPT_NO_START_CODON,T|non_coding_transcript_variant|MODIFIER|EDEN.1|null|transcript|EDEN.1|protein_coding||||||||WARNING_TRANSCRIPT_NO_START_CODON","LOW","Synonymous","GT:PL","1/1:173,255,0"]
["KP164568_BHI3734_H804698_2014_08_26_Human_Brazil",4713,".","A",2,{"$f":"E53*100/J53","v":0.970873786407767},"G",204,{"$f":"H53*100/J53","v":99.0291262135922},{"$f":"H53+E53","v":206},121.998,"PASS","DP=206;VDB=0.00178606;SGB=-0.693147;RPB=1;MQB=1;MQSB=0.179735;BQB=1;MQ0F=0.0145631;AF1=1;AC1=2;DP4=1,0,87,55;MQ=15;FQ=-281.989;PV4=1,0.115425,0.000201363,1;ANN=G|missense_variant|MODERATE|NS3|GENE_NS3|transcript|TRANSCRIPT_NS3|protein_coding|1/1|c.637A>G|p.Met213Val|637/1572|637/1572|213/523||WARNING_TRANSCRIPT_NO_START_CODON,G|upstream_gene_variant|MODIFIER|NS4|GENE_NS4|transcript|TRANSCRIPT_NS4|protein_coding||c.-954A>G|||||954|WARNING_TRANSCRIPT_NO_START_CODON,G|upstream_gene_variant|MODIFIER|capsid|GENE_capsid|transcript|TRANSCRIPT_capsid|protein_coding||c.-2855A>G|||||2855|WARNING_TRANSCRIPT_NO_STOP_CODON,G|upstream_gene_variant|MODIFIER|E3|GENE_E3|transcript|TRANSCRIPT_E3|protein_coding||c.-3647A>G|||||3647|WARNING_TRANSCRIPT_NO_START_CODON,G|upstream_gene_variant|MODIFIER|E2|GENE_E2|transcript|TRANSCRIPT_E2|protein_coding||c.-3830A>G|||||3830|WARNING_TRANSCRIPT_NO_START_CODON,G|downstream_gene_variant|MODIFIER|NS1|GENE_NS1|transcript|TRANSCRIPT_NS1|protein_coding||c.*3031A>G|||||3031|WARNING_TRANSCRIPT_NO_STOP_CODON,G|downstream_gene_variant|MODIFIER|NS2|GENE_NS2|transcript|TRANSCRIPT_NS2|protein_coding||c.*637A>G|||||637|WARNING_TRANSCRIPT_NO_START_CODON,G|non_coding_transcript_variant|MODIFIER|EDEN.1|null|transcript|EDEN.1|protein_coding||||||||WARNING_TRANSCRIPT_NO_START_CODON","MODERATE","Non-synonymous","GT:PL","1/1:155,255,0"]
["KP164568_BHI3734_H804698_2014_08_26_Human_Brazil",4725,".","T",3,{"$f":"E54*100/J54","v":1.38888888888889},"C",213,{"$f":"H54*100/J54","v":98.6111111111111},{"$f":"H54+E54","v":216},132.998,"PASS","DP=216;VDB=0.999774;SGB=-0.693147;RPB=0.93038;MQB=0.0601266;MQSB=0.709892;BQB=0.712025;MQ0F=0.0138889;AF1=1;AC1=2;DP4=2,0,76,82;MQ=16;FQ=-281.989;PV4=0.236085,0.333898,0.000841945,1;ANN=C|missense_variant|MODERATE|NS3|GENE_NS3|transcript|TRANSCRIPT_NS3|protein_coding|1/1|c.649T>C|p.Tyr217His|649/1572|649/1572|217/523||WARNING_TRANSCRIPT_NO_START_CODON,C|upstream_gene_variant|MODIFIER|NS4|GENE_NS4|transcript|TRANSCRIPT_NS4|protein_coding||c.-942T>C|||||942|WARNING_TRANSCRIPT_NO_START_CODON,C|upstream_gene_variant|MODIFIER|capsid|GENE_capsid|transcript|TRANSCRIPT_capsid|protein_coding||c.-2843T>C|||||2843|WARNING_TRANSCRIPT_NO_STOP_CODON,C|upstream_gene_variant|MODIFIER|E3|GENE_E3|transcript|TRANSCRIPT_E3|protein_coding||c.-3635T>C|||||3635|WARNING_TRANSCRIPT_NO_START_CODON,C|upstream_gene_variant|MODIFIER|E2|GENE_E2|transcript|TRANSCRIPT_E2|protein_coding||c.-3818T>C|||||3818|WARNING_TRANSCRIPT_NO_START_CODON,C|downstream_gene_variant|MODIFIER|NS1|GENE_NS1|transcript|TRANSCRIPT_NS1|protein_coding||c.*3043T>C|||||3043|WARNING_TRANSCRIPT_NO_STOP_CODON,C|downstream_gene_variant|MODIFIER|NS2|GENE_NS2|transcript|TRANSCRIPT_NS2|protein_coding||c.*649T>C|||||649|WARNING_TRANSCRIPT_NO_START_CODON,C|non_coding_transcript_variant|MODIFIER|EDEN.1|null|transcript|EDEN.1|protein_coding||||||||WARNING_TRANSCRIPT_NO_START_CODON","MODERATE","Non-synonymous","GT:PL","1/1:166,255,0"]
["KP164568_BHI3734_H804698_2014_08_26_Human_Brazil",4744,null,"A",178,{"$f":"E55*100/J55","v":79.4642857142857},"C",46,{"$f":"H55*100/J55","v":20.5357142857143},{"$f":"H55+E55","v":224},null,null,"Gln -> Pro","MODERATE","Non-synonymous"]
["KP164568_BHI3734_H804698_2014_08_26_Human_Brazil",4747,".","C",1,{"$f":"E56*100/J56","v":0.450450450450451},"T",221,{"$f":"H56*100/J56","v":99.5495495495496},{"$f":"H56+E56","v":222},194.999,"PASS","DP=222;VDB=0.999995;SGB=-0.693147;RPB=1;MQB=1;MQSB=0.132952;BQB=1;MQ0F=0.0135135;AF1=1;AC1=2;DP4=1,0,85,74;MQ=17;FQ=-281.989;PV4=1,1,0.159253,0.126039;ANN=T|missense_variant|MODERATE|NS3|GENE_NS3|transcript|TRANSCRIPT_NS3|protein_coding|1/1|c.671C>T|p.Thr224Ile|671/1572|671/1572|224/523||WARNING_TRANSCRIPT_NO_START_CODON,T|upstream_gene_variant|MODIFIER|NS4|GENE_NS4|transcript|TRANSCRIPT_NS4|protein_coding||c.-920C>T|||||920|WARNING_TRANSCRIPT_NO_START_CODON,T|upstream_gene_variant|MODIFIER|capsid|GENE_capsid|transcript|TRANSCRIPT_capsid|protein_coding||c.-2821C>T|||||2821|WARNING_TRANSCRIPT_NO_STOP_CODON,T|upstream_gene_variant|MODIFIER|E3|GENE_E3|transcript|TRANSCRIPT_E3|protein_coding||c.-3613C>T|||||3613|WARNING_TRANSCRIPT_NO_START_CODON,T|upstream_gene_variant|MODIFIER|E2|GENE_E2|transcript|TRANSCRIPT_E2|protein_coding||c.-3796C>T|||||3796|WARNING_TRANSCRIPT_NO_START_CODON,T|downstream_gene_variant|MODIFIER|NS1|GENE_NS1|transcript|TRANSCRIPT_NS1|protein_coding||c.*3065C>T|||||3065|WARNING_TRANSCRIPT_NO_STOP_CODON,T|downstream_gene_variant|MODIFIER|NS2|GENE_NS2|transcript|TRANSCRIPT_NS2|protein_coding||c.*671C>T|||||671|WARNING_TRANSCRIPT_NO_START_CODON,T|non_coding_transcript_variant|MODIFIER|EDEN.1|null|transcript|EDEN.1|protein_coding||||||||WARNING_TRANSCRIPT_NO_START_CODON","MODERATE","Non-synonymous","GT:PL","1/1:228,255,0"]
["KP164568_BHI3734_H804698_2014_08_26_Human_Brazil",5585,".","A",281,{"$f":"E57*100/J57","v":64.5977011494253},"T",154,{"$f":"H57*100/J57","v":35.4022988505747},{"$f":"H57+E57","v":435},101.008,"PASS","DP=436;VDB=0;SGB=-0.693147;RPB=0.0431956;MQB=0.000162767;BQB=0.362084;MQ0F=0;AF1=0.5;AC1=1;DP4=250,0,137,0;MQ=39;FQ=104.016;PV4=1,0.4446,9.18129e-07,0.0137763;ANN=T|synonymous_variant|LOW|NS3|GENE_NS3|transcript|TRANSCRIPT_NS3|protein_coding|1/1|c.1509A>T|p.Gly503Gly|1509/1572|1509/1572|503/523||WARNING_TRANSCRIPT_NO_START_CODON,T|upstream_gene_variant|MODIFIER|NS4|GENE_NS4|transcript|TRANSCRIPT_NS4|protein_coding||c.-82A>T|||||82|WARNING_TRANSCRIPT_NO_START_CODON,T|upstream_gene_variant|MODIFIER|capsid|GENE_capsid|transcript|TRANSCRIPT_capsid|protein_coding||c.-1983A>T|||||1983|WARNING_TRANSCRIPT_NO_STOP_CODON,T|upstream_gene_variant|MODIFIER|E3|GENE_E3|transcript|TRANSCRIPT_E3|protein_coding||c.-2775A>T|||||2775|WARNING_TRANSCRIPT_NO_START_CODON,T|upstream_gene_variant|MODIFIER|E2|GENE_E2|transcript|TRANSCRIPT_E2|protein_coding||c.-2958A>T|||||2958|WARNING_TRANSCRIPT_NO_START_CODON,T|upstream_gene_variant|MODIFIER|6K|GENE_6K|transcript|TRANSCRIPT_6K|protein_coding||c.-4227A>T|||||4227|WARNING_TRANSCRIPT_NO_START_CODON,T|upstream_gene_variant|MODIFIER|E1|GENE_E1|transcript|TRANSCRIPT_E1|protein_coding||c.-4410A>T|||||4410|WARNING_TRANSCRIPT_NO_START_CODON,T|downstream_gene_variant|MODIFIER|NS1|GENE_NS1|transcript|TRANSCRIPT_NS1|protein_coding||c.*3903A>T|||||3903|WARNING_TRANSCRIPT_NO_STOP_CODON,T|downstream_gene_variant|MODIFIER|NS2|GENE_NS2|transcript|TRANSCRIPT_NS2|protein_coding||c.*1509A>T|||||1509|WARNING_TRANSCRIPT_NO_START_CODON,T|non_coding_transcript_variant|MODIFIER|EDEN.1|null|transcript|EDEN.1|protein_coding||||||||WARNING_TRANSCRIPT_NO_START_CODON","LOW","Synonymous","GT:PL","0/1:131,0,227"]
["KP164568_BHI3734_H804698_2014_08_26_Human_Brazil",5597,null,"C",467,{"$f":"E58*100/J58","v":70.0149925037481},"T",200,{"$f":"H58*100/J58","v":29.9850074962519},{"$f":"H58+E58","v":667},null,null,null,"LOW","Synonymous"]
["KP164568_BHI3734_H804698_2014_08_26_Human_Brazil",5687,".","C",1074,{"$f":"E59*100/J59","v":71.2201591511936},"T",434,{"$f":"H59*100/J59","v":28.7798408488064},{"$f":"H59+E59","v":1508},143.008,"PASS","DP=1498;VDB=0.0301946;SGB=-0.693147;RPB=1.77181e-06;MQB=0;MQSB=0.816346;BQB=0.996426;MQ0F=0;AF1=0.5;AC1=1;DP4=719,128,246,103;MQ=40;FQ=146.016;PV4=3.16113e-08,0.218577,0,0.0326597;ANN=T|synonymous_variant|LOW|NS4|GENE_NS4|transcript|TRANSCRIPT_NS4|protein_coding|1/1|c.21C>T|p.Thr7Thr|21/1833|21/1833|7/610||WARNING_TRANSCRIPT_NO_START_CODON,T|upstream_gene_variant|MODIFIER|capsid|GENE_capsid|transcript|TRANSCRIPT_capsid|protein_coding||c.-1881C>T|||||1881|WARNING_TRANSCRIPT_NO_STOP_CODON,T|upstream_gene_variant|MODIFIER|E3|GENE_E3|transcript|TRANSCRIPT_E3|protein_coding||c.-2673C>T|||||2673|WARNING_TRANSCRIPT_NO_START_CODON,T|upstream_gene_variant|MODIFIER|E2|GENE_E2|transcript|TRANSCRIPT_E2|protein_coding||c.-2856C>T|||||2856|WARNING_TRANSCRIPT_NO_START_CODON,T|upstream_gene_variant|MODIFIER|6K|GENE_6K|transcript|TRANSCRIPT_6K|protein_coding||c.-4125C>T|||||4125|WARNING_TRANSCRIPT_NO_START_CODON,T|upstream_gene_variant|MODIFIER|E1|GENE_E1|transcript|TRANSCRIPT_E1|protein_coding||c.-4308C>T|||||4308|WARNING_TRANSCRIPT_NO_START_CODON,T|downstream_gene_variant|MODIFIER|NS1|GENE_NS1|transcript|TRANSCRIPT_NS1|protein_coding||c.*4005C>T|||||4005|WARNING_TRANSCRIPT_NO_STOP_CODON,T|downstream_gene_variant|MODIFIER|NS2|GENE_NS2|transcript|TRANSCRIPT_NS2|protein_coding||c.*1611C>T|||||1611|WARNING_TRANSCRIPT_NO_START_CODON,T|downstream_gene_variant|MODIFIER|NS3|GENE_NS3|transcript|TRANSCRIPT_NS3|protein_coding||c.*39C>T|||||39|WARNING_TRANSCRIPT_NO_START_CODON,T|non_coding_transcript_variant|MODIFIER|EDEN.1|null|transcript|EDEN.1|protein_coding||||||||WARNING_TRANSCRIPT_NO_START_CODON","LOW","Synonymous","GT:PL","0/1:173,0,255"]
["KP164568_BHI3734_H804698_2014_08_26_Human_Brazil",5696,".","T",1240,{"$f":"E60*100/J60","v":75.1970891449363},"C",409,{"$f":"H60*100/J60","v":24.8029108550637},{"$f":"H60+E60","v":1649},80.0075,"PASS","DP=1643;VDB=0.0396885;SGB=-0.693147;RPB=0.110136;MQB=0;MQSB=0.404417;BQB=0.0369974;MQ0F=0;AF1=0.5;AC1=1;DP4=826,128,255,78;MQ=39;FQ=83.0157;PV4=3.99526e-05,0.00647026,0,0.189985;ANN=C|synonymous_variant|LOW|NS4|GENE_NS4|transcript|TRANSCRIPT_NS4|protein_coding|1/1|c.30T>C|p.Gly10Gly|30/1833|30/1833|10/610||WARNING_TRANSCRIPT_NO_START_CODON,C|upstream_gene_variant|MODIFIER|capsid|GENE_capsid|transcript|TRANSCRIPT_capsid|protein_coding||c.-1872T>C|||||1872|WARNING_TRANSCRIPT_NO_STOP_CODON,C|upstream_gene_variant|MODIFIER|E3|GENE_E3|transcript|TRANSCRIPT_E3|protein_coding||c.-2664T>C|||||2664|WARNING_TRANSCRIPT_NO_START_CODON,C|upstream_gene_variant|MODIFIER|E2|GENE_E2|transcript|TRANSCRIPT_E2|protein_coding||c.-2847T>C|||||2847|WARNING_TRANSCRIPT_NO_START_CODON,C|upstream_gene_variant|MODIFIER|6K|GENE_6K|transcript|TRANSCRIPT_6K|protein_coding||c.-4116T>C|||||4116|WARNING_TRANSCRIPT_NO_START_CODON,C|upstream_gene_variant|MODIFIER|E1|GENE_E1|transcript|TRANSCRIPT_E1|protein_coding||c.-4299T>C|||||4299|WARNING_TRANSCRIPT_NO_START_CODON,C|downstream_gene_variant|MODIFIER|NS1|GENE_NS1|transcript|TRANSCRIPT_NS1|protein_coding||c.*4014T>C|||||4014|WARNING_TRANSCRIPT_NO_STOP_CODON,C|downstream_gene_variant|MODIFIER|NS2|GENE_NS2|transcript|TRANSCRIPT_NS2|protein_coding||c.*1620T>C|||||1620|WARNING_TRANSCRIPT_NO_START_CODON,C|downstream_gene_variant|MODIFIER|NS3|GENE_NS3|transcript|TRANSCRIPT_NS3|protein_coding||c.*48T>C|||||48|WARNING_TRANSCRIPT_NO_START_CODON,C|non_coding_transcript_variant|MODIFIER|EDEN.1|null|transcript|EDEN.1|protein_coding||||||||WARNING_TRANSCRIPT_NO_START_CODON","LOW","Synonymous","GT:PL","0/1:110,0,255"]
["KP164568_BHI3734_H804698_2014_08_26_Human_Brazil",5714,".","A",1425,{"$f":"E61*100/J61","v":72.2250380131779},"G",548,{"$f":"H61*100/J61","v":27.7749619868221},{"$f":"H61+E61","v":1973},142.008,"PASS","DP=1966;VDB=0.998961;SGB=-0.693147;RPB=0.137224;MQB=0;MQSB=0.0207821;BQB=0.994857;MQ0F=0;AF1=0.5;AC1=1;DP4=963,110,324,83;MQ=39;FQ=145.016;PV4=6.57259e-07,1,0,4.22459e-05;ANN=G|synonymous_variant|LOW|NS4|GENE_NS4|transcript|TRANSCRIPT_NS4|protein_coding|1/1|c.48A>G|p.Ser16Ser|48/1833|48/1833|16/610||WARNING_TRANSCRIPT_NO_START_CODON,G|upstream_gene_variant|MODIFIER|capsid|GENE_capsid|transcript|TRANSCRIPT_capsid|protein_coding||c.-1854A>G|||||1854|WARNING_TRANSCRIPT_NO_STOP_CODON,G|upstream_gene_variant|MODIFIER|E3|GENE_E3|transcript|TRANSCRIPT_E3|protein_coding||c.-2646A>G|||||2646|WARNING_TRANSCRIPT_NO_START_CODON,G|upstream_gene_variant|MODIFIER|E2|GENE_E2|transcript|TRANSCRIPT_E2|protein_coding||c.-2829A>G|||||2829|WARNING_TRANSCRIPT_NO_START_CODON,G|upstream_gene_variant|MODIFIER|6K|GENE_6K|transcript|TRANSCRIPT_6K|protein_coding||c.-4098A>G|||||4098|WARNING_TRANSCRIPT_NO_START_CODON,G|upstream_gene_variant|MODIFIER|E1|GENE_E1|transcript|TRANSCRIPT_E1|protein_coding||c.-4281A>G|||||4281|WARNING_TRANSCRIPT_NO_START_CODON,G|downstream_gene_variant|MODIFIER|NS1|GENE_NS1|transcript|TRANSCRIPT_NS1|protein_coding||c.*4032A>G|||||4032|WARNING_TRANSCRIPT_NO_STOP_CODON,G|downstream_gene_variant|MODIFIER|NS2|GENE_NS2|transcript|TRANSCRIPT_NS2|protein_coding||c.*1638A>G|||||1638|WARNING_TRANSCRIPT_NO_START_CODON,G|downstream_gene_variant|MODIFIER|NS3|GENE_NS3|transcript|TRANSCRIPT_NS3|protein_coding||c.*66A>G|||||66|WARNING_TRANSCRIPT_NO_START_CODON,G|non_coding_transcript_variant|MODIFIER|EDEN.1|null|transcript|EDEN.1|protein_coding||||||||WARNING_TRANSCRIPT_NO_START_CODON","LOW","Synonymous","GT:PL","0/1:172,0,255"]
["KP164568_BHI3734_H804698_2014_08_26_Human_Brazil",5738,".","G",1448,{"$f":"E62*100/J62","v":68.2696841112683},"A",673,{"$f":"H62*100/J62","v":31.7303158887317},{"$f":"H62+E62","v":2121},225.009,"PASS","DP=2118;VDB=1;SGB=-0.693147;RPB=2.68485e-14;MQB=0;MQSB=0.0963239;BQB=0.828244;MQ0F=0;AF1=0.5;AC1=1;DP4=812,255,344,139;MQ=39;FQ=225.007;PV4=0.0439166,1,0,0.000239148;ANN=A|synonymous_variant|LOW|NS4|GENE_NS4|transcript|TRANSCRIPT_NS4|protein_coding|1/1|c.72G>A|p.Val24Val|72/1833|72/1833|24/610||WARNING_TRANSCRIPT_NO_START_CODON,A|upstream_gene_variant|MODIFIER|capsid|GENE_capsid|transcript|TRANSCRIPT_capsid|protein_coding||c.-1830G>A|||||1830|WARNING_TRANSCRIPT_NO_STOP_CODON,A|upstream_gene_variant|MODIFIER|E3|GENE_E3|transcript|TRANSCRIPT_E3|protein_coding||c.-2622G>A|||||2622|WARNING_TRANSCRIPT_NO_START_CODON,A|upstream_gene_variant|MODIFIER|E2|GENE_E2|transcript|TRANSCRIPT_E2|protein_coding||c.-2805G>A|||||2805|WARNING_TRANSCRIPT_NO_START_CODON,A|upstream_gene_variant|MODIFIER|6K|GENE_6K|transcript|TRANSCRIPT_6K|protein_coding||c.-4074G>A|||||4074|WARNING_TRANSCRIPT_NO_START_CODON,A|upstream_gene_variant|MODIFIER|E1|GENE_E1|transcript|TRANSCRIPT_E1|protein_coding||c.-4257G>A|||||4257|WARNING_TRANSCRIPT_NO_START_CODON,A|downstream_gene_variant|MODIFIER|NS1|GENE_NS1|transcript|TRANSCRIPT_NS1|protein_coding||c.*4056G>A|||||4056|WARNING_TRANSCRIPT_NO_STOP_CODON,A|downstream_gene_variant|MODIFIER|NS2|GENE_NS2|transcript|TRANSCRIPT_NS2|protein_coding||c.*1662G>A|||||1662|WARNING_TRANSCRIPT_NO_START_CODON,A|downstream_gene_variant|MODIFIER|NS3|GENE_NS3|transcript|TRANSCRIPT_NS3|protein_coding||c.*90G>A|||||90|WARNING_TRANSCRIPT_NO_START_CODON,A|non_coding_transcript_variant|MODIFIER|EDEN.1|null|transcript|EDEN.1|protein_coding||||||||WARNING_TRANSCRIPT_NO_START_CODON","LOW","Synonymous","GT:PL","0/1:255,0,255"]
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["KP164568_BHI3734_H804698_2014_08_26_Human_Brazil",5784,".","T",1654,{"$f":"E64*100/J64","v":74.0376007162041},"C",580,{"$f":"H64*100/J64","v":25.9623992837959},{"$f":"H64+E64","v":2234},177.009,"PASS","DP=2225;VDB=0.997076;SGB=-0.693147;RPB=7.67421e-05;MQB=0;MQSB=0.195695;BQB=0.103935;MQ0F=0.00179775;AF1=0.5;AC1=1;DP4=688,536,200,244;MQ=39;FQ=180.017;PV4=6.26001e-05,0.0392406,0,0.461385;ANN=C|synonymous_variant|LOW|NS4|GENE_NS4|transcript|TRANSCRIPT_NS4|protein_coding|1/1|c.118T>C|p.Leu40Leu|118/1833|118/1833|40/610||WARNING_TRANSCRIPT_NO_START_CODON,C|upstream_gene_variant|MODIFIER|capsid|GENE_capsid|transcript|TRANSCRIPT_capsid|protein_coding||c.-1784T>C|||||1784|WARNING_TRANSCRIPT_NO_STOP_CODON,C|upstream_gene_variant|MODIFIER|E3|GENE_E3|transcript|TRANSCRIPT_E3|protein_coding||c.-2576T>C|||||2576|WARNING_TRANSCRIPT_NO_START_CODON,C|upstream_gene_variant|MODIFIER|E2|GENE_E2|transcript|TRANSCRIPT_E2|protein_coding||c.-2759T>C|||||2759|WARNING_TRANSCRIPT_NO_START_CODON,C|upstream_gene_variant|MODIFIER|6K|GENE_6K|transcript|TRANSCRIPT_6K|protein_coding||c.-4028T>C|||||4028|WARNING_TRANSCRIPT_NO_START_CODON,C|upstream_gene_variant|MODIFIER|E1|GENE_E1|transcript|TRANSCRIPT_E1|protein_coding||c.-4211T>C|||||4211|WARNING_TRANSCRIPT_NO_START_CODON,C|downstream_gene_variant|MODIFIER|NS1|GENE_NS1|transcript|TRANSCRIPT_NS1|protein_coding||c.*4102T>C|||||4102|WARNING_TRANSCRIPT_NO_STOP_CODON,C|downstream_gene_variant|MODIFIER|NS2|GENE_NS2|transcript|TRANSCRIPT_NS2|protein_coding||c.*1708T>C|||||1708|WARNING_TRANSCRIPT_NO_START_CODON,C|downstream_gene_variant|MODIFIER|NS3|GENE_NS3|transcript|TRANSCRIPT_NS3|protein_coding||c.*136T>C|||||136|WARNING_TRANSCRIPT_NO_START_CODON,C|non_coding_transcript_variant|MODIFIER|EDEN.1|null|transcript|EDEN.1|protein_coding||||||||WARNING_TRANSCRIPT_NO_START_CODON","LOW","Synonymous","GT:PL","0/1:207,0,255"]
["KP164568_BHI3734_H804698_2014_08_26_Human_Brazil",5793,".","G",1583,{"$f":"E65*100/J65","v":73.4230055658627},"T",573,{"$f":"H65*100/J65","v":26.5769944341373},{"$f":"H65+E65","v":2156},84.0076,"PASS","DP=2150;VDB=0.541442;SGB=-0.693147;RPB=0.000162522;MQB=0;MQSB=0.953278;BQB=0.277769;MQ0F=0.00232558;AF1=0.5;AC1=1;DP4=602,569,220,207;MQ=39;FQ=87.0157;PV4=1,0.233265,0,1;ANN=T|missense_variant|MODERATE|NS4|GENE_NS4|transcript|TRANSCRIPT_NS4|protein_coding|1/1|c.127G>T|p.Val43Leu|127/1833|127/1833|43/610||WARNING_TRANSCRIPT_NO_START_CODON,T|upstream_gene_variant|MODIFIER|capsid|GENE_capsid|transcript|TRANSCRIPT_capsid|protein_coding||c.-1775G>T|||||1775|WARNING_TRANSCRIPT_NO_STOP_CODON,T|upstream_gene_variant|MODIFIER|E3|GENE_E3|transcript|TRANSCRIPT_E3|protein_coding||c.-2567G>T|||||2567|WARNING_TRANSCRIPT_NO_START_CODON,T|upstream_gene_variant|MODIFIER|E2|GENE_E2|transcript|TRANSCRIPT_E2|protein_coding||c.-2750G>T|||||2750|WARNING_TRANSCRIPT_NO_START_CODON,T|upstream_gene_variant|MODIFIER|6K|GENE_6K|transcript|TRANSCRIPT_6K|protein_coding||c.-4019G>T|||||4019|WARNING_TRANSCRIPT_NO_START_CODON,T|upstream_gene_variant|MODIFIER|E1|GENE_E1|transcript|TRANSCRIPT_E1|protein_coding||c.-4202G>T|||||4202|WARNING_TRANSCRIPT_NO_START_CODON,T|downstream_gene_variant|MODIFIER|NS1|GENE_NS1|transcript|TRANSCRIPT_NS1|protein_coding||c.*4111G>T|||||4111|WARNING_TRANSCRIPT_NO_STOP_CODON,T|downstream_gene_variant|MODIFIER|NS2|GENE_NS2|transcript|TRANSCRIPT_NS2|protein_coding||c.*1717G>T|||||1717|WARNING_TRANSCRIPT_NO_START_CODON,T|downstream_gene_variant|MODIFIER|NS3|GENE_NS3|transcript|TRANSCRIPT_NS3|protein_coding||c.*145G>T|||||145|WARNING_TRANSCRIPT_NO_START_CODON,T|non_coding_transcript_variant|MODIFIER|EDEN.1|null|transcript|EDEN.1|protein_coding||||||||WARNING_TRANSCRIPT_NO_START_CODON","MODERATE","Non-synonymous","GT:PL","0/1:114,0,255"]
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["KP164568_BHI3734_H804698_2014_08_26_Human_Brazil",5861,".","G",1033,{"$f":"E70*100/J70","v":54.3684210526316},"A",867,{"$f":"H70*100/J70","v":45.6315789473684},{"$f":"H70+E70","v":1900},205.009,"PASS","DP=1897;VDB=0.121498;SGB=-0.693147;RPB=0;MQB=0;MQSB=0;BQB=2.88016e-17;MQ0F=0.17185;AF1=0.5;AC1=1;DP4=346,438,584,140;MQ=34;FQ=207.974;PV4=0,4.72135e-11,0,0;ANN=A|synonymous_variant|LOW|NS4|GENE_NS4|transcript|TRANSCRIPT_NS4|protein_coding|1/1|c.195G>A|p.Gln65Gln|195/1833|195/1833|65/610||WARNING_TRANSCRIPT_NO_START_CODON,A|upstream_gene_variant|MODIFIER|capsid|GENE_capsid|transcript|TRANSCRIPT_capsid|protein_coding||c.-1707G>A|||||1707|WARNING_TRANSCRIPT_NO_STOP_CODON,A|upstream_gene_variant|MODIFIER|E3|GENE_E3|transcript|TRANSCRIPT_E3|protein_coding||c.-2499G>A|||||2499|WARNING_TRANSCRIPT_NO_START_CODON,A|upstream_gene_variant|MODIFIER|E2|GENE_E2|transcript|TRANSCRIPT_E2|protein_coding||c.-2682G>A|||||2682|WARNING_TRANSCRIPT_NO_START_CODON,A|upstream_gene_variant|MODIFIER|6K|GENE_6K|transcript|TRANSCRIPT_6K|protein_coding||c.-3951G>A|||||3951|WARNING_TRANSCRIPT_NO_START_CODON,A|upstream_gene_variant|MODIFIER|E1|GENE_E1|transcript|TRANSCRIPT_E1|protein_coding||c.-4134G>A|||||4134|WARNING_TRANSCRIPT_NO_START_CODON,A|downstream_gene_variant|MODIFIER|NS1|GENE_NS1|transcript|TRANSCRIPT_NS1|protein_coding||c.*4179G>A|||||4179|WARNING_TRANSCRIPT_NO_STOP_CODON,A|downstream_gene_variant|MODIFIER|NS2|GENE_NS2|transcript|TRANSCRIPT_NS2|protein_coding||c.*1785G>A|||||1785|WARNING_TRANSCRIPT_NO_START_CODON,A|downstream_gene_variant|MODIFIER|NS3|GENE_NS3|transcript|TRANSCRIPT_NS3|protein_coding||c.*213G>A|||||213|WARNING_TRANSCRIPT_NO_START_CODON,A|non_coding_transcript_variant|MODIFIER|EDEN.1|null|transcript|EDEN.1|protein_coding||||||||WARNING_TRANSCRIPT_NO_START_CODON","LOW","Synonymous","GT:PL","0/1:235,0,255"]
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["KP164568_BHI3734_H804698_2014_08_26_Human_Brazil",5934,".","T",955,{"$f":"E77*100/J77","v":64.527027027027},"G",525,{"$f":"H77*100/J77","v":35.472972972973},{"$f":"H77+E77","v":1480},30.0112,"PASS","DP=1473;VDB=5.07064e-28;SGB=-0.693147;RPB=0;MQB=0;MQSB=0.282469;BQB=4.59579e-23;MQ0F=0.260692;AF1=0.5;AC1=1;DP4=638,101,417,50;MQ=30;FQ=33.0172;PV4=0.152812,7.41827e-17,0,0;ANN=G|missense_variant|MODERATE|NS4|GENE_NS4|transcript|TRANSCRIPT_NS4|protein_coding|1/1|c.268T>G|p.Ser90Ala|268/1833|268/1833|90/610||WARNING_TRANSCRIPT_NO_START_CODON,G|upstream_gene_variant|MODIFIER|capsid|GENE_capsid|transcript|TRANSCRIPT_capsid|protein_coding||c.-1634T>G|||||1634|WARNING_TRANSCRIPT_NO_STOP_CODON,G|upstream_gene_variant|MODIFIER|E3|GENE_E3|transcript|TRANSCRIPT_E3|protein_coding||c.-2426T>G|||||2426|WARNING_TRANSCRIPT_NO_START_CODON,G|upstream_gene_variant|MODIFIER|E2|GENE_E2|transcript|TRANSCRIPT_E2|protein_coding||c.-2609T>G|||||2609|WARNING_TRANSCRIPT_NO_START_CODON,G|upstream_gene_variant|MODIFIER|6K|GENE_6K|transcript|TRANSCRIPT_6K|protein_coding||c.-3878T>G|||||3878|WARNING_TRANSCRIPT_NO_START_CODON,G|upstream_gene_variant|MODIFIER|E1|GENE_E1|transcript|TRANSCRIPT_E1|protein_coding||c.-4061T>G|||||4061|WARNING_TRANSCRIPT_NO_START_CODON,G|downstream_gene_variant|MODIFIER|NS1|GENE_NS1|transcript|TRANSCRIPT_NS1|protein_coding||c.*4252T>G|||||4252|WARNING_TRANSCRIPT_NO_STOP_CODON,G|downstream_gene_variant|MODIFIER|NS2|GENE_NS2|transcript|TRANSCRIPT_NS2|protein_coding||c.*1858T>G|||||1858|WARNING_TRANSCRIPT_NO_START_CODON,G|downstream_gene_variant|MODIFIER|NS3|GENE_NS3|transcript|TRANSCRIPT_NS3|protein_coding||c.*286T>G|||||286|WARNING_TRANSCRIPT_NO_START_CODON,G|non_coding_transcript_variant|MODIFIER|EDEN.1|null|transcript|EDEN.1|protein_coding||||||||WARNING_TRANSCRIPT_NO_START_CODON","MODERATE","Non-synonymous","GT:PL","0/1:60,0,255"]
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["KP164568_BHI3734_H804698_2014_08_26_Human_Brazil",5967,".","A",1542,{"$f":"E82*100/J82","v":42.0736698499318},"G",2123,{"$f":"H82*100/J82","v":57.9263301500682},{"$f":"H82+E82","v":3665},60.0073,"PASS","DP=3642;VDB=2.43985e-08;SGB=-0.693147;RPB=0;MQB=0;MQSB=2.13134e-16;BQB=8.17524e-07;MQ0F=0.263317;AF1=0.5;AC1=1;DP4=1021,107,1438,185;MQ=28;FQ=63.0154;PV4=0.115784,1.46526e-05,0,3.03218e-17;ANN=G|missense_variant|MODERATE|NS4|GENE_NS4|transcript|TRANSCRIPT_NS4|protein_coding|1/1|c.301A>G|p.Thr101Ala|301/1833|301/1833|101/610||WARNING_TRANSCRIPT_NO_START_CODON,G|upstream_gene_variant|MODIFIER|capsid|GENE_capsid|transcript|TRANSCRIPT_capsid|protein_coding||c.-1601A>G|||||1601|WARNING_TRANSCRIPT_NO_STOP_CODON,G|upstream_gene_variant|MODIFIER|E3|GENE_E3|transcript|TRANSCRIPT_E3|protein_coding||c.-2393A>G|||||2393|WARNING_TRANSCRIPT_NO_START_CODON,G|upstream_gene_variant|MODIFIER|E2|GENE_E2|transcript|TRANSCRIPT_E2|protein_coding||c.-2576A>G|||||2576|WARNING_TRANSCRIPT_NO_START_CODON,G|upstream_gene_variant|MODIFIER|6K|GENE_6K|transcript|TRANSCRIPT_6K|protein_coding||c.-3845A>G|||||3845|WARNING_TRANSCRIPT_NO_START_CODON,G|upstream_gene_variant|MODIFIER|E1|GENE_E1|transcript|TRANSCRIPT_E1|protein_coding||c.-4028A>G|||||4028|WARNING_TRANSCRIPT_NO_START_CODON,G|downstream_gene_variant|MODIFIER|NS1|GENE_NS1|transcript|TRANSCRIPT_NS1|protein_coding||c.*4285A>G|||||4285|WARNING_TRANSCRIPT_NO_STOP_CODON,G|downstream_gene_variant|MODIFIER|NS2|GENE_NS2|transcript|TRANSCRIPT_NS2|protein_coding||c.*1891A>G|||||1891|WARNING_TRANSCRIPT_NO_START_CODON,G|downstream_gene_variant|MODIFIER|NS3|GENE_NS3|transcript|TRANSCRIPT_NS3|protein_coding||c.*319A>G|||||319|WARNING_TRANSCRIPT_NO_START_CODON,G|non_coding_transcript_variant|MODIFIER|EDEN.1|null|transcript|EDEN.1|protein_coding||||||||WARNING_TRANSCRIPT_NO_START_CODON","MODERATE","Non-synonymous","GT:PL","0/1:90,0,255"]
["KP164568_BHI3734_H804698_2014_08_26_Human_Brazil",5968,".","C",1563,{"$f":"E83*100/J83","v":41.7022411953042},"T",2185,{"$f":"H83*100/J83","v":58.2977588046958},{"$f":"H83+E83","v":3748},52.0072,"PASS","DP=3725;VDB=2.49465e-08;SGB=-0.693147;RPB=0;MQB=0;MQSB=2.29222e-17;BQB=1.12026e-11;MQ0F=0.258792;AF1=0.5;AC1=1;DP4=1035,109,1474,191;MQ=28;FQ=55.0154;PV4=0.10617,6.43851e-06,0,4.02467e-12;ANN=T|missense_variant|MODERATE|NS4|GENE_NS4|transcript|TRANSCRIPT_NS4|protein_coding|1/1|c.302C>T|p.Thr101Ile|302/1833|302/1833|101/610||WARNING_TRANSCRIPT_NO_START_CODON,T|upstream_gene_variant|MODIFIER|capsid|GENE_capsid|transcript|TRANSCRIPT_capsid|protein_coding||c.-1600C>T|||||1600|WARNING_TRANSCRIPT_NO_STOP_CODON,T|upstream_gene_variant|MODIFIER|E3|GENE_E3|transcript|TRANSCRIPT_E3|protein_coding||c.-2392C>T|||||2392|WARNING_TRANSCRIPT_NO_START_CODON,T|upstream_gene_variant|MODIFIER|E2|GENE_E2|transcript|TRANSCRIPT_E2|protein_coding||c.-2575C>T|||||2575|WARNING_TRANSCRIPT_NO_START_CODON,T|upstream_gene_variant|MODIFIER|6K|GENE_6K|transcript|TRANSCRIPT_6K|protein_coding||c.-3844C>T|||||3844|WARNING_TRANSCRIPT_NO_START_CODON,T|upstream_gene_variant|MODIFIER|E1|GENE_E1|transcript|TRANSCRIPT_E1|protein_coding||c.-4027C>T|||||4027|WARNING_TRANSCRIPT_NO_START_CODON,T|downstream_gene_variant|MODIFIER|NS1|GENE_NS1|transcript|TRANSCRIPT_NS1|protein_coding||c.*4286C>T|||||4286|WARNING_TRANSCRIPT_NO_STOP_CODON,T|downstream_gene_variant|MODIFIER|NS2|GENE_NS2|transcript|TRANSCRIPT_NS2|protein_coding||c.*1892C>T|||||1892|WARNING_TRANSCRIPT_NO_START_CODON,T|downstream_gene_variant|MODIFIER|NS3|GENE_NS3|transcript|TRANSCRIPT_NS3|protein_coding||c.*320C>T|||||320|WARNING_TRANSCRIPT_NO_START_CODON,T|non_coding_transcript_variant|MODIFIER|EDEN.1|null|transcript|EDEN.1|protein_coding||||||||WARNING_TRANSCRIPT_NO_START_CODON","MODERATE","Non-synonymous","GT:PL","0/1:82,0,255"]
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["KP164568_BHI3734_H804698_2014_08_26_Human_Brazil",6017,".","C",1365,{"$f":"E86*100/J86","v":31.810766721044},"T",2926,{"$f":"H86*100/J86","v":68.189233278956},{"$f":"H86+E86","v":4291},137.008,"PASS","DP=4252;VDB=0.000155936;SGB=-0.693147;RPB=2.22226e-34;MQB=0;MQSB=5.05352e-17;BQB=1.82171e-06;MQ0F=0.110301;AF1=0.5;AC1=1;DP4=699,319,1379,589;MQ=28;FQ=140.016;PV4=0.450071,1,0,1;ANN=T|synonymous_variant|LOW|NS4|GENE_NS4|transcript|TRANSCRIPT_NS4|protein_coding|1/1|c.351C>T|p.Asn117Asn|351/1833|351/1833|117/610||WARNING_TRANSCRIPT_NO_START_CODON,T|upstream_gene_variant|MODIFIER|capsid|GENE_capsid|transcript|TRANSCRIPT_capsid|protein_coding||c.-1551C>T|||||1551|WARNING_TRANSCRIPT_NO_STOP_CODON,T|upstream_gene_variant|MODIFIER|E3|GENE_E3|transcript|TRANSCRIPT_E3|protein_coding||c.-2343C>T|||||2343|WARNING_TRANSCRIPT_NO_START_CODON,T|upstream_gene_variant|MODIFIER|E2|GENE_E2|transcript|TRANSCRIPT_E2|protein_coding||c.-2526C>T|||||2526|WARNING_TRANSCRIPT_NO_START_CODON,T|upstream_gene_variant|MODIFIER|6K|GENE_6K|transcript|TRANSCRIPT_6K|protein_coding||c.-3795C>T|||||3795|WARNING_TRANSCRIPT_NO_START_CODON,T|upstream_gene_variant|MODIFIER|E1|GENE_E1|transcript|TRANSCRIPT_E1|protein_coding||c.-3978C>T|||||3978|WARNING_TRANSCRIPT_NO_START_CODON,T|downstream_gene_variant|MODIFIER|NS1|GENE_NS1|transcript|TRANSCRIPT_NS1|protein_coding||c.*4335C>T|||||4335|WARNING_TRANSCRIPT_NO_STOP_CODON,T|downstream_gene_variant|MODIFIER|NS2|GENE_NS2|transcript|TRANSCRIPT_NS2|protein_coding||c.*1941C>T|||||1941|WARNING_TRANSCRIPT_NO_START_CODON,T|downstream_gene_variant|MODIFIER|NS3|GENE_NS3|transcript|TRANSCRIPT_NS3|protein_coding||c.*369C>T|||||369|WARNING_TRANSCRIPT_NO_START_CODON,T|non_coding_transcript_variant|MODIFIER|EDEN.1|null|transcript|EDEN.1|protein_coding||||||||WARNING_TRANSCRIPT_NO_START_CODON","LOW","Synonymous","GT:PL","0/1:167,0,255"]
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["KP164568_BHI3734_H804698_2014_08_26_Human_Brazil",6065,".","T",1405,{"$f":"E89*100/J89","v":55.6656101426307},"C",1119,{"$f":"H89*100/J89","v":44.3343898573693},{"$f":"H89+E89","v":2524},202.009,"PASS","DP=2499;VDB=8.29283e-20;SGB=-0.693147;RPB=2.90741e-41;MQB=0;MQSB=2.47064e-08;BQB=7.94407e-07;MQ0F=0.0636254;AF1=0.5;AC1=1;DP4=445,605,385,555;MQ=32;FQ=204.996;PV4=0.524177,4.41822e-13,0,8.7056e-09;ANN=C|synonymous_variant|LOW|NS4|GENE_NS4|transcript|TRANSCRIPT_NS4|protein_coding|1/1|c.399T>C|p.Tyr133Tyr|399/1833|399/1833|133/610||WARNING_TRANSCRIPT_NO_START_CODON,C|upstream_gene_variant|MODIFIER|capsid|GENE_capsid|transcript|TRANSCRIPT_capsid|protein_coding||c.-1503T>C|||||1503|WARNING_TRANSCRIPT_NO_STOP_CODON,C|upstream_gene_variant|MODIFIER|E3|GENE_E3|transcript|TRANSCRIPT_E3|protein_coding||c.-2295T>C|||||2295|WARNING_TRANSCRIPT_NO_START_CODON,C|upstream_gene_variant|MODIFIER|E2|GENE_E2|transcript|TRANSCRIPT_E2|protein_coding||c.-2478T>C|||||2478|WARNING_TRANSCRIPT_NO_START_CODON,C|upstream_gene_variant|MODIFIER|6K|GENE_6K|transcript|TRANSCRIPT_6K|protein_coding||c.-3747T>C|||||3747|WARNING_TRANSCRIPT_NO_START_CODON,C|upstream_gene_variant|MODIFIER|E1|GENE_E1|transcript|TRANSCRIPT_E1|protein_coding||c.-3930T>C|||||3930|WARNING_TRANSCRIPT_NO_START_CODON,C|downstream_gene_variant|MODIFIER|NS1|GENE_NS1|transcript|TRANSCRIPT_NS1|protein_coding||c.*4383T>C|||||4383|WARNING_TRANSCRIPT_NO_STOP_CODON,C|downstream_gene_variant|MODIFIER|NS2|GENE_NS2|transcript|TRANSCRIPT_NS2|protein_coding||c.*1989T>C|||||1989|WARNING_TRANSCRIPT_NO_START_CODON,C|downstream_gene_variant|MODIFIER|NS3|GENE_NS3|transcript|TRANSCRIPT_NS3|protein_coding||c.*417T>C|||||417|WARNING_TRANSCRIPT_NO_START_CODON,C|non_coding_transcript_variant|MODIFIER|EDEN.1|null|transcript|EDEN.1|protein_coding||||||||WARNING_TRANSCRIPT_NO_START_CODON","LOW","Synonymous","GT:PL","0/1:232,0,255"]
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["KP164568_BHI3734_H804698_2014_08_26_Human_Brazil",6200,".","C",847,{"$f":"E96*100/J96","v":64.3617021276596},"T",469,{"$f":"H96*100/J96","v":35.6382978723404},{"$f":"H96+E96","v":1316},112.008,"PASS","DP=1311;VDB=0.897739;SGB=-0.693147;RPB=0.90163;MQB=0;MQSB=0.0136096;BQB=0.534664;MQ0F=0.02746;AF1=0.5;AC1=1;DP4=484,180,248,111;MQ=36;FQ=115.016;PV4=0.217091,1,0,5.39327e-06;ANN=T|synonymous_variant|LOW|NS4|GENE_NS4|transcript|TRANSCRIPT_NS4|protein_coding|1/1|c.534C>T|p.Tyr178Tyr|534/1833|534/1833|178/610||WARNING_TRANSCRIPT_NO_START_CODON,T|upstream_gene_variant|MODIFIER|capsid|GENE_capsid|transcript|TRANSCRIPT_capsid|protein_coding||c.-1368C>T|||||1368|WARNING_TRANSCRIPT_NO_STOP_CODON,T|upstream_gene_variant|MODIFIER|E3|GENE_E3|transcript|TRANSCRIPT_E3|protein_coding||c.-2160C>T|||||2160|WARNING_TRANSCRIPT_NO_START_CODON,T|upstream_gene_variant|MODIFIER|E2|GENE_E2|transcript|TRANSCRIPT_E2|protein_coding||c.-2343C>T|||||2343|WARNING_TRANSCRIPT_NO_START_CODON,T|upstream_gene_variant|MODIFIER|6K|GENE_6K|transcript|TRANSCRIPT_6K|protein_coding||c.-3612C>T|||||3612|WARNING_TRANSCRIPT_NO_START_CODON,T|upstream_gene_variant|MODIFIER|E1|GENE_E1|transcript|TRANSCRIPT_E1|protein_coding||c.-3795C>T|||||3795|WARNING_TRANSCRIPT_NO_START_CODON,T|downstream_gene_variant|MODIFIER|NS1|GENE_NS1|transcript|TRANSCRIPT_NS1|protein_coding||c.*4518C>T|||||4518|WARNING_TRANSCRIPT_NO_STOP_CODON,T|downstream_gene_variant|MODIFIER|NS2|GENE_NS2|transcript|TRANSCRIPT_NS2|protein_coding||c.*2124C>T|||||2124|WARNING_TRANSCRIPT_NO_START_CODON,T|downstream_gene_variant|MODIFIER|NS3|GENE_NS3|transcript|TRANSCRIPT_NS3|protein_coding||c.*552C>T|||||552|WARNING_TRANSCRIPT_NO_START_CODON,T|non_coding_transcript_variant|MODIFIER|EDEN.1|null|transcript|EDEN.1|protein_coding||||||||WARNING_TRANSCRIPT_NO_START_CODON","LOW","Synonymous","GT:PL","0/1:142,0,255"]
["KP164568_BHI3734_H804698_2014_08_26_Human_Brazil",6203,".","T",834,{"$f":"E97*100/J97","v":63.3257403189066},"C",483,{"$f":"H97*100/J97","v":36.6742596810934},{"$f":"H97+E97","v":1317},82.0076,"PASS","DP=1315;VDB=0.948406;SGB=-0.693147;RPB=0.849606;MQB=0;MQSB=0.00618729;BQB=0.283185;MQ0F=0.0273764;AF1=0.5;AC1=1;DP4=477,178,256,118;MQ=36;FQ=85.0157;PV4=0.152143,0.477832,0,4.64947e-08;ANN=C|synonymous_variant|LOW|NS4|GENE_NS4|transcript|TRANSCRIPT_NS4|protein_coding|1/1|c.537T>C|p.His179His|537/1833|537/1833|179/610||WARNING_TRANSCRIPT_NO_START_CODON,C|upstream_gene_variant|MODIFIER|capsid|GENE_capsid|transcript|TRANSCRIPT_capsid|protein_coding||c.-1365T>C|||||1365|WARNING_TRANSCRIPT_NO_STOP_CODON,C|upstream_gene_variant|MODIFIER|E3|GENE_E3|transcript|TRANSCRIPT_E3|protein_coding||c.-2157T>C|||||2157|WARNING_TRANSCRIPT_NO_START_CODON,C|upstream_gene_variant|MODIFIER|E2|GENE_E2|transcript|TRANSCRIPT_E2|protein_coding||c.-2340T>C|||||2340|WARNING_TRANSCRIPT_NO_START_CODON,C|upstream_gene_variant|MODIFIER|6K|GENE_6K|transcript|TRANSCRIPT_6K|protein_coding||c.-3609T>C|||||3609|WARNING_TRANSCRIPT_NO_START_CODON,C|upstream_gene_variant|MODIFIER|E1|GENE_E1|transcript|TRANSCRIPT_E1|protein_coding||c.-3792T>C|||||3792|WARNING_TRANSCRIPT_NO_START_CODON,C|downstream_gene_variant|MODIFIER|NS1|GENE_NS1|transcript|TRANSCRIPT_NS1|protein_coding||c.*4521T>C|||||4521|WARNING_TRANSCRIPT_NO_STOP_CODON,C|downstream_gene_variant|MODIFIER|NS2|GENE_NS2|transcript|TRANSCRIPT_NS2|protein_coding||c.*2127T>C|||||2127|WARNING_TRANSCRIPT_NO_START_CODON,C|downstream_gene_variant|MODIFIER|NS3|GENE_NS3|transcript|TRANSCRIPT_NS3|protein_coding||c.*555T>C|||||555|WARNING_TRANSCRIPT_NO_START_CODON,C|non_coding_transcript_variant|MODIFIER|EDEN.1|null|transcript|EDEN.1|protein_coding||||||||WARNING_TRANSCRIPT_NO_START_CODON","LOW","Synonymous","GT:PL","0/1:112,0,255"]
["KP164568_BHI3734_H804698_2014_08_26_Human_Brazil",6212,".","C",1001,{"$f":"E99*100/J98","v":65.389369592089},"T",560,{"$f":"H98*100/J98","v":34.610630407911},{"$f":"H98+E99","v":1618},202.009,"PASS","DP=1555;VDB=0.227753;SGB=-0.693147;RPB=0.0441508;MQB=0;MQSB=0.000142036;BQB=0.348616;MQ0F=0.0180064;AF1=0.5;AC1=1;DP4=575,179,316,117;MQ=37;FQ=204.996;PV4=0.210537,0.0713606,0,0.0524702;ANN=T|synonymous_variant|LOW|NS4|GENE_NS4|transcript|TRANSCRIPT_NS4|protein_coding|1/1|c.546C>T|p.Ser182Ser|546/1833|546/1833|182/610||WARNING_TRANSCRIPT_NO_START_CODON,T|upstream_gene_variant|MODIFIER|capsid|GENE_capsid|transcript|TRANSCRIPT_capsid|protein_coding||c.-1356C>T|||||1356|WARNING_TRANSCRIPT_NO_STOP_CODON,T|upstream_gene_variant|MODIFIER|E3|GENE_E3|transcript|TRANSCRIPT_E3|protein_coding||c.-2148C>T|||||2148|WARNING_TRANSCRIPT_NO_START_CODON,T|upstream_gene_variant|MODIFIER|E2|GENE_E2|transcript|TRANSCRIPT_E2|protein_coding||c.-2331C>T|||||2331|WARNING_TRANSCRIPT_NO_START_CODON,T|upstream_gene_variant|MODIFIER|6K|GENE_6K|transcript|TRANSCRIPT_6K|protein_coding||c.-3600C>T|||||3600|WARNING_TRANSCRIPT_NO_START_CODON,T|upstream_gene_variant|MODIFIER|E1|GENE_E1|transcript|TRANSCRIPT_E1|protein_coding||c.-3783C>T|||||3783|WARNING_TRANSCRIPT_NO_START_CODON,T|downstream_gene_variant|MODIFIER|NS1|GENE_NS1|transcript|TRANSCRIPT_NS1|protein_coding||c.*4530C>T|||||4530|WARNING_TRANSCRIPT_NO_STOP_CODON,T|downstream_gene_variant|MODIFIER|NS2|GENE_NS2|transcript|TRANSCRIPT_NS2|protein_coding||c.*2136C>T|||||2136|WARNING_TRANSCRIPT_NO_START_CODON,T|downstream_gene_variant|MODIFIER|NS3|GENE_NS3|transcript|TRANSCRIPT_NS3|protein_coding||c.*564C>T|||||564|WARNING_TRANSCRIPT_NO_START_CODON,T|non_coding_transcript_variant|MODIFIER|EDEN.1|null|transcript|EDEN.1|protein_coding||||||||WARNING_TRANSCRIPT_NO_START_CODON","LOW","Synonymous","GT:PL","0/1:232,0,255"]
["KP164568_BHI3734_H804698_2014_08_26_Human_Brazil",6230,".","G",1058,{"$f":"E99*100/J99","v":61.0149942329873},"T",676,{"$f":"H99*100/J99","v":38.9850057670127},{"$f":"H99+E99","v":1734},225.009,"PASS","DP=1730;VDB=0.000550949;SGB=-0.693147;RPB=1.1671e-11;MQB=6.95044e-43;MQSB=8.7683e-05;BQB=0.998417;MQ0F=0.0115607;AF1=0.5;AC1=1;DP4=598,187,395,98;MQ=38;FQ=225.007;PV4=0.112276,1,1.01489e-21,1;ANN=T|synonymous_variant|LOW|NS4|GENE_NS4|transcript|TRANSCRIPT_NS4|protein_coding|1/1|c.564G>T|p.Pro188Pro|564/1833|564/1833|188/610||WARNING_TRANSCRIPT_NO_START_CODON,T|upstream_gene_variant|MODIFIER|capsid|GENE_capsid|transcript|TRANSCRIPT_capsid|protein_coding||c.-1338G>T|||||1338|WARNING_TRANSCRIPT_NO_STOP_CODON,T|upstream_gene_variant|MODIFIER|E3|GENE_E3|transcript|TRANSCRIPT_E3|protein_coding||c.-2130G>T|||||2130|WARNING_TRANSCRIPT_NO_START_CODON,T|upstream_gene_variant|MODIFIER|E2|GENE_E2|transcript|TRANSCRIPT_E2|protein_coding||c.-2313G>T|||||2313|WARNING_TRANSCRIPT_NO_START_CODON,T|upstream_gene_variant|MODIFIER|6K|GENE_6K|transcript|TRANSCRIPT_6K|protein_coding||c.-3582G>T|||||3582|WARNING_TRANSCRIPT_NO_START_CODON,T|upstream_gene_variant|MODIFIER|E1|GENE_E1|transcript|TRANSCRIPT_E1|protein_coding||c.-3765G>T|||||3765|WARNING_TRANSCRIPT_NO_START_CODON,T|downstream_gene_variant|MODIFIER|NS1|GENE_NS1|transcript|TRANSCRIPT_NS1|protein_coding||c.*4548G>T|||||4548|WARNING_TRANSCRIPT_NO_STOP_CODON,T|downstream_gene_variant|MODIFIER|NS2|GENE_NS2|transcript|TRANSCRIPT_NS2|protein_coding||c.*2154G>T|||||2154|WARNING_TRANSCRIPT_NO_START_CODON,T|downstream_gene_variant|MODIFIER|NS3|GENE_NS3|transcript|TRANSCRIPT_NS3|protein_coding||c.*582G>T|||||582|WARNING_TRANSCRIPT_NO_START_CODON,T|non_coding_transcript_variant|MODIFIER|EDEN.1|null|transcript|EDEN.1|protein_coding||||||||WARNING_TRANSCRIPT_NO_START_CODON","LOW","Synonymous","GT:PL","0/1:255,0,255"]
["KP164568_BHI3734_H804698_2014_08_26_Human_Brazil",6281,".","A",780,{"$f":"E100*100/J100","v":58.0789277736411},"G",563,{"$f":"H100*100/J100","v":41.9210722263589},{"$f":"H100+E100","v":1343},225.009,"PASS","DP=1337;VDB=1.6673e-10;SGB=-0.693147;RPB=0.000231889;MQB=1.41979e-22;MQSB=5.71098e-20;BQB=0.564375;MQ0F=0;AF1=0.5;AC1=1;DP4=417,190,261,151;MQ=40;FQ=225.007;PV4=0.0789385,1,2.87282e-24,0.00137571;ANN=G|synonymous_variant|LOW|NS4|GENE_NS4|transcript|TRANSCRIPT_NS4|protein_coding|1/1|c.615A>G|p.Arg205Arg|615/1833|615/1833|205/610||WARNING_TRANSCRIPT_NO_START_CODON,G|upstream_gene_variant|MODIFIER|capsid|GENE_capsid|transcript|TRANSCRIPT_capsid|protein_coding||c.-1287A>G|||||1287|WARNING_TRANSCRIPT_NO_STOP_CODON,G|upstream_gene_variant|MODIFIER|E3|GENE_E3|transcript|TRANSCRIPT_E3|protein_coding||c.-2079A>G|||||2079|WARNING_TRANSCRIPT_NO_START_CODON,G|upstream_gene_variant|MODIFIER|E2|GENE_E2|transcript|TRANSCRIPT_E2|protein_coding||c.-2262A>G|||||2262|WARNING_TRANSCRIPT_NO_START_CODON,G|upstream_gene_variant|MODIFIER|6K|GENE_6K|transcript|TRANSCRIPT_6K|protein_coding||c.-3531A>G|||||3531|WARNING_TRANSCRIPT_NO_START_CODON,G|upstream_gene_variant|MODIFIER|E1|GENE_E1|transcript|TRANSCRIPT_E1|protein_coding||c.-3714A>G|||||3714|WARNING_TRANSCRIPT_NO_START_CODON,G|downstream_gene_variant|MODIFIER|NS1|GENE_NS1|transcript|TRANSCRIPT_NS1|protein_coding||c.*4599A>G|||||4599|WARNING_TRANSCRIPT_NO_STOP_CODON,G|downstream_gene_variant|MODIFIER|NS2|GENE_NS2|transcript|TRANSCRIPT_NS2|protein_coding||c.*2205A>G|||||2205|WARNING_TRANSCRIPT_NO_START_CODON,G|downstream_gene_variant|MODIFIER|NS3|GENE_NS3|transcript|TRANSCRIPT_NS3|protein_coding||c.*633A>G|||||633|WARNING_TRANSCRIPT_NO_START_CODON,G|non_coding_transcript_variant|MODIFIER|EDEN.1|null|transcript|EDEN.1|protein_coding||||||||WARNING_TRANSCRIPT_NO_START_CODON","LOW","Synonymous","GT:PL","0/1:255,0,255"]
["KP164568_BHI3734_H804698_2014_08_26_Human_Brazil",6370,".","A",792,{"$f":"E101*100/J101","v":55.076495132128},"G",646,{"$f":"H101*100/J101","v":44.923504867872},{"$f":"H101+E101","v":1438},225.009,"PASS","DP=1428;VDB=8.56417e-07;SGB=-0.693147;RPB=2.15716e-14;MQB=5.63193e-16;MQSB=0.13019;BQB=0.0926328;MQ0F=0.00140056;AF1=0.5;AC1=1;DP4=297,351,234,302;MQ=40;FQ=225.007;PV4=0.481258,0.0885736,4.73292e-23,8.33639e-13;ANN=G|missense_variant|MODERATE|NS4|GENE_NS4|transcript|TRANSCRIPT_NS4|protein_coding|1/1|c.704A>G|p.Gln235Arg|704/1833|704/1833|235/610||WARNING_TRANSCRIPT_NO_START_CODON,G|upstream_gene_variant|MODIFIER|capsid|GENE_capsid|transcript|TRANSCRIPT_capsid|protein_coding||c.-1198A>G|||||1198|WARNING_TRANSCRIPT_NO_STOP_CODON,G|upstream_gene_variant|MODIFIER|E3|GENE_E3|transcript|TRANSCRIPT_E3|protein_coding||c.-1990A>G|||||1990|WARNING_TRANSCRIPT_NO_START_CODON,G|upstream_gene_variant|MODIFIER|E2|GENE_E2|transcript|TRANSCRIPT_E2|protein_coding||c.-2173A>G|||||2173|WARNING_TRANSCRIPT_NO_START_CODON,G|upstream_gene_variant|MODIFIER|6K|GENE_6K|transcript|TRANSCRIPT_6K|protein_coding||c.-3442A>G|||||3442|WARNING_TRANSCRIPT_NO_START_CODON,G|upstream_gene_variant|MODIFIER|E1|GENE_E1|transcript|TRANSCRIPT_E1|protein_coding||c.-3625A>G|||||3625|WARNING_TRANSCRIPT_NO_START_CODON,G|downstream_gene_variant|MODIFIER|NS1|GENE_NS1|transcript|TRANSCRIPT_NS1|protein_coding||c.*4688A>G|||||4688|WARNING_TRANSCRIPT_NO_STOP_CODON,G|downstream_gene_variant|MODIFIER|NS2|GENE_NS2|transcript|TRANSCRIPT_NS2|protein_coding||c.*2294A>G|||||2294|WARNING_TRANSCRIPT_NO_START_CODON,G|downstream_gene_variant|MODIFIER|NS3|GENE_NS3|transcript|TRANSCRIPT_NS3|protein_coding||c.*722A>G|||||722|WARNING_TRANSCRIPT_NO_START_CODON,G|non_coding_transcript_variant|MODIFIER|EDEN.1|null|transcript|EDEN.1|protein_coding||||||||WARNING_TRANSCRIPT_NO_START_CODON","MODERATE","Non-synonymous","GT:PL","0/1:255,0,255"]
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["KP164568_BHI3734_H804698_2014_08_26_Human_Brazil",6437,".","T",442,{"$f":"E103*100/J103","v":80.8043875685557},"C",105,{"$f":"H103*100/J103","v":19.1956124314442},{"$f":"H103+E103","v":547},50.0072,"PASS","DP=546;VDB=0.000558582;SGB=-0.693147;RPB=0.00227319;MQB=8.57603e-28;MQSB=0.843983;BQB=0.0390641;MQ0F=0.025641;AF1=0.5;AC1=1;DP4=193,157,46,46;MQ=38;FQ=53.0153;PV4=0.411387,0.00227835,0,1;ANN=C|synonymous_variant|LOW|NS4|GENE_NS4|transcript|TRANSCRIPT_NS4|protein_coding|1/1|c.771T>C|p.Val257Val|771/1833|771/1833|257/610||WARNING_TRANSCRIPT_NO_START_CODON,C|upstream_gene_variant|MODIFIER|capsid|GENE_capsid|transcript|TRANSCRIPT_capsid|protein_coding||c.-1131T>C|||||1131|WARNING_TRANSCRIPT_NO_STOP_CODON,C|upstream_gene_variant|MODIFIER|E3|GENE_E3|transcript|TRANSCRIPT_E3|protein_coding||c.-1923T>C|||||1923|WARNING_TRANSCRIPT_NO_START_CODON,C|upstream_gene_variant|MODIFIER|E2|GENE_E2|transcript|TRANSCRIPT_E2|protein_coding||c.-2106T>C|||||2106|WARNING_TRANSCRIPT_NO_START_CODON,C|upstream_gene_variant|MODIFIER|6K|GENE_6K|transcript|TRANSCRIPT_6K|protein_coding||c.-3375T>C|||||3375|WARNING_TRANSCRIPT_NO_START_CODON,C|upstream_gene_variant|MODIFIER|E1|GENE_E1|transcript|TRANSCRIPT_E1|protein_coding||c.-3558T>C|||||3558|WARNING_TRANSCRIPT_NO_START_CODON,C|downstream_gene_variant|MODIFIER|NS1|GENE_NS1|transcript|TRANSCRIPT_NS1|protein_coding||c.*4755T>C|||||4755|WARNING_TRANSCRIPT_NO_STOP_CODON,C|downstream_gene_variant|MODIFIER|NS2|GENE_NS2|transcript|TRANSCRIPT_NS2|protein_coding||c.*2361T>C|||||2361|WARNING_TRANSCRIPT_NO_START_CODON,C|downstream_gene_variant|MODIFIER|NS3|GENE_NS3|transcript|TRANSCRIPT_NS3|protein_coding||c.*789T>C|||||789|WARNING_TRANSCRIPT_NO_START_CODON,C|non_coding_transcript_variant|MODIFIER|EDEN.1|null|transcript|EDEN.1|protein_coding||||||||WARNING_TRANSCRIPT_NO_START_CODON","LOW","Synonymous","GT:PL","0/1:80,0,255"]
["KP164568_BHI3734_H804698_2014_08_26_Human_Brazil",6444,".","C",377,{"$f":"E104*100/J104","v":74.3589743589744},"T",130,{"$f":"H104*100/J104","v":25.6410256410256},{"$f":"H104+E104","v":507},107.008,"PASS","DP=506;VDB=0.518502;SGB=-0.693147;RPB=0.0117414;MQB=7.05927e-34;MQSB=0.119916;BQB=0.00362773;MQ0F=0.055336;AF1=0.5;AC1=1;DP4=133,183,60,59;MQ=37;FQ=110.016;PV4=0.130233,0.00123292,0,2.52947e-10;ANN=T|synonymous_variant|LOW|NS4|GENE_NS4|transcript|TRANSCRIPT_NS4|protein_coding|1/1|c.778C>T|p.Leu260Leu|778/1833|778/1833|260/610||WARNING_TRANSCRIPT_NO_START_CODON,T|upstream_gene_variant|MODIFIER|capsid|GENE_capsid|transcript|TRANSCRIPT_capsid|protein_coding||c.-1124C>T|||||1124|WARNING_TRANSCRIPT_NO_STOP_CODON,T|upstream_gene_variant|MODIFIER|E3|GENE_E3|transcript|TRANSCRIPT_E3|protein_coding||c.-1916C>T|||||1916|WARNING_TRANSCRIPT_NO_START_CODON,T|upstream_gene_variant|MODIFIER|E2|GENE_E2|transcript|TRANSCRIPT_E2|protein_coding||c.-2099C>T|||||2099|WARNING_TRANSCRIPT_NO_START_CODON,T|upstream_gene_variant|MODIFIER|6K|GENE_6K|transcript|TRANSCRIPT_6K|protein_coding||c.-3368C>T|||||3368|WARNING_TRANSCRIPT_NO_START_CODON,T|upstream_gene_variant|MODIFIER|E1|GENE_E1|transcript|TRANSCRIPT_E1|protein_coding||c.-3551C>T|||||3551|WARNING_TRANSCRIPT_NO_START_CODON,T|downstream_gene_variant|MODIFIER|NS1|GENE_NS1|transcript|TRANSCRIPT_NS1|protein_coding||c.*4762C>T|||||4762|WARNING_TRANSCRIPT_NO_STOP_CODON,T|downstream_gene_variant|MODIFIER|NS2|GENE_NS2|transcript|TRANSCRIPT_NS2|protein_coding||c.*2368C>T|||||2368|WARNING_TRANSCRIPT_NO_START_CODON,T|downstream_gene_variant|MODIFIER|NS3|GENE_NS3|transcript|TRANSCRIPT_NS3|protein_coding||c.*796C>T|||||796|WARNING_TRANSCRIPT_NO_START_CODON,T|non_coding_transcript_variant|MODIFIER|EDEN.1|null|transcript|EDEN.1|protein_coding||||||||WARNING_TRANSCRIPT_NO_START_CODON","LOW","Synonymous","GT:PL","0/1:137,0,255"]
["KP164568_BHI3734_H804698_2014_08_26_Human_Brazil",6449,".","A",388,{"$f":"E105*100/J105","v":75.1937984496124},"G",128,{"$f":"H105*100/J105","v":24.8062015503876},{"$f":"H105+E105","v":516},49.0072,"PASS","DP=515;VDB=0.740561;SGB=-0.693147;RPB=0.0455932;MQB=2.28929e-33;MQSB=0.0872999;BQB=0.284133;MQ0F=0.0621359;AF1=0.5;AC1=1;DP4=135,186,58,59;MQ=37;FQ=52.0153;PV4=0.191733,0.00337329,0,3.38141e-07;ANN=G|synonymous_variant|LOW|NS4|GENE_NS4|transcript|TRANSCRIPT_NS4|protein_coding|1/1|c.783A>G|p.Lys261Lys|783/1833|783/1833|261/610||WARNING_TRANSCRIPT_NO_START_CODON,G|upstream_gene_variant|MODIFIER|capsid|GENE_capsid|transcript|TRANSCRIPT_capsid|protein_coding||c.-1119A>G|||||1119|WARNING_TRANSCRIPT_NO_STOP_CODON,G|upstream_gene_variant|MODIFIER|E3|GENE_E3|transcript|TRANSCRIPT_E3|protein_coding||c.-1911A>G|||||1911|WARNING_TRANSCRIPT_NO_START_CODON,G|upstream_gene_variant|MODIFIER|E2|GENE_E2|transcript|TRANSCRIPT_E2|protein_coding||c.-2094A>G|||||2094|WARNING_TRANSCRIPT_NO_START_CODON,G|upstream_gene_variant|MODIFIER|6K|GENE_6K|transcript|TRANSCRIPT_6K|protein_coding||c.-3363A>G|||||3363|WARNING_TRANSCRIPT_NO_START_CODON,G|upstream_gene_variant|MODIFIER|E1|GENE_E1|transcript|TRANSCRIPT_E1|protein_coding||c.-3546A>G|||||3546|WARNING_TRANSCRIPT_NO_START_CODON,G|downstream_gene_variant|MODIFIER|NS1|GENE_NS1|transcript|TRANSCRIPT_NS1|protein_coding||c.*4767A>G|||||4767|WARNING_TRANSCRIPT_NO_STOP_CODON,G|downstream_gene_variant|MODIFIER|NS2|GENE_NS2|transcript|TRANSCRIPT_NS2|protein_coding||c.*2373A>G|||||2373|WARNING_TRANSCRIPT_NO_START_CODON,G|downstream_gene_variant|MODIFIER|NS3|GENE_NS3|transcript|TRANSCRIPT_NS3|protein_coding||c.*801A>G|||||801|WARNING_TRANSCRIPT_NO_START_CODON,G|non_coding_transcript_variant|MODIFIER|EDEN.1|null|transcript|EDEN.1|protein_coding||||||||WARNING_TRANSCRIPT_NO_START_CODON","LOW","Synonymous","GT:PL","0/1:79,0,255"]
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["KP164568_BHI3734_H804698_2014_08_26_Human_Brazil",6471,null,"T",386,{"$f":"E108*100/J108","v":66.2092624356775},"C",197,{"$f":"H108*100/J108","v":33.7907375643225},{"$f":"H108+E108","v":583},null,null,"Phe -> Leu","MODERATE","Non-synonymous"]
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["KP164568_BHI3734_H804698_2014_08_26_Human_Brazil",6497,".","A",300,{"$f":"E111*100/J111","v":59.4059405940594},"G",205,{"$f":"H111*100/J111","v":40.5940594059406},{"$f":"H111+E111","v":505},173.009,"PASS","DP=502;VDB=7.04983e-05;SGB=-0.693147;RPB=0.00685351;MQB=0;MQSB=0.00350545;BQB=0.997625;MQ0F=0.115538;AF1=0.5;AC1=1;DP4=123,112,85,80;MQ=34;FQ=176.017;PV4=0.919119,0.0938423,0,1;ANN=G|synonymous_variant|LOW|NS4|GENE_NS4|transcript|TRANSCRIPT_NS4|protein_coding|1/1|c.831A>G|p.Pro277Pro|831/1833|831/1833|277/610||WARNING_TRANSCRIPT_NO_START_CODON,G|upstream_gene_variant|MODIFIER|capsid|GENE_capsid|transcript|TRANSCRIPT_capsid|protein_coding||c.-1071A>G|||||1071|WARNING_TRANSCRIPT_NO_STOP_CODON,G|upstream_gene_variant|MODIFIER|E3|GENE_E3|transcript|TRANSCRIPT_E3|protein_coding||c.-1863A>G|||||1863|WARNING_TRANSCRIPT_NO_START_CODON,G|upstream_gene_variant|MODIFIER|E2|GENE_E2|transcript|TRANSCRIPT_E2|protein_coding||c.-2046A>G|||||2046|WARNING_TRANSCRIPT_NO_START_CODON,G|upstream_gene_variant|MODIFIER|6K|GENE_6K|transcript|TRANSCRIPT_6K|protein_coding||c.-3315A>G|||||3315|WARNING_TRANSCRIPT_NO_START_CODON,G|upstream_gene_variant|MODIFIER|E1|GENE_E1|transcript|TRANSCRIPT_E1|protein_coding||c.-3498A>G|||||3498|WARNING_TRANSCRIPT_NO_START_CODON,G|downstream_gene_variant|MODIFIER|NS1|GENE_NS1|transcript|TRANSCRIPT_NS1|protein_coding||c.*4815A>G|||||4815|WARNING_TRANSCRIPT_NO_STOP_CODON,G|downstream_gene_variant|MODIFIER|NS2|GENE_NS2|transcript|TRANSCRIPT_NS2|protein_coding||c.*2421A>G|||||2421|WARNING_TRANSCRIPT_NO_START_CODON,G|downstream_gene_variant|MODIFIER|NS3|GENE_NS3|transcript|TRANSCRIPT_NS3|protein_coding||c.*849A>G|||||849|WARNING_TRANSCRIPT_NO_START_CODON,G|non_coding_transcript_variant|MODIFIER|EDEN.1|null|transcript|EDEN.1|protein_coding||||||||WARNING_TRANSCRIPT_NO_START_CODON","LOW","Synonymous","GT:PL","0/1:203,0,255"]
["KP164568_BHI3734_H804698_2014_08_26_Human_Brazil",6506,".","A",318,{"$f":"E112*100/J112","v":52.0458265139116},"T",293,{"$f":"H112*100/J112","v":47.9541734860884},{"$f":"H112+E112","v":611},225.009,"PASS","DP=607;VDB=0.330139;SGB=-0.693147;RPB=0.000188275;MQB=4.95205e-41;MQSB=0.0229916;BQB=0.774626;MQ0F=0.0873147;AF1=0.5;AC1=1;DP4=124,120,117,97;MQ=34;FQ=225.007;PV4=0.453223,1,8.23963e-43,1;ANN=T|missense_variant|MODERATE|NS4|GENE_NS4|transcript|TRANSCRIPT_NS4|protein_coding|1/1|c.840A>T|p.Glu280Asp|840/1833|840/1833|280/610||WARNING_TRANSCRIPT_NO_START_CODON,T|upstream_gene_variant|MODIFIER|capsid|GENE_capsid|transcript|TRANSCRIPT_capsid|protein_coding||c.-1062A>T|||||1062|WARNING_TRANSCRIPT_NO_STOP_CODON,T|upstream_gene_variant|MODIFIER|E3|GENE_E3|transcript|TRANSCRIPT_E3|protein_coding||c.-1854A>T|||||1854|WARNING_TRANSCRIPT_NO_START_CODON,T|upstream_gene_variant|MODIFIER|E2|GENE_E2|transcript|TRANSCRIPT_E2|protein_coding||c.-2037A>T|||||2037|WARNING_TRANSCRIPT_NO_START_CODON,T|upstream_gene_variant|MODIFIER|6K|GENE_6K|transcript|TRANSCRIPT_6K|protein_coding||c.-3306A>T|||||3306|WARNING_TRANSCRIPT_NO_START_CODON,T|upstream_gene_variant|MODIFIER|E1|GENE_E1|transcript|TRANSCRIPT_E1|protein_coding||c.-3489A>T|||||3489|WARNING_TRANSCRIPT_NO_START_CODON,T|downstream_gene_variant|MODIFIER|NS1|GENE_NS1|transcript|TRANSCRIPT_NS1|protein_coding||c.*4824A>T|||||4824|WARNING_TRANSCRIPT_NO_STOP_CODON,T|downstream_gene_variant|MODIFIER|NS2|GENE_NS2|transcript|TRANSCRIPT_NS2|protein_coding||c.*2430A>T|||||2430|WARNING_TRANSCRIPT_NO_START_CODON,T|downstream_gene_variant|MODIFIER|NS3|GENE_NS3|transcript|TRANSCRIPT_NS3|protein_coding||c.*858A>T|||||858|WARNING_TRANSCRIPT_NO_START_CODON,T|non_coding_transcript_variant|MODIFIER|EDEN.1|null|transcript|EDEN.1|protein_coding||||||||WARNING_TRANSCRIPT_NO_START_CODON","MODERATE","Non-synonymous","GT:PL","0/1:255,0,255"]
["KP164568_BHI3734_H804698_2014_08_26_Human_Brazil",6554,".","G",234,{"$f":"E113*100/J113","v":49.1596638655462},"A",242,{"$f":"H113*100/J113","v":50.8403361344538},{"$f":"H113+E113","v":476},225.009,"PASS","DP=471;VDB=8.97411e-11;SGB=-0.693147;RPB=0.296623;MQB=9.24857e-44;MQSB=0.336241;BQB=0.97734;MQ0F=0.0127389;AF1=0.5;AC1=1;DP4=84,105,97,86;MQ=35;FQ=225.007;PV4=0.119558,1,1.4013e-45,0.116702;ANN=A|synonymous_variant|LOW|NS4|GENE_NS4|transcript|TRANSCRIPT_NS4|protein_coding|1/1|c.888G>A|p.Val296Val|888/1833|888/1833|296/610||WARNING_TRANSCRIPT_NO_START_CODON,A|upstream_gene_variant|MODIFIER|capsid|GENE_capsid|transcript|TRANSCRIPT_capsid|protein_coding||c.-1014G>A|||||1014|WARNING_TRANSCRIPT_NO_STOP_CODON,A|upstream_gene_variant|MODIFIER|E3|GENE_E3|transcript|TRANSCRIPT_E3|protein_coding||c.-1806G>A|||||1806|WARNING_TRANSCRIPT_NO_START_CODON,A|upstream_gene_variant|MODIFIER|E2|GENE_E2|transcript|TRANSCRIPT_E2|protein_coding||c.-1989G>A|||||1989|WARNING_TRANSCRIPT_NO_START_CODON,A|upstream_gene_variant|MODIFIER|6K|GENE_6K|transcript|TRANSCRIPT_6K|protein_coding||c.-3258G>A|||||3258|WARNING_TRANSCRIPT_NO_START_CODON,A|upstream_gene_variant|MODIFIER|E1|GENE_E1|transcript|TRANSCRIPT_E1|protein_coding||c.-3441G>A|||||3441|WARNING_TRANSCRIPT_NO_START_CODON,A|downstream_gene_variant|MODIFIER|NS1|GENE_NS1|transcript|TRANSCRIPT_NS1|protein_coding||c.*4872G>A|||||4872|WARNING_TRANSCRIPT_NO_STOP_CODON,A|downstream_gene_variant|MODIFIER|NS2|GENE_NS2|transcript|TRANSCRIPT_NS2|protein_coding||c.*2478G>A|||||2478|WARNING_TRANSCRIPT_NO_START_CODON,A|downstream_gene_variant|MODIFIER|NS3|GENE_NS3|transcript|TRANSCRIPT_NS3|protein_coding||c.*906G>A|||||906|WARNING_TRANSCRIPT_NO_START_CODON,A|non_coding_transcript_variant|MODIFIER|EDEN.1|null|transcript|EDEN.1|protein_coding||||||||WARNING_TRANSCRIPT_NO_START_CODON","LOW","Synonymous","GT:PL","0/1:255,0,255"]
["KP164568_BHI3734_H804698_2014_08_26_Human_Brazil",6563,".","T",177,{"$f":"E114*100/J114","v":47.8378378378378},"C",193,{"$f":"H114*100/J114","v":52.1621621621622},{"$f":"H114+E114","v":370},225.009,"PASS","DP=367;VDB=1.73361e-26;SGB=-0.693147;RPB=0.952506;MQB=3.72329e-37;MQSB=0.234902;BQB=0.281583;MQ0F=0.013624;AF1=0.5;AC1=1;DP4=66,85,79,68;MQ=35;FQ=225.007;PV4=0.104497,1,5.88545e-44,1;ANN=C|synonymous_variant|LOW|NS4|GENE_NS4|transcript|TRANSCRIPT_NS4|protein_coding|1/1|c.897T>C|p.Gly299Gly|897/1833|897/1833|299/610||WARNING_TRANSCRIPT_NO_START_CODON,C|upstream_gene_variant|MODIFIER|capsid|GENE_capsid|transcript|TRANSCRIPT_capsid|protein_coding||c.-1005T>C|||||1005|WARNING_TRANSCRIPT_NO_STOP_CODON,C|upstream_gene_variant|MODIFIER|E3|GENE_E3|transcript|TRANSCRIPT_E3|protein_coding||c.-1797T>C|||||1797|WARNING_TRANSCRIPT_NO_START_CODON,C|upstream_gene_variant|MODIFIER|E2|GENE_E2|transcript|TRANSCRIPT_E2|protein_coding||c.-1980T>C|||||1980|WARNING_TRANSCRIPT_NO_START_CODON,C|upstream_gene_variant|MODIFIER|6K|GENE_6K|transcript|TRANSCRIPT_6K|protein_coding||c.-3249T>C|||||3249|WARNING_TRANSCRIPT_NO_START_CODON,C|upstream_gene_variant|MODIFIER|E1|GENE_E1|transcript|TRANSCRIPT_E1|protein_coding||c.-3432T>C|||||3432|WARNING_TRANSCRIPT_NO_START_CODON,C|downstream_gene_variant|MODIFIER|NS1|GENE_NS1|transcript|TRANSCRIPT_NS1|protein_coding||c.*4881T>C|||||4881|WARNING_TRANSCRIPT_NO_STOP_CODON,C|downstream_gene_variant|MODIFIER|NS2|GENE_NS2|transcript|TRANSCRIPT_NS2|protein_coding||c.*2487T>C|||||2487|WARNING_TRANSCRIPT_NO_START_CODON,C|downstream_gene_variant|MODIFIER|NS3|GENE_NS3|transcript|TRANSCRIPT_NS3|protein_coding||c.*915T>C|||||915|WARNING_TRANSCRIPT_NO_START_CODON,C|non_coding_transcript_variant|MODIFIER|EDEN.1|null|transcript|EDEN.1|protein_coding||||||||WARNING_TRANSCRIPT_NO_START_CODON","LOW","Synonymous","GT:PL","0/1:255,0,255"]
["KP164568_BHI3734_H804698_2014_08_26_Human_Brazil",6572,".","C",129,{"$f":"E115*100/J115","v":42.156862745098},"T",177,{"$f":"H115*100/J115","v":57.843137254902},{"$f":"H115+E115","v":306},225.009,"PASS","DP=303;VDB=1.04021e-28;SGB=-0.693147;RPB=0.0472667;MQB=7.55616e-29;MQSB=0.747661;BQB=0.980553;MQ0F=0.0132013;AF1=0.5;AC1=1;DP4=58,51,69,69;MQ=34;FQ=225.007;PV4=0.700655,1,2.51865e-33,0.00469509;ANN=T|synonymous_variant|LOW|NS4|GENE_NS4|transcript|TRANSCRIPT_NS4|protein_coding|1/1|c.906C>T|p.His302His|906/1833|906/1833|302/610||WARNING_TRANSCRIPT_NO_START_CODON,T|upstream_gene_variant|MODIFIER|capsid|GENE_capsid|transcript|TRANSCRIPT_capsid|protein_coding||c.-996C>T|||||996|WARNING_TRANSCRIPT_NO_STOP_CODON,T|upstream_gene_variant|MODIFIER|E3|GENE_E3|transcript|TRANSCRIPT_E3|protein_coding||c.-1788C>T|||||1788|WARNING_TRANSCRIPT_NO_START_CODON,T|upstream_gene_variant|MODIFIER|E2|GENE_E2|transcript|TRANSCRIPT_E2|protein_coding||c.-1971C>T|||||1971|WARNING_TRANSCRIPT_NO_START_CODON,T|upstream_gene_variant|MODIFIER|6K|GENE_6K|transcript|TRANSCRIPT_6K|protein_coding||c.-3240C>T|||||3240|WARNING_TRANSCRIPT_NO_START_CODON,T|upstream_gene_variant|MODIFIER|E1|GENE_E1|transcript|TRANSCRIPT_E1|protein_coding||c.-3423C>T|||||3423|WARNING_TRANSCRIPT_NO_START_CODON,T|downstream_gene_variant|MODIFIER|NS1|GENE_NS1|transcript|TRANSCRIPT_NS1|protein_coding||c.*4890C>T|||||4890|WARNING_TRANSCRIPT_NO_STOP_CODON,T|downstream_gene_variant|MODIFIER|NS2|GENE_NS2|transcript|TRANSCRIPT_NS2|protein_coding||c.*2496C>T|||||2496|WARNING_TRANSCRIPT_NO_START_CODON,T|downstream_gene_variant|MODIFIER|NS3|GENE_NS3|transcript|TRANSCRIPT_NS3|protein_coding||c.*924C>T|||||924|WARNING_TRANSCRIPT_NO_START_CODON,T|non_coding_transcript_variant|MODIFIER|EDEN.1|null|transcript|EDEN.1|protein_coding||||||||WARNING_TRANSCRIPT_NO_START_CODON","LOW","Synonymous","GT:PL","0/1:255,0,255"]
["KP164568_BHI3734_H804698_2014_08_26_Human_Brazil",6623,".","G",976,{"$f":"E116*100/J116","v":56.0275545350172},"A",766,{"$f":"H116*100/J116","v":43.9724454649828},{"$f":"H116+E116","v":1742},212.009,"PASS","DP=1726;VDB=1.3308e-29;SGB=-0.693147;RPB=0.0128956;MQB=0;MQSB=0.332439;BQB=0.148297;MQ0F=0.0683662;AF1=0.5;AC1=1;DP4=597,117,512,77;MQ=34;FQ=214.805;PV4=0.100833,0.00662654,0,0.264673;ANN=A|synonymous_variant|LOW|NS4|GENE_NS4|transcript|TRANSCRIPT_NS4|protein_coding|1/1|c.957G>A|p.Ala319Ala|957/1833|957/1833|319/610||WARNING_TRANSCRIPT_NO_START_CODON,A|upstream_gene_variant|MODIFIER|capsid|GENE_capsid|transcript|TRANSCRIPT_capsid|protein_coding||c.-945G>A|||||945|WARNING_TRANSCRIPT_NO_STOP_CODON,A|upstream_gene_variant|MODIFIER|E3|GENE_E3|transcript|TRANSCRIPT_E3|protein_coding||c.-1737G>A|||||1737|WARNING_TRANSCRIPT_NO_START_CODON,A|upstream_gene_variant|MODIFIER|E2|GENE_E2|transcript|TRANSCRIPT_E2|protein_coding||c.-1920G>A|||||1920|WARNING_TRANSCRIPT_NO_START_CODON,A|upstream_gene_variant|MODIFIER|6K|GENE_6K|transcript|TRANSCRIPT_6K|protein_coding||c.-3189G>A|||||3189|WARNING_TRANSCRIPT_NO_START_CODON,A|upstream_gene_variant|MODIFIER|E1|GENE_E1|transcript|TRANSCRIPT_E1|protein_coding||c.-3372G>A|||||3372|WARNING_TRANSCRIPT_NO_START_CODON,A|downstream_gene_variant|MODIFIER|NS1|GENE_NS1|transcript|TRANSCRIPT_NS1|protein_coding||c.*4941G>A|||||4941|WARNING_TRANSCRIPT_NO_STOP_CODON,A|downstream_gene_variant|MODIFIER|NS2|GENE_NS2|transcript|TRANSCRIPT_NS2|protein_coding||c.*2547G>A|||||2547|WARNING_TRANSCRIPT_NO_START_CODON,A|downstream_gene_variant|MODIFIER|NS3|GENE_NS3|transcript|TRANSCRIPT_NS3|protein_coding||c.*975G>A|||||975|WARNING_TRANSCRIPT_NO_START_CODON,A|non_coding_transcript_variant|MODIFIER|EDEN.1|null|transcript|EDEN.1|protein_coding||||||||WARNING_TRANSCRIPT_NO_START_CODON","LOW","Synonymous","GT:PL","0/1:242,0,255"]
["KP164568_BHI3734_H804698_2014_08_26_Human_Brazil",6629,".","A",1287,{"$f":"E117*100/J117","v":61.6674652611404},"G",800,{"$f":"H117*100/J117","v":38.3325347388596},{"$f":"H117+E117","v":2087},143.008,"PASS","DP=2068;VDB=8.28017e-17;SGB=-0.693147;RPB=2.44005e-10;MQB=0;MQSB=0.952626;BQB=0.877797;MQ0F=0.0589942;AF1=0.5;AC1=1;DP4=819,121,543,74;MQ=35;FQ=146.016;PV4=0.639068,0.0146021,0,1;ANN=G|synonymous_variant|LOW|NS4|GENE_NS4|transcript|TRANSCRIPT_NS4|protein_coding|1/1|c.963A>G|p.Ala321Ala|963/1833|963/1833|321/610||WARNING_TRANSCRIPT_NO_START_CODON,G|upstream_gene_variant|MODIFIER|capsid|GENE_capsid|transcript|TRANSCRIPT_capsid|protein_coding||c.-939A>G|||||939|WARNING_TRANSCRIPT_NO_STOP_CODON,G|upstream_gene_variant|MODIFIER|E3|GENE_E3|transcript|TRANSCRIPT_E3|protein_coding||c.-1731A>G|||||1731|WARNING_TRANSCRIPT_NO_START_CODON,G|upstream_gene_variant|MODIFIER|E2|GENE_E2|transcript|TRANSCRIPT_E2|protein_coding||c.-1914A>G|||||1914|WARNING_TRANSCRIPT_NO_START_CODON,G|upstream_gene_variant|MODIFIER|6K|GENE_6K|transcript|TRANSCRIPT_6K|protein_coding||c.-3183A>G|||||3183|WARNING_TRANSCRIPT_NO_START_CODON,G|upstream_gene_variant|MODIFIER|E1|GENE_E1|transcript|TRANSCRIPT_E1|protein_coding||c.-3366A>G|||||3366|WARNING_TRANSCRIPT_NO_START_CODON,G|downstream_gene_variant|MODIFIER|NS1|GENE_NS1|transcript|TRANSCRIPT_NS1|protein_coding||c.*4947A>G|||||4947|WARNING_TRANSCRIPT_NO_STOP_CODON,G|downstream_gene_variant|MODIFIER|NS2|GENE_NS2|transcript|TRANSCRIPT_NS2|protein_coding||c.*2553A>G|||||2553|WARNING_TRANSCRIPT_NO_START_CODON,G|downstream_gene_variant|MODIFIER|NS3|GENE_NS3|transcript|TRANSCRIPT_NS3|protein_coding||c.*981A>G|||||981|WARNING_TRANSCRIPT_NO_START_CODON,G|non_coding_transcript_variant|MODIFIER|EDEN.1|null|transcript|EDEN.1|protein_coding||||||||WARNING_TRANSCRIPT_NO_START_CODON","LOW","Synonymous","GT:PL","0/1:173,0,255"]
["KP164568_BHI3734_H804698_2014_08_26_Human_Brazil",6641,".","G",1674,{"$f":"E118*100/J118","v":66.7730355005983},"A",833,{"$f":"H118*100/J118","v":33.2269644994017},{"$f":"H118+E118","v":2507},118.008,"PASS","DP=2488;VDB=0.0665743;SGB=-0.693147;RPB=2.28576e-05;MQB=0;MQSB=0.407405;BQB=2.88331e-07;MQ0F=0.0490354;AF1=0.5;AC1=1;DP4=1054,115,574,63;MQ=36;FQ=121.016;PV4=1,7.90477e-08,0,0.193101;ANN=A|synonymous_variant|LOW|NS4|GENE_NS4|transcript|TRANSCRIPT_NS4|protein_coding|1/1|c.975G>A|p.Gly325Gly|975/1833|975/1833|325/610||WARNING_TRANSCRIPT_NO_START_CODON,A|upstream_gene_variant|MODIFIER|capsid|GENE_capsid|transcript|TRANSCRIPT_capsid|protein_coding||c.-927G>A|||||927|WARNING_TRANSCRIPT_NO_STOP_CODON,A|upstream_gene_variant|MODIFIER|E3|GENE_E3|transcript|TRANSCRIPT_E3|protein_coding||c.-1719G>A|||||1719|WARNING_TRANSCRIPT_NO_START_CODON,A|upstream_gene_variant|MODIFIER|E2|GENE_E2|transcript|TRANSCRIPT_E2|protein_coding||c.-1902G>A|||||1902|WARNING_TRANSCRIPT_NO_START_CODON,A|upstream_gene_variant|MODIFIER|6K|GENE_6K|transcript|TRANSCRIPT_6K|protein_coding||c.-3171G>A|||||3171|WARNING_TRANSCRIPT_NO_START_CODON,A|upstream_gene_variant|MODIFIER|E1|GENE_E1|transcript|TRANSCRIPT_E1|protein_coding||c.-3354G>A|||||3354|WARNING_TRANSCRIPT_NO_START_CODON,A|downstream_gene_variant|MODIFIER|NS1|GENE_NS1|transcript|TRANSCRIPT_NS1|protein_coding||c.*4959G>A|||||4959|WARNING_TRANSCRIPT_NO_STOP_CODON,A|downstream_gene_variant|MODIFIER|NS2|GENE_NS2|transcript|TRANSCRIPT_NS2|protein_coding||c.*2565G>A|||||2565|WARNING_TRANSCRIPT_NO_START_CODON,A|downstream_gene_variant|MODIFIER|NS3|GENE_NS3|transcript|TRANSCRIPT_NS3|protein_coding||c.*993G>A|||||993|WARNING_TRANSCRIPT_NO_START_CODON,A|non_coding_transcript_variant|MODIFIER|EDEN.1|null|transcript|EDEN.1|protein_coding||||||||WARNING_TRANSCRIPT_NO_START_CODON","LOW","Synonymous","GT:PL","0/1:148,0,255"]
["KP164568_BHI3734_H804698_2014_08_26_Human_Brazil",6653,null,"G",2148,{"$f":"E119*100/J119","v":74.4798890429958},"C",736,{"$f":"H119*100/J119","v":25.5201109570042},{"$f":"H119+E119","v":2884},null,null,null,"LOW","Synonymous"]
["KP164568_BHI3734_H804698_2014_08_26_Human_Brazil",6654,".","C",2169,{"$f":"E120*100/J120","v":74.6900826446281},"T",735,{"$f":"H120*100/J120","v":25.3099173553719},{"$f":"H120+E120","v":2904},89.0077,"PASS","DP=2880;VDB=0.999593;SGB=-0.693147;RPB=1.26996e-30;MQB=0;MQSB=0.526543;BQB=2.19407e-06;MQ0F=0.0430556;AF1=0.5;AC1=1;DP4=1424,86,505,63;MQ=36;FQ=92.0158;PV4=5.2061e-05,2.37954e-10,0,0;ANN=T|synonymous_variant|LOW|NS4|GENE_NS4|transcript|TRANSCRIPT_NS4|protein_coding|1/1|c.988C>T|p.Leu330Leu|988/1833|988/1833|330/610||WARNING_TRANSCRIPT_NO_START_CODON,T|upstream_gene_variant|MODIFIER|capsid|GENE_capsid|transcript|TRANSCRIPT_capsid|protein_coding||c.-914C>T|||||914|WARNING_TRANSCRIPT_NO_STOP_CODON,T|upstream_gene_variant|MODIFIER|E3|GENE_E3|transcript|TRANSCRIPT_E3|protein_coding||c.-1706C>T|||||1706|WARNING_TRANSCRIPT_NO_START_CODON,T|upstream_gene_variant|MODIFIER|E2|GENE_E2|transcript|TRANSCRIPT_E2|protein_coding||c.-1889C>T|||||1889|WARNING_TRANSCRIPT_NO_START_CODON,T|upstream_gene_variant|MODIFIER|6K|GENE_6K|transcript|TRANSCRIPT_6K|protein_coding||c.-3158C>T|||||3158|WARNING_TRANSCRIPT_NO_START_CODON,T|upstream_gene_variant|MODIFIER|E1|GENE_E1|transcript|TRANSCRIPT_E1|protein_coding||c.-3341C>T|||||3341|WARNING_TRANSCRIPT_NO_START_CODON,T|downstream_gene_variant|MODIFIER|NS1|GENE_NS1|transcript|TRANSCRIPT_NS1|protein_coding||c.*4972C>T|||||4972|WARNING_TRANSCRIPT_NO_STOP_CODON,T|downstream_gene_variant|MODIFIER|NS2|GENE_NS2|transcript|TRANSCRIPT_NS2|protein_coding||c.*2578C>T|||||2578|WARNING_TRANSCRIPT_NO_START_CODON,T|downstream_gene_variant|MODIFIER|NS3|GENE_NS3|transcript|TRANSCRIPT_NS3|protein_coding||c.*1006C>T|||||1006|WARNING_TRANSCRIPT_NO_START_CODON,T|non_coding_transcript_variant|MODIFIER|EDEN.1|null|transcript|EDEN.1|protein_coding||||||||WARNING_TRANSCRIPT_NO_START_CODON","LOW","Synonymous","GT:PL","0/1:119,0,255"]
["KP164568_BHI3734_H804698_2014_08_26_Human_Brazil",6689,".","T",2331,{"$f":"E121*100/J121","v":74.496644295302},"C",798,{"$f":"H121*100/J121","v":25.503355704698},{"$f":"H121+E121","v":3129},75.0075,"PASS","DP=3109;VDB=0.224453;SGB=-0.693147;RPB=0;MQB=0;MQSB=0.171587;BQB=0.0132349;MQ0F=0.0160823;AF1=0.5;AC1=1;DP4=1513,179,515,89;MQ=37;FQ=78.0156;PV4=0.00778293,0.0102944,0,9.5161e-21;ANN=C|synonymous_variant|LOW|NS4|GENE_NS4|transcript|TRANSCRIPT_NS4|protein_coding|1/1|c.1023T>C|p.Asn341Asn|1023/1833|1023/1833|341/610||WARNING_TRANSCRIPT_NO_START_CODON,C|upstream_gene_variant|MODIFIER|capsid|GENE_capsid|transcript|TRANSCRIPT_capsid|protein_coding||c.-879T>C|||||879|WARNING_TRANSCRIPT_NO_STOP_CODON,C|upstream_gene_variant|MODIFIER|E3|GENE_E3|transcript|TRANSCRIPT_E3|protein_coding||c.-1671T>C|||||1671|WARNING_TRANSCRIPT_NO_START_CODON,C|upstream_gene_variant|MODIFIER|E2|GENE_E2|transcript|TRANSCRIPT_E2|protein_coding||c.-1854T>C|||||1854|WARNING_TRANSCRIPT_NO_START_CODON,C|upstream_gene_variant|MODIFIER|6K|GENE_6K|transcript|TRANSCRIPT_6K|protein_coding||c.-3123T>C|||||3123|WARNING_TRANSCRIPT_NO_START_CODON,C|upstream_gene_variant|MODIFIER|E1|GENE_E1|transcript|TRANSCRIPT_E1|protein_coding||c.-3306T>C|||||3306|WARNING_TRANSCRIPT_NO_START_CODON,C|downstream_gene_variant|MODIFIER|NS2|GENE_NS2|transcript|TRANSCRIPT_NS2|protein_coding||c.*2613T>C|||||2613|WARNING_TRANSCRIPT_NO_START_CODON,C|downstream_gene_variant|MODIFIER|NS3|GENE_NS3|transcript|TRANSCRIPT_NS3|protein_coding||c.*1041T>C|||||1041|WARNING_TRANSCRIPT_NO_START_CODON,C|non_coding_transcript_variant|MODIFIER|EDEN.1|null|transcript|EDEN.1|protein_coding||||||||WARNING_TRANSCRIPT_NO_START_CODON","LOW","Synonymous","GT:PL","0/1:105,0,255"]
["KP164568_BHI3734_H804698_2014_08_26_Human_Brazil",6692,null,"A",2460,{"$f":"E122*100/J122","v":72.9104919976289},"G",914,{"$f":"H122*100/J122","v":27.0895080023711},{"$f":"H122+E122","v":3374},null,null,null,"LOW","Synonymous"]
["KP164568_BHI3734_H804698_2014_08_26_Human_Brazil",6707,".","T",2249,{"$f":"E123*100/J123","v":65.3589072943912},"C",1192,{"$f":"H123*100/J123","v":34.6410927056088},{"$f":"H123+E123","v":3441},115.008,"PASS","DP=3425;VDB=0.00318964;SGB=-0.693147;RPB=0;MQB=0;MQSB=0.602831;BQB=0.671775;MQ0F=0.0181022;AF1=0.5;AC1=1;DP4=1310,326,769,120;MQ=36;FQ=118.016;PV4=5.08009e-05,0.118199,0,0.134342;ANN=C|synonymous_variant|LOW|NS4|GENE_NS4|transcript|TRANSCRIPT_NS4|protein_coding|1/1|c.1041T>C|p.Asp347Asp|1041/1833|1041/1833|347/610||WARNING_TRANSCRIPT_NO_START_CODON,C|upstream_gene_variant|MODIFIER|capsid|GENE_capsid|transcript|TRANSCRIPT_capsid|protein_coding||c.-861T>C|||||861|WARNING_TRANSCRIPT_NO_STOP_CODON,C|upstream_gene_variant|MODIFIER|E3|GENE_E3|transcript|TRANSCRIPT_E3|protein_coding||c.-1653T>C|||||1653|WARNING_TRANSCRIPT_NO_START_CODON,C|upstream_gene_variant|MODIFIER|E2|GENE_E2|transcript|TRANSCRIPT_E2|protein_coding||c.-1836T>C|||||1836|WARNING_TRANSCRIPT_NO_START_CODON,C|upstream_gene_variant|MODIFIER|6K|GENE_6K|transcript|TRANSCRIPT_6K|protein_coding||c.-3105T>C|||||3105|WARNING_TRANSCRIPT_NO_START_CODON,C|upstream_gene_variant|MODIFIER|E1|GENE_E1|transcript|TRANSCRIPT_E1|protein_coding||c.-3288T>C|||||3288|WARNING_TRANSCRIPT_NO_START_CODON,C|downstream_gene_variant|MODIFIER|NS2|GENE_NS2|transcript|TRANSCRIPT_NS2|protein_coding||c.*2631T>C|||||2631|WARNING_TRANSCRIPT_NO_START_CODON,C|downstream_gene_variant|MODIFIER|NS3|GENE_NS3|transcript|TRANSCRIPT_NS3|protein_coding||c.*1059T>C|||||1059|WARNING_TRANSCRIPT_NO_START_CODON,C|non_coding_transcript_variant|MODIFIER|EDEN.1|null|transcript|EDEN.1|protein_coding||||||||WARNING_TRANSCRIPT_NO_START_CODON","LOW","Synonymous","GT:PL","0/1:145,0,255"]
["KP164568_BHI3734_H804698_2014_08_26_Human_Brazil",6722,".","T",2233,{"$f":"E124*100/J124","v":62.0967741935484},"C",1363,{"$f":"H124*100/J124","v":37.9032258064516},{"$f":"H124+E124","v":3596},153.008,"PASS","DP=3580;VDB=0.0923639;SGB=-0.693147;RPB=2.42196e-17;MQB=0;MQSB=0.00713754;BQB=0.16993;MQ0F=0.0167598;AF1=0.5;AC1=1;DP4=1188,400,798,153;MQ=35;FQ=156.017;PV4=5.66344e-08,1,0,1;ANN=C|synonymous_variant|LOW|NS4|GENE_NS4|transcript|TRANSCRIPT_NS4|protein_coding|1/1|c.1056T>C|p.Asp352Asp|1056/1833|1056/1833|352/610||WARNING_TRANSCRIPT_NO_START_CODON,C|upstream_gene_variant|MODIFIER|capsid|GENE_capsid|transcript|TRANSCRIPT_capsid|protein_coding||c.-846T>C|||||846|WARNING_TRANSCRIPT_NO_STOP_CODON,C|upstream_gene_variant|MODIFIER|E3|GENE_E3|transcript|TRANSCRIPT_E3|protein_coding||c.-1638T>C|||||1638|WARNING_TRANSCRIPT_NO_START_CODON,C|upstream_gene_variant|MODIFIER|E2|GENE_E2|transcript|TRANSCRIPT_E2|protein_coding||c.-1821T>C|||||1821|WARNING_TRANSCRIPT_NO_START_CODON,C|upstream_gene_variant|MODIFIER|6K|GENE_6K|transcript|TRANSCRIPT_6K|protein_coding||c.-3090T>C|||||3090|WARNING_TRANSCRIPT_NO_START_CODON,C|upstream_gene_variant|MODIFIER|E1|GENE_E1|transcript|TRANSCRIPT_E1|protein_coding||c.-3273T>C|||||3273|WARNING_TRANSCRIPT_NO_START_CODON,C|downstream_gene_variant|MODIFIER|NS2|GENE_NS2|transcript|TRANSCRIPT_NS2|protein_coding||c.*2646T>C|||||2646|WARNING_TRANSCRIPT_NO_START_CODON,C|downstream_gene_variant|MODIFIER|NS3|GENE_NS3|transcript|TRANSCRIPT_NS3|protein_coding||c.*1074T>C|||||1074|WARNING_TRANSCRIPT_NO_START_CODON,C|non_coding_transcript_variant|MODIFIER|EDEN.1|null|transcript|EDEN.1|protein_coding||||||||WARNING_TRANSCRIPT_NO_START_CODON","LOW","Synonymous","GT:PL","0/1:183,0,255"]
["KP164568_BHI3734_H804698_2014_08_26_Human_Brazil",6734,".","C",2258,{"$f":"E125*100/J125","v":57.106727364694},"T",1696,{"$f":"H125*100/J125","v":42.893272635306},{"$f":"H125+E125","v":3954},225.009,"PASS","DP=3929;VDB=0.805058;SGB=-0.693147;RPB=0.00163481;MQB=0;MQSB=4.78261e-09;BQB=0.0284836;MQ0F=0.0150165;AF1=0.5;AC1=1;DP4=1101,481,851,288;MQ=35;FQ=225.007;PV4=0.0038221,1,0,0.0392492;ANN=T|synonymous_variant|LOW|NS4|GENE_NS4|transcript|TRANSCRIPT_NS4|protein_coding|1/1|c.1068C>T|p.Ile356Ile|1068/1833|1068/1833|356/610||WARNING_TRANSCRIPT_NO_START_CODON,T|upstream_gene_variant|MODIFIER|capsid|GENE_capsid|transcript|TRANSCRIPT_capsid|protein_coding||c.-834C>T|||||834|WARNING_TRANSCRIPT_NO_STOP_CODON,T|upstream_gene_variant|MODIFIER|E3|GENE_E3|transcript|TRANSCRIPT_E3|protein_coding||c.-1626C>T|||||1626|WARNING_TRANSCRIPT_NO_START_CODON,T|upstream_gene_variant|MODIFIER|E2|GENE_E2|transcript|TRANSCRIPT_E2|protein_coding||c.-1809C>T|||||1809|WARNING_TRANSCRIPT_NO_START_CODON,T|upstream_gene_variant|MODIFIER|6K|GENE_6K|transcript|TRANSCRIPT_6K|protein_coding||c.-3078C>T|||||3078|WARNING_TRANSCRIPT_NO_START_CODON,T|upstream_gene_variant|MODIFIER|E1|GENE_E1|transcript|TRANSCRIPT_E1|protein_coding||c.-3261C>T|||||3261|WARNING_TRANSCRIPT_NO_START_CODON,T|downstream_gene_variant|MODIFIER|NS2|GENE_NS2|transcript|TRANSCRIPT_NS2|protein_coding||c.*2658C>T|||||2658|WARNING_TRANSCRIPT_NO_START_CODON,T|downstream_gene_variant|MODIFIER|NS3|GENE_NS3|transcript|TRANSCRIPT_NS3|protein_coding||c.*1086C>T|||||1086|WARNING_TRANSCRIPT_NO_START_CODON,T|non_coding_transcript_variant|MODIFIER|EDEN.1|null|transcript|EDEN.1|protein_coding||||||||WARNING_TRANSCRIPT_NO_START_CODON","LOW","Synonymous","GT:PL","0/1:255,0,255"]
["KP164568_BHI3734_H804698_2014_08_26_Human_Brazil",6762,".","A",1935,{"$f":"E126*100/J126","v":56.3482818870122},"G",1499,{"$f":"H126*100/J126","v":43.6517181129878},{"$f":"H126+E126","v":3434},181.009,"PASS","DP=3415;VDB=0.372501;SGB=-0.693147;RPB=0.0821693;MQB=0;MQSB=2.0215e-08;BQB=0.222359;MQ0F=0.0158126;AF1=0.5;AC1=1;DP4=846,578,680,381;MQ=34;FQ=184.017;PV4=0.0196432,1,0,1;ANN=G|missense_variant|MODERATE|NS4|GENE_NS4|transcript|TRANSCRIPT_NS4|protein_coding|1/1|c.1096A>G|p.Thr366Ala|1096/1833|1096/1833|366/610||WARNING_TRANSCRIPT_NO_START_CODON,G|upstream_gene_variant|MODIFIER|capsid|GENE_capsid|transcript|TRANSCRIPT_capsid|protein_coding||c.-806A>G|||||806|WARNING_TRANSCRIPT_NO_STOP_CODON,G|upstream_gene_variant|MODIFIER|E3|GENE_E3|transcript|TRANSCRIPT_E3|protein_coding||c.-1598A>G|||||1598|WARNING_TRANSCRIPT_NO_START_CODON,G|upstream_gene_variant|MODIFIER|E2|GENE_E2|transcript|TRANSCRIPT_E2|protein_coding||c.-1781A>G|||||1781|WARNING_TRANSCRIPT_NO_START_CODON,G|upstream_gene_variant|MODIFIER|6K|GENE_6K|transcript|TRANSCRIPT_6K|protein_coding||c.-3050A>G|||||3050|WARNING_TRANSCRIPT_NO_START_CODON,G|upstream_gene_variant|MODIFIER|E1|GENE_E1|transcript|TRANSCRIPT_E1|protein_coding||c.-3233A>G|||||3233|WARNING_TRANSCRIPT_NO_START_CODON,G|downstream_gene_variant|MODIFIER|NS2|GENE_NS2|transcript|TRANSCRIPT_NS2|protein_coding||c.*2686A>G|||||2686|WARNING_TRANSCRIPT_NO_START_CODON,G|downstream_gene_variant|MODIFIER|NS3|GENE_NS3|transcript|TRANSCRIPT_NS3|protein_coding||c.*1114A>G|||||1114|WARNING_TRANSCRIPT_NO_START_CODON,G|non_coding_transcript_variant|MODIFIER|EDEN.1|null|transcript|EDEN.1|protein_coding||||||||WARNING_TRANSCRIPT_NO_START_CODON","MODERATE","Non-synonymous","GT:PL","0/1:211,0,255"]
["KP164568_BHI3734_H804698_2014_08_26_Human_Brazil",6764,".","T",1816,{"$f":"E127*100/J127","v":55.7739557739558},"C",1440,{"$f":"H127*100/J127","v":44.2260442260442},{"$f":"H127+E127","v":3256},199.009,"PASS","DP=3237;VDB=0.0581709;SGB=-0.693147;RPB=0.992407;MQB=0;MQSB=7.04619e-11;BQB=0.144951;MQ0F=0.0148285;AF1=0.5;AC1=1;DP4=723,649,622,424;MQ=34;FQ=202.006;PV4=0.000949966,1,0,1;ANN=C|synonymous_variant|LOW|NS4|GENE_NS4|transcript|TRANSCRIPT_NS4|protein_coding|1/1|c.1098T>C|p.Thr366Thr|1098/1833|1098/1833|366/610||WARNING_TRANSCRIPT_NO_START_CODON,C|upstream_gene_variant|MODIFIER|capsid|GENE_capsid|transcript|TRANSCRIPT_capsid|protein_coding||c.-804T>C|||||804|WARNING_TRANSCRIPT_NO_STOP_CODON,C|upstream_gene_variant|MODIFIER|E3|GENE_E3|transcript|TRANSCRIPT_E3|protein_coding||c.-1596T>C|||||1596|WARNING_TRANSCRIPT_NO_START_CODON,C|upstream_gene_variant|MODIFIER|E2|GENE_E2|transcript|TRANSCRIPT_E2|protein_coding||c.-1779T>C|||||1779|WARNING_TRANSCRIPT_NO_START_CODON,C|upstream_gene_variant|MODIFIER|6K|GENE_6K|transcript|TRANSCRIPT_6K|protein_coding||c.-3048T>C|||||3048|WARNING_TRANSCRIPT_NO_START_CODON,C|upstream_gene_variant|MODIFIER|E1|GENE_E1|transcript|TRANSCRIPT_E1|protein_coding||c.-3231T>C|||||3231|WARNING_TRANSCRIPT_NO_START_CODON,C|downstream_gene_variant|MODIFIER|NS2|GENE_NS2|transcript|TRANSCRIPT_NS2|protein_coding||c.*2688T>C|||||2688|WARNING_TRANSCRIPT_NO_START_CODON,C|downstream_gene_variant|MODIFIER|NS3|GENE_NS3|transcript|TRANSCRIPT_NS3|protein_coding||c.*1116T>C|||||1116|WARNING_TRANSCRIPT_NO_START_CODON,C|non_coding_transcript_variant|MODIFIER|EDEN.1|null|transcript|EDEN.1|protein_coding||||||||WARNING_TRANSCRIPT_NO_START_CODON","LOW","Synonymous","GT:PL","0/1:229,0,255"]
["KP164568_BHI3734_H804698_2014_08_26_Human_Brazil",6794,".","C",827,{"$f":"E128*100/J128","v":44.775311315647},"T",1020,{"$f":"H128*100/J128","v":55.224688684353},{"$f":"H128+E128","v":1847},225.009,"PASS","DP=1834;VDB=0;SGB=-0.693147;RPB=1.50031e-10;MQB=0;MQSB=0.0012781;BQB=0.383993;MQ0F=0.0174482;AF1=0.5;AC1=1;DP4=321,368,339,471;MQ=34;FQ=225.007;PV4=0.0678602,1,0,6.38747e-08;ANN=T|synonymous_variant|LOW|NS4|GENE_NS4|transcript|TRANSCRIPT_NS4|protein_coding|1/1|c.1128C>T|p.Asp376Asp|1128/1833|1128/1833|376/610||WARNING_TRANSCRIPT_NO_START_CODON,T|upstream_gene_variant|MODIFIER|capsid|GENE_capsid|transcript|TRANSCRIPT_capsid|protein_coding||c.-774C>T|||||774|WARNING_TRANSCRIPT_NO_STOP_CODON,T|upstream_gene_variant|MODIFIER|E3|GENE_E3|transcript|TRANSCRIPT_E3|protein_coding||c.-1566C>T|||||1566|WARNING_TRANSCRIPT_NO_START_CODON,T|upstream_gene_variant|MODIFIER|E2|GENE_E2|transcript|TRANSCRIPT_E2|protein_coding||c.-1749C>T|||||1749|WARNING_TRANSCRIPT_NO_START_CODON,T|upstream_gene_variant|MODIFIER|6K|GENE_6K|transcript|TRANSCRIPT_6K|protein_coding||c.-3018C>T|||||3018|WARNING_TRANSCRIPT_NO_START_CODON,T|upstream_gene_variant|MODIFIER|E1|GENE_E1|transcript|TRANSCRIPT_E1|protein_coding||c.-3201C>T|||||3201|WARNING_TRANSCRIPT_NO_START_CODON,T|downstream_gene_variant|MODIFIER|NS2|GENE_NS2|transcript|TRANSCRIPT_NS2|protein_coding||c.*2718C>T|||||2718|WARNING_TRANSCRIPT_NO_START_CODON,T|downstream_gene_variant|MODIFIER|NS3|GENE_NS3|transcript|TRANSCRIPT_NS3|protein_coding||c.*1146C>T|||||1146|WARNING_TRANSCRIPT_NO_START_CODON,T|non_coding_transcript_variant|MODIFIER|EDEN.1|null|transcript|EDEN.1|protein_coding||||||||WARNING_TRANSCRIPT_NO_START_CODON","LOW","Synonymous","GT:PL","0/1:255,0,255"]
["KP164568_BHI3734_H804698_2014_08_26_Human_Brazil",6803,".","A",600,{"$f":"E129*100/J129","v":51.2820512820513},"G",570,{"$f":"H129*100/J129","v":48.7179487179487},{"$f":"H129+E129","v":1170},225.009,"PASS","DP=1166;VDB=1.2212e-40;SGB=-0.693147;RPB=8.91845e-16;MQB=0;MQSB=0.015243;BQB=0.000538637;MQ0F=0.0180103;AF1=0.5;AC1=1;DP4=201,276,164,304;MQ=34;FQ=225.007;PV4=0.0274748,0.145074,0,3.1141e-15;ANN=G|synonymous_variant|LOW|NS4|GENE_NS4|transcript|TRANSCRIPT_NS4|protein_coding|1/1|c.1137A>G|p.Gln379Gln|1137/1833|1137/1833|379/610||WARNING_TRANSCRIPT_NO_START_CODON,G|upstream_gene_variant|MODIFIER|capsid|GENE_capsid|transcript|TRANSCRIPT_capsid|protein_coding||c.-765A>G|||||765|WARNING_TRANSCRIPT_NO_STOP_CODON,G|upstream_gene_variant|MODIFIER|E3|GENE_E3|transcript|TRANSCRIPT_E3|protein_coding||c.-1557A>G|||||1557|WARNING_TRANSCRIPT_NO_START_CODON,G|upstream_gene_variant|MODIFIER|E2|GENE_E2|transcript|TRANSCRIPT_E2|protein_coding||c.-1740A>G|||||1740|WARNING_TRANSCRIPT_NO_START_CODON,G|upstream_gene_variant|MODIFIER|6K|GENE_6K|transcript|TRANSCRIPT_6K|protein_coding||c.-3009A>G|||||3009|WARNING_TRANSCRIPT_NO_START_CODON,G|upstream_gene_variant|MODIFIER|E1|GENE_E1|transcript|TRANSCRIPT_E1|protein_coding||c.-3192A>G|||||3192|WARNING_TRANSCRIPT_NO_START_CODON,G|downstream_gene_variant|MODIFIER|NS2|GENE_NS2|transcript|TRANSCRIPT_NS2|protein_coding||c.*2727A>G|||||2727|WARNING_TRANSCRIPT_NO_START_CODON,G|downstream_gene_variant|MODIFIER|NS3|GENE_NS3|transcript|TRANSCRIPT_NS3|protein_coding||c.*1155A>G|||||1155|WARNING_TRANSCRIPT_NO_START_CODON,G|non_coding_transcript_variant|MODIFIER|EDEN.1|null|transcript|EDEN.1|protein_coding||||||||WARNING_TRANSCRIPT_NO_START_CODON","LOW","Synonymous","GT:PL","0/1:255,0,255"]
["KP164568_BHI3734_H804698_2014_08_26_Human_Brazil",6824,".","T",921,{"$f":"E130*100/J130","v":67.6708302718589},"C",440,{"$f":"H130*100/J130","v":32.3291697281411},{"$f":"H130+E130","v":1361},44.0073,"PASS","DP=1357;VDB=1.69092e-18;SGB=-0.693147;RPB=0.827646;MQB=0;MQSB=0.0106198;BQB=0.600718;MQ0F=0.072955;AF1=0.5;AC1=1;DP4=98,729,80,305;MQ=33;FQ=47.0153;PV4=7.93954e-05,1,0,1;ANN=C|synonymous_variant|LOW|NS4|GENE_NS4|transcript|TRANSCRIPT_NS4|protein_coding|1/1|c.1158T>C|p.Thr386Thr|1158/1833|1158/1833|386/610||WARNING_TRANSCRIPT_NO_START_CODON,C|upstream_gene_variant|MODIFIER|capsid|GENE_capsid|transcript|TRANSCRIPT_capsid|protein_coding||c.-744T>C|||||744|WARNING_TRANSCRIPT_NO_STOP_CODON,C|upstream_gene_variant|MODIFIER|E3|GENE_E3|transcript|TRANSCRIPT_E3|protein_coding||c.-1536T>C|||||1536|WARNING_TRANSCRIPT_NO_START_CODON,C|upstream_gene_variant|MODIFIER|E2|GENE_E2|transcript|TRANSCRIPT_E2|protein_coding||c.-1719T>C|||||1719|WARNING_TRANSCRIPT_NO_START_CODON,C|upstream_gene_variant|MODIFIER|6K|GENE_6K|transcript|TRANSCRIPT_6K|protein_coding||c.-2988T>C|||||2988|WARNING_TRANSCRIPT_NO_START_CODON,C|upstream_gene_variant|MODIFIER|E1|GENE_E1|transcript|TRANSCRIPT_E1|protein_coding||c.-3171T>C|||||3171|WARNING_TRANSCRIPT_NO_START_CODON,C|downstream_gene_variant|MODIFIER|NS2|GENE_NS2|transcript|TRANSCRIPT_NS2|protein_coding||c.*2748T>C|||||2748|WARNING_TRANSCRIPT_NO_START_CODON,C|downstream_gene_variant|MODIFIER|NS3|GENE_NS3|transcript|TRANSCRIPT_NS3|protein_coding||c.*1176T>C|||||1176|WARNING_TRANSCRIPT_NO_START_CODON,C|non_coding_transcript_variant|MODIFIER|EDEN.1|null|transcript|EDEN.1|protein_coding||||||||WARNING_TRANSCRIPT_NO_START_CODON","LOW","Synonymous","GT:PL","0/1:74,0,255"]
["KP164568_BHI3734_H804698_2014_08_26_Human_Brazil",6830,".","G",968,{"$f":"E131*100/J131","v":60.9571788413098},"A",620,{"$f":"H131*100/J131","v":39.0428211586902},{"$f":"H131+E131","v":1588},87.0076,"PASS","DP=1582;VDB=2.46738e-30;SGB=-0.693147;RPB=1.11635e-08;MQB=0;MQSB=2.73109e-05;BQB=0.0529124;MQ0F=0.0676359;AF1=0.5;AC1=1;DP4=124,714,153,342;MQ=33;FQ=90.0158;PV4=7.57858e-12,1,0,0.089093;ANN=A|synonymous_variant|LOW|NS4|GENE_NS4|transcript|TRANSCRIPT_NS4|protein_coding|1/1|c.1164G>A|p.Leu388Leu|1164/1833|1164/1833|388/610||WARNING_TRANSCRIPT_NO_START_CODON,A|upstream_gene_variant|MODIFIER|capsid|GENE_capsid|transcript|TRANSCRIPT_capsid|protein_coding||c.-738G>A|||||738|WARNING_TRANSCRIPT_NO_STOP_CODON,A|upstream_gene_variant|MODIFIER|E3|GENE_E3|transcript|TRANSCRIPT_E3|protein_coding||c.-1530G>A|||||1530|WARNING_TRANSCRIPT_NO_START_CODON,A|upstream_gene_variant|MODIFIER|E2|GENE_E2|transcript|TRANSCRIPT_E2|protein_coding||c.-1713G>A|||||1713|WARNING_TRANSCRIPT_NO_START_CODON,A|upstream_gene_variant|MODIFIER|6K|GENE_6K|transcript|TRANSCRIPT_6K|protein_coding||c.-2982G>A|||||2982|WARNING_TRANSCRIPT_NO_START_CODON,A|upstream_gene_variant|MODIFIER|E1|GENE_E1|transcript|TRANSCRIPT_E1|protein_coding||c.-3165G>A|||||3165|WARNING_TRANSCRIPT_NO_START_CODON,A|downstream_gene_variant|MODIFIER|NS2|GENE_NS2|transcript|TRANSCRIPT_NS2|protein_coding||c.*2754G>A|||||2754|WARNING_TRANSCRIPT_NO_START_CODON,A|downstream_gene_variant|MODIFIER|NS3|GENE_NS3|transcript|TRANSCRIPT_NS3|protein_coding||c.*1182G>A|||||1182|WARNING_TRANSCRIPT_NO_START_CODON,A|non_coding_transcript_variant|MODIFIER|EDEN.1|null|transcript|EDEN.1|protein_coding||||||||WARNING_TRANSCRIPT_NO_START_CODON","LOW","Synonymous","GT:PL","0/1:117,0,255"]
["KP164568_BHI3734_H804698_2014_08_26_Human_Brazil",6834,".","T",997,{"$f":"E132*100/J132","v":60.1326899879373},"C",661,{"$f":"H132*100/J132","v":39.8673100120627},{"$f":"H132+E132","v":1658},144.008,"PASS","DP=1655;VDB=1.3296e-31;SGB=-0.693147;RPB=5.20477e-11;MQB=0;MQSB=0.000118962;BQB=0.00360653;MQ0F=0.0670695;AF1=0.5;AC1=1;DP4=121,748,156,376;MQ=33;FQ=147.017;PV4=4.92628e-12,1,0,0.0864218;ANN=C|synonymous_variant|LOW|NS4|GENE_NS4|transcript|TRANSCRIPT_NS4|protein_coding|1/1|c.1168T>C|p.Leu390Leu|1168/1833|1168/1833|390/610||WARNING_TRANSCRIPT_NO_START_CODON,C|upstream_gene_variant|MODIFIER|capsid|GENE_capsid|transcript|TRANSCRIPT_capsid|protein_coding||c.-734T>C|||||734|WARNING_TRANSCRIPT_NO_STOP_CODON,C|upstream_gene_variant|MODIFIER|E3|GENE_E3|transcript|TRANSCRIPT_E3|protein_coding||c.-1526T>C|||||1526|WARNING_TRANSCRIPT_NO_START_CODON,C|upstream_gene_variant|MODIFIER|E2|GENE_E2|transcript|TRANSCRIPT_E2|protein_coding||c.-1709T>C|||||1709|WARNING_TRANSCRIPT_NO_START_CODON,C|upstream_gene_variant|MODIFIER|6K|GENE_6K|transcript|TRANSCRIPT_6K|protein_coding||c.-2978T>C|||||2978|WARNING_TRANSCRIPT_NO_START_CODON,C|upstream_gene_variant|MODIFIER|E1|GENE_E1|transcript|TRANSCRIPT_E1|protein_coding||c.-3161T>C|||||3161|WARNING_TRANSCRIPT_NO_START_CODON,C|downstream_gene_variant|MODIFIER|NS2|GENE_NS2|transcript|TRANSCRIPT_NS2|protein_coding||c.*2758T>C|||||2758|WARNING_TRANSCRIPT_NO_START_CODON,C|downstream_gene_variant|MODIFIER|NS3|GENE_NS3|transcript|TRANSCRIPT_NS3|protein_coding||c.*1186T>C|||||1186|WARNING_TRANSCRIPT_NO_START_CODON,C|non_coding_transcript_variant|MODIFIER|EDEN.1|null|transcript|EDEN.1|protein_coding||||||||WARNING_TRANSCRIPT_NO_START_CODON","LOW","Synonymous","GT:PL","0/1:174,0,255"]
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["KP164568_BHI3734_H804698_2014_08_26_Human_Brazil",7879,".","G",3,{"$f":"E140*100/J140","v":0.892857142857143},"A",333,{"$f":"H140*100/J140","v":99.1071428571429},{"$f":"H140+E140","v":336},221.999,"PASS","DP=331;VDB=0;SGB=-0.693147;RPB=0.16588;MQB=0.994551;MQSB=0.421724;BQB=0.971512;MQ0F=0;AF1=1;AC1=2;DP4=0,3,42,243;MQ=42;FQ=-281.989;PV4=1,1,0.412681,0.00274099;ANN=A|synonymous_variant|LOW|capsid|GENE_capsid|transcript|TRANSCRIPT_capsid|protein_coding|1/1|c.312G>A|p.Arg104Arg|312/792|312/792|104/263||WARNING_TRANSCRIPT_NO_STOP_CODON,A|upstream_gene_variant|MODIFIER|E3|GENE_E3|transcript|TRANSCRIPT_E3|protein_coding||c.-481G>A|||||481|WARNING_TRANSCRIPT_NO_START_CODON,A|upstream_gene_variant|MODIFIER|E2|GENE_E2|transcript|TRANSCRIPT_E2|protein_coding||c.-664G>A|||||664|WARNING_TRANSCRIPT_NO_START_CODON,A|upstream_gene_variant|MODIFIER|6K|GENE_6K|transcript|TRANSCRIPT_6K|protein_coding||c.-1933G>A|||||1933|WARNING_TRANSCRIPT_NO_START_CODON,A|upstream_gene_variant|MODIFIER|E1|GENE_E1|transcript|TRANSCRIPT_E1|protein_coding||c.-2116G>A|||||2116|WARNING_TRANSCRIPT_NO_START_CODON,A|downstream_gene_variant|MODIFIER|NS2|GENE_NS2|transcript|TRANSCRIPT_NS2|protein_coding||c.*3803G>A|||||3803|WARNING_TRANSCRIPT_NO_START_CODON,A|downstream_gene_variant|MODIFIER|NS3|GENE_NS3|transcript|TRANSCRIPT_NS3|protein_coding||c.*2231G>A|||||2231|WARNING_TRANSCRIPT_NO_START_CODON,A|downstream_gene_variant|MODIFIER|NS4|GENE_NS4|transcript|TRANSCRIPT_NS4|protein_coding||c.*380G>A|||||380|WARNING_TRANSCRIPT_NO_START_CODON,A|non_coding_transcript_variant|MODIFIER|EDEN.1|null|transcript|EDEN.1|protein_coding||||||||WARNING_TRANSCRIPT_NO_START_CODON","LOW","Synonymous","GT:PL","1/1:255,255,0"]
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["KP164568_BHI3734_H804698_2014_08_26_Human_Brazil",8521,".","T",6,{"$f":"E142*100/J142","v":0.232558139534884},"C",2574,{"$f":"H142*100/J142","v":99.7674418604651},{"$f":"H142+E142","v":2580},221.999,"PASS","DP=2557;VDB=0.838952;SGB=-0.693147;RPB=0.266299;MQB=0.963472;MQSB=0.000217963;BQB=0.0301328;MQ0F=0;AF1=1;AC1=2;DP4=3,3,1112,984;MQ=42;FQ=-281.989;PV4=1,1,0.35916,1;ANN=C|synonymous_variant|LOW|E3|GENE_E3|transcript|TRANSCRIPT_E3|protein_coding|1/1|c.162T>C|p.Cys54Cys|162/183|162/183|54/60||WARNING_TRANSCRIPT_NO_START_CODON,C|upstream_gene_variant|MODIFIER|E2|GENE_E2|transcript|TRANSCRIPT_E2|protein_coding||c.-22T>C|||||22|WARNING_TRANSCRIPT_NO_START_CODON,C|upstream_gene_variant|MODIFIER|6K|GENE_6K|transcript|TRANSCRIPT_6K|protein_coding||c.-1291T>C|||||1291|WARNING_TRANSCRIPT_NO_START_CODON,C|upstream_gene_variant|MODIFIER|E1|GENE_E1|transcript|TRANSCRIPT_E1|protein_coding||c.-1474T>C|||||1474|WARNING_TRANSCRIPT_NO_START_CODON,C|downstream_gene_variant|MODIFIER|NS2|GENE_NS2|transcript|TRANSCRIPT_NS2|protein_coding||c.*4445T>C|||||4445|WARNING_TRANSCRIPT_NO_START_CODON,C|downstream_gene_variant|MODIFIER|NS3|GENE_NS3|transcript|TRANSCRIPT_NS3|protein_coding||c.*2873T>C|||||2873|WARNING_TRANSCRIPT_NO_START_CODON,C|downstream_gene_variant|MODIFIER|NS4|GENE_NS4|transcript|TRANSCRIPT_NS4|protein_coding||c.*1022T>C|||||1022|WARNING_TRANSCRIPT_NO_START_CODON,C|downstream_gene_variant|MODIFIER|capsid|GENE_capsid|transcript|TRANSCRIPT_capsid|protein_coding||c.*162T>C|||||162|WARNING_TRANSCRIPT_NO_STOP_CODON,C|non_coding_transcript_variant|MODIFIER|EDEN.1|null|transcript|EDEN.1|protein_coding||||||||WARNING_TRANSCRIPT_NO_START_CODON","LOW","Synonymous","GT:PL","1/1:255,255,0"]

{"sheet":"7P7","index":6,"n_rows":10,"n_cols":17,"rows_kept":10,"cut":false,"hidden":false,"merged":[]}
["#CHROM","POS","ID","REF","Nº reads","BHI3734 reads support","ALT","Nº reads","PER160 reas support","Total reads","QUAL","FILTER","INFO","Impact","Nucleotide change","FORMAT","BHI3734_7P7.sorted.dupli.removed.bam"]
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{"sheet":"315P290","index":7,"n_rows":46,"n_cols":17,"rows_kept":46,"cut":false,"hidden":false,"merged":[]}
["#CHROM","POS","ID","REF","Nº reads","BHI3734 reads support","ALT","Nº reads","PER160 reas support","Total reads","QUAL","FILTER","INFO","Impact","Nucleotide change","FORMAT","BHI3734_315P290.sorted.dupli.removed.bam"]
["KP164568_BHI3734_H804698_2014_08_26_Human_Brazil",482,".","G",1578,{"$f":"E2*100/J2","v":82.6178010471204},"A",332,{"$f":"H2*100/J2","v":17.3821989528796},{"$f":"H2+E2","v":1910},69.0074,"PASS","DP=1904;VDB=3.14174e-08;SGB=-0.693147;RPB=0.692112;MQB=0;MQSB=0.0102112;BQB=0.0160552;MQ0F=0.00315126;AF1=0.5;AC1=1;DP4=701,487,173,90;MQ=40;FQ=72.0156;PV4=0.0436453,0.0178127,0,0.0940639;ANN=A|synonymous_variant|LOW|NS1|GENE_NS1|transcript|TRANSCRIPT_NS1|protein_coding|1/1|c.405G>A|p.Leu135Leu|405/1605|405/1605|135/534||WARNING_TRANSCRIPT_NO_STOP_CODON,A|upstream_gene_variant|MODIFIER|NS2|GENE_NS2|transcript|TRANSCRIPT_NS2|protein_coding||c.-1201G>A|||||1201|WARNING_TRANSCRIPT_NO_START_CODON,A|upstream_gene_variant|MODIFIER|NS3|GENE_NS3|transcript|TRANSCRIPT_NS3|protein_coding||c.-3595G>A|||||3595|WARNING_TRANSCRIPT_NO_START_CODON,A|non_coding_transcript_variant|MODIFIER|EDEN.1|null|transcript|EDEN.1|protein_coding||||||||WARNING_TRANSCRIPT_NO_START_CODON","LOW","Synonymous","GT:PL","0/1:99,0,255"]
["KP164568_BHI3734_H804698_2014_08_26_Human_Brazil",2802,".","T",232,{"$f":"E3*100/J3","v":56.7237163814181},"C",177,{"$f":"H3*100/J3","v":43.2762836185819},{"$f":"H3+E3","v":409},185.009,"PASS","DP=405;VDB=1.12901e-21;SGB=-0.693147;RPB=8.57123e-06;MQB=2.62346e-08;MQSB=0.802852;BQB=0.987899;MQ0F=0.00987654;AF1=0.5;AC1=1;DP4=189,3,144,0;MQ=40;FQ=188.017;PV4=0.263113,1,7.20504e-06,1.72862e-07;ANN=C|missense_variant|MODERATE|NS2|GENE_NS2|transcript|TRANSCRIPT_NS2|protein_coding|1/1|c.1120T>C|p.Tyr374His|1120/2394|1120/2394|374/797||WARNING_TRANSCRIPT_NO_START_CODON,C|upstream_gene_variant|MODIFIER|NS3|GENE_NS3|transcript|TRANSCRIPT_NS3|protein_coding||c.-1275T>C|||||1275|WARNING_TRANSCRIPT_NO_START_CODON,C|upstream_gene_variant|MODIFIER|NS4|GENE_NS4|transcript|TRANSCRIPT_NS4|protein_coding||c.-2865T>C|||||2865|WARNING_TRANSCRIPT_NO_START_CODON,C|upstream_gene_variant|MODIFIER|capsid|GENE_capsid|transcript|TRANSCRIPT_capsid|protein_coding||c.-4766T>C|||||4766|WARNING_TRANSCRIPT_NO_STOP_CODON,C|downstream_gene_variant|MODIFIER|NS1|GENE_NS1|transcript|TRANSCRIPT_NS1|protein_coding||c.*1120T>C|||||1120|WARNING_TRANSCRIPT_NO_STOP_CODON,C|non_coding_transcript_variant|MODIFIER|EDEN.1|null|transcript|EDEN.1|protein_coding||||||||WARNING_TRANSCRIPT_NO_START_CODON","MODERATE","Non-synonymous","GT:PL","0/1:215,0,255"]
["KP164568_BHI3734_H804698_2014_08_26_Human_Brazil",2855,".","T",547,{"$f":"E4*100/J4","v":75.5524861878453},"C",177,{"$f":"H4*100/J4","v":24.4475138121547},{"$f":"H4+E4","v":724},138.008,"PASS","DP=724;VDB=1;SGB=-0.693147;RPB=3.30798e-06;MQB=4.23149e-33;MQSB=0.721399;BQB=0.760254;MQ0F=0;AF1=0.5;AC1=1;DP4=402,19,124,9;MQ=39;FQ=141.016;PV4=0.362172,1,0,6.3465e-09;ANN=C|synonymous_variant|LOW|NS2|GENE_NS2|transcript|TRANSCRIPT_NS2|protein_coding|1/1|c.1173T>C|p.Tyr391Tyr|1173/2394|1173/2394|391/797||WARNING_TRANSCRIPT_NO_START_CODON,C|upstream_gene_variant|MODIFIER|NS3|GENE_NS3|transcript|TRANSCRIPT_NS3|protein_coding||c.-1222T>C|||||1222|WARNING_TRANSCRIPT_NO_START_CODON,C|upstream_gene_variant|MODIFIER|NS4|GENE_NS4|transcript|TRANSCRIPT_NS4|protein_coding||c.-2812T>C|||||2812|WARNING_TRANSCRIPT_NO_START_CODON,C|upstream_gene_variant|MODIFIER|capsid|GENE_capsid|transcript|TRANSCRIPT_capsid|protein_coding||c.-4713T>C|||||4713|WARNING_TRANSCRIPT_NO_STOP_CODON,C|downstream_gene_variant|MODIFIER|NS1|GENE_NS1|transcript|TRANSCRIPT_NS1|protein_coding||c.*1173T>C|||||1173|WARNING_TRANSCRIPT_NO_STOP_CODON,C|non_coding_transcript_variant|MODIFIER|EDEN.1|null|transcript|EDEN.1|protein_coding||||||||WARNING_TRANSCRIPT_NO_START_CODON","LOW","Synonymous","GT:PL","0/1:168,0,255"]
["KP164568_BHI3734_H804698_2014_08_26_Human_Brazil",2856,null,"G",560,{"$f":"E5*100/J5","v":78.7623066104079},"T",151,{"$f":"H5*100/J5","v":21.2376933895921},{"$f":"H5+E5","v":711},null,null,"Ala -> Ser","MODERATE","Non-synonymous"]
["KP164568_BHI3734_H804698_2014_08_26_Human_Brazil",2876,null,"T",472,{"$f":"E6*100/J6","v":77.3770491803279},"C",138,{"$f":"H6*100/J6","v":22.6229508196721},{"$f":"H6+E6","v":610},null,null,null,"LOW","Synonymous"]
["KP164568_BHI3734_H804698_2014_08_26_Human_Brazil",2885,".","G",510,{"$f":"E7*100/J7","v":78.7037037037037},"A",138,{"$f":"H7*100/J7","v":21.2962962962963},{"$f":"H7+E7","v":648},85.0076,"PASS","DP=693;VDB=0.0438407;SGB=-0.693147;RPB=5.02034e-06;MQB=1.79422e-41;MQSB=0.0150294;BQB=0.0605488;MQ0F=0;AF1=0.5;AC1=1;DP4=306,87,134,24;MQ=38;FQ=88.0158;PV4=0.0778613,0.000999807,0,0.147853;ANN=A|synonymous_variant|LOW|NS2|GENE_NS2|transcript|TRANSCRIPT_NS2|protein_coding|1/1|c.1203G>A|p.Pro401Pro|1203/2394|1203/2394|401/797||WARNING_TRANSCRIPT_NO_START_CODON,A|upstream_gene_variant|MODIFIER|NS3|GENE_NS3|transcript|TRANSCRIPT_NS3|protein_coding||c.-1192G>A|||||1192|WARNING_TRANSCRIPT_NO_START_CODON,A|upstream_gene_variant|MODIFIER|NS4|GENE_NS4|transcript|TRANSCRIPT_NS4|protein_coding||c.-2782G>A|||||2782|WARNING_TRANSCRIPT_NO_START_CODON,A|upstream_gene_variant|MODIFIER|capsid|GENE_capsid|transcript|TRANSCRIPT_capsid|protein_coding||c.-4683G>A|||||4683|WARNING_TRANSCRIPT_NO_STOP_CODON,A|downstream_gene_variant|MODIFIER|NS1|GENE_NS1|transcript|TRANSCRIPT_NS1|protein_coding||c.*1203G>A|||||1203|WARNING_TRANSCRIPT_NO_STOP_CODON,A|non_coding_transcript_variant|MODIFIER|EDEN.1|null|transcript|EDEN.1|protein_coding||||||||WARNING_TRANSCRIPT_NO_START_CODON","LOW","Synonymous","GT:PL","0/1:115,0,255"]
["KP164568_BHI3734_H804698_2014_08_26_Human_Brazil",2900,".","G",625,{"$f":"E8*100/J8","v":65.9282700421941},"A",323,{"$f":"H8*100/J8","v":34.0717299578059},{"$f":"H8+E8","v":948},194.009,"PASS","DP=943;VDB=0.391244;SGB=-0.693147;RPB=2.53068e-16;MQB=1.4013e-45;MQSB=0.0201776;BQB=0.605508;MQ0F=0;AF1=0.5;AC1=1;DP4=332,140,203,36;MQ=39;FQ=197.014;PV4=1.42913e-05,1,0,0.143865;ANN=A|synonymous_variant|LOW|NS2|GENE_NS2|transcript|TRANSCRIPT_NS2|protein_coding|1/1|c.1218G>A|p.Thr406Thr|1218/2394|1218/2394|406/797||WARNING_TRANSCRIPT_NO_START_CODON,A|upstream_gene_variant|MODIFIER|NS3|GENE_NS3|transcript|TRANSCRIPT_NS3|protein_coding||c.-1177G>A|||||1177|WARNING_TRANSCRIPT_NO_START_CODON,A|upstream_gene_variant|MODIFIER|NS4|GENE_NS4|transcript|TRANSCRIPT_NS4|protein_coding||c.-2767G>A|||||2767|WARNING_TRANSCRIPT_NO_START_CODON,A|upstream_gene_variant|MODIFIER|capsid|GENE_capsid|transcript|TRANSCRIPT_capsid|protein_coding||c.-4668G>A|||||4668|WARNING_TRANSCRIPT_NO_STOP_CODON,A|downstream_gene_variant|MODIFIER|NS1|GENE_NS1|transcript|TRANSCRIPT_NS1|protein_coding||c.*1218G>A|||||1218|WARNING_TRANSCRIPT_NO_STOP_CODON,A|non_coding_transcript_variant|MODIFIER|EDEN.1|null|transcript|EDEN.1|protein_coding||||||||WARNING_TRANSCRIPT_NO_START_CODON","LOW","Synonymous","GT:PL","0/1:224,0,255"]
["KP164568_BHI3734_H804698_2014_08_26_Human_Brazil",2927,".","A",685,{"$f":"E9*100/J9","v":70.4008221993834},"G",288,{"$f":"H9*100/J9","v":29.5991778006166},{"$f":"H9+E9","v":973},191.009,"PASS","DP=966;VDB=0.00013168;SGB=-0.693147;RPB=0.102418;MQB=0;MQSB=0.000861349;BQB=0.943497;MQ0F=0;AF1=0.5;AC1=1;DP4=338,182,165,55;MQ=38;FQ=194.015;PV4=0.00761035,1,0,1;ANN=G|synonymous_variant|LOW|NS2|GENE_NS2|transcript|TRANSCRIPT_NS2|protein_coding|1/1|c.1245A>G|p.Thr415Thr|1245/2394|1245/2394|415/797||WARNING_TRANSCRIPT_NO_START_CODON,G|upstream_gene_variant|MODIFIER|NS3|GENE_NS3|transcript|TRANSCRIPT_NS3|protein_coding||c.-1150A>G|||||1150|WARNING_TRANSCRIPT_NO_START_CODON,G|upstream_gene_variant|MODIFIER|NS4|GENE_NS4|transcript|TRANSCRIPT_NS4|protein_coding||c.-2740A>G|||||2740|WARNING_TRANSCRIPT_NO_START_CODON,G|upstream_gene_variant|MODIFIER|capsid|GENE_capsid|transcript|TRANSCRIPT_capsid|protein_coding||c.-4641A>G|||||4641|WARNING_TRANSCRIPT_NO_STOP_CODON,G|downstream_gene_variant|MODIFIER|NS1|GENE_NS1|transcript|TRANSCRIPT_NS1|protein_coding||c.*1245A>G|||||1245|WARNING_TRANSCRIPT_NO_STOP_CODON,G|non_coding_transcript_variant|MODIFIER|EDEN.1|null|transcript|EDEN.1|protein_coding||||||||WARNING_TRANSCRIPT_NO_START_CODON","LOW","Synonymous","GT:PL","0/1:221,0,255"]
["KP164568_BHI3734_H804698_2014_08_26_Human_Brazil",2960,".","T",729,{"$f":"E10*100/J10","v":66.4539653600729},"C",368,{"$f":"H10*100/J10","v":33.5460346399271},{"$f":"H10+E10","v":1097},225.009,"PASS","DP=1088;VDB=1;SGB=-0.693147;RPB=0.9686;MQB=0;MQSB=0.528831;BQB=0.336976;MQ0F=0;AF1=0.5;AC1=1;DP4=355,183,171,116;MQ=38;FQ=225.007;PV4=0.0802267,0.0520034,0,0.000424549;ANN=C|synonymous_variant|LOW|NS2|GENE_NS2|transcript|TRANSCRIPT_NS2|protein_coding|1/1|c.1278T>C|p.Leu426Leu|1278/2394|1278/2394|426/797||WARNING_TRANSCRIPT_NO_START_CODON,C|upstream_gene_variant|MODIFIER|NS3|GENE_NS3|transcript|TRANSCRIPT_NS3|protein_coding||c.-1117T>C|||||1117|WARNING_TRANSCRIPT_NO_START_CODON,C|upstream_gene_variant|MODIFIER|NS4|GENE_NS4|transcript|TRANSCRIPT_NS4|protein_coding||c.-2707T>C|||||2707|WARNING_TRANSCRIPT_NO_START_CODON,C|upstream_gene_variant|MODIFIER|capsid|GENE_capsid|transcript|TRANSCRIPT_capsid|protein_coding||c.-4608T>C|||||4608|WARNING_TRANSCRIPT_NO_STOP_CODON,C|downstream_gene_variant|MODIFIER|NS1|GENE_NS1|transcript|TRANSCRIPT_NS1|protein_coding||c.*1278T>C|||||1278|WARNING_TRANSCRIPT_NO_STOP_CODON,C|non_coding_transcript_variant|MODIFIER|EDEN.1|null|transcript|EDEN.1|protein_coding||||||||WARNING_TRANSCRIPT_NO_START_CODON","LOW","Synonymous","GT:PL","0/1:255,0,255"]
["KP164568_BHI3734_H804698_2014_08_26_Human_Brazil",2963,".","C",723,{"$f":"E11*100/J11","v":65.8469945355191},"T",375,{"$f":"H11*100/J11","v":34.1530054644809},{"$f":"H11+E11","v":1098},222.009,"PASS","DP=1089;VDB=1;SGB=-0.693147;RPB=0.55821;MQB=0;MQSB=0.190112;BQB=0.0447171;MQ0F=0;AF1=0.5;AC1=1;DP4=336,207,170,119;MQ=38;FQ=223.253;PV4=0.412255,0.103888,0,3.19387e-05;ANN=T|synonymous_variant|LOW|NS2|GENE_NS2|transcript|TRANSCRIPT_NS2|protein_coding|1/1|c.1281C>T|p.Ser427Ser|1281/2394|1281/2394|427/797||WARNING_TRANSCRIPT_NO_START_CODON,T|upstream_gene_variant|MODIFIER|NS3|GENE_NS3|transcript|TRANSCRIPT_NS3|protein_coding||c.-1114C>T|||||1114|WARNING_TRANSCRIPT_NO_START_CODON,T|upstream_gene_variant|MODIFIER|NS4|GENE_NS4|transcript|TRANSCRIPT_NS4|protein_coding||c.-2704C>T|||||2704|WARNING_TRANSCRIPT_NO_START_CODON,T|upstream_gene_variant|MODIFIER|capsid|GENE_capsid|transcript|TRANSCRIPT_capsid|protein_coding||c.-4605C>T|||||4605|WARNING_TRANSCRIPT_NO_STOP_CODON,T|downstream_gene_variant|MODIFIER|NS1|GENE_NS1|transcript|TRANSCRIPT_NS1|protein_coding||c.*1281C>T|||||1281|WARNING_TRANSCRIPT_NO_STOP_CODON,T|non_coding_transcript_variant|MODIFIER|EDEN.1|null|transcript|EDEN.1|protein_coding||||||||WARNING_TRANSCRIPT_NO_START_CODON","LOW","Synonymous","GT:PL","0/1:252,0,255"]
["KP164568_BHI3734_H804698_2014_08_26_Human_Brazil",3014,".","A",320,{"$f":"E12*100/J12","v":61.1854684512428},"G",203,{"$f":"H12*100/J12","v":38.8145315487572},{"$f":"H12+E12","v":523},225.009,"PASS","DP=518;VDB=0;SGB=-0.693147;RPB=0.51485;MQB=6.47318e-33;MQSB=0.267253;BQB=0.441151;MQ0F=0;AF1=0.5;AC1=1;DP4=148,121,85,79;MQ=38;FQ=225.007;PV4=0.551594,1,0,0.1893;ANN=G|synonymous_variant|LOW|NS2|GENE_NS2|transcript|TRANSCRIPT_NS2|protein_coding|1/1|c.1332A>G|p.Lys444Lys|1332/2394|1332/2394|444/797||WARNING_TRANSCRIPT_NO_START_CODON,G|upstream_gene_variant|MODIFIER|NS3|GENE_NS3|transcript|TRANSCRIPT_NS3|protein_coding||c.-1063A>G|||||1063|WARNING_TRANSCRIPT_NO_START_CODON,G|upstream_gene_variant|MODIFIER|NS4|GENE_NS4|transcript|TRANSCRIPT_NS4|protein_coding||c.-2653A>G|||||2653|WARNING_TRANSCRIPT_NO_START_CODON,G|upstream_gene_variant|MODIFIER|capsid|GENE_capsid|transcript|TRANSCRIPT_capsid|protein_coding||c.-4554A>G|||||4554|WARNING_TRANSCRIPT_NO_STOP_CODON,G|downstream_gene_variant|MODIFIER|NS1|GENE_NS1|transcript|TRANSCRIPT_NS1|protein_coding||c.*1332A>G|||||1332|WARNING_TRANSCRIPT_NO_STOP_CODON,G|non_coding_transcript_variant|MODIFIER|EDEN.1|null|transcript|EDEN.1|protein_coding||||||||WARNING_TRANSCRIPT_NO_START_CODON","LOW","Synonymous","GT:PL","0/1:255,0,255"]
["KP164568_BHI3734_H804698_2014_08_26_Human_Brazil",3023,".","C",213,{"$f":"E13*100/J13","v":55.1813471502591},"T",173,{"$f":"H13*100/J13","v":44.8186528497409},{"$f":"H13+E13","v":386},225.009,"PASS","DP=383;VDB=0;SGB=-0.693147;RPB=3.10385e-05;MQB=4.35084e-17;MQSB=0.00865338;BQB=0.200999;MQ0F=0.00261097;AF1=0.5;AC1=1;DP4=81,97,66,74;MQ=37;FQ=225.007;PV4=0.821007,0.458422,8.17112e-21,1.82926e-06;ANN=T|synonymous_variant|LOW|NS2|GENE_NS2|transcript|TRANSCRIPT_NS2|protein_coding|1/1|c.1341C>T|p.Ile447Ile|1341/2394|1341/2394|447/797||WARNING_TRANSCRIPT_NO_START_CODON,T|upstream_gene_variant|MODIFIER|NS3|GENE_NS3|transcript|TRANSCRIPT_NS3|protein_coding||c.-1054C>T|||||1054|WARNING_TRANSCRIPT_NO_START_CODON,T|upstream_gene_variant|MODIFIER|NS4|GENE_NS4|transcript|TRANSCRIPT_NS4|protein_coding||c.-2644C>T|||||2644|WARNING_TRANSCRIPT_NO_START_CODON,T|upstream_gene_variant|MODIFIER|capsid|GENE_capsid|transcript|TRANSCRIPT_capsid|protein_coding||c.-4545C>T|||||4545|WARNING_TRANSCRIPT_NO_STOP_CODON,T|downstream_gene_variant|MODIFIER|NS1|GENE_NS1|transcript|TRANSCRIPT_NS1|protein_coding||c.*1341C>T|||||1341|WARNING_TRANSCRIPT_NO_STOP_CODON,T|non_coding_transcript_variant|MODIFIER|EDEN.1|null|transcript|EDEN.1|protein_coding||||||||WARNING_TRANSCRIPT_NO_START_CODON","LOW","Synonymous","GT:PL","0/1:255,0,255"]
["KP164568_BHI3734_H804698_2014_08_26_Human_Brazil",3044,".","T",283,{"$f":"E14*100/J14","v":64.172335600907},"C",158,{"$f":"H14*100/J14","v":35.827664399093},{"$f":"H14+E14","v":441},179.009,"PASS","DP=440;VDB=6.17633e-24;SGB=-0.693147;RPB=0.960908;MQB=8.40779e-45;MQSB=0.554411;BQB=0.929126;MQ0F=0.00227273;AF1=0.5;AC1=1;DP4=43,215,31,103;MQ=38;FQ=182.017;PV4=0.135025,1,0,0.319951;ANN=C|synonymous_variant|LOW|NS2|GENE_NS2|transcript|TRANSCRIPT_NS2|protein_coding|1/1|c.1362T>C|p.His454His|1362/2394|1362/2394|454/797||WARNING_TRANSCRIPT_NO_START_CODON,C|upstream_gene_variant|MODIFIER|NS3|GENE_NS3|transcript|TRANSCRIPT_NS3|protein_coding||c.-1033T>C|||||1033|WARNING_TRANSCRIPT_NO_START_CODON,C|upstream_gene_variant|MODIFIER|NS4|GENE_NS4|transcript|TRANSCRIPT_NS4|protein_coding||c.-2623T>C|||||2623|WARNING_TRANSCRIPT_NO_START_CODON,C|upstream_gene_variant|MODIFIER|capsid|GENE_capsid|transcript|TRANSCRIPT_capsid|protein_coding||c.-4524T>C|||||4524|WARNING_TRANSCRIPT_NO_STOP_CODON,C|downstream_gene_variant|MODIFIER|NS1|GENE_NS1|transcript|TRANSCRIPT_NS1|protein_coding||c.*1362T>C|||||1362|WARNING_TRANSCRIPT_NO_STOP_CODON,C|non_coding_transcript_variant|MODIFIER|EDEN.1|null|transcript|EDEN.1|protein_coding||||||||WARNING_TRANSCRIPT_NO_START_CODON","LOW","Synonymous","GT:PL","0/1:209,0,255"]
["KP164568_BHI3734_H804698_2014_08_26_Human_Brazil",3050,".","A",353,{"$f":"E15*100/J15","v":64.4160583941606},"G",195,{"$f":"H15*100/J15","v":35.5839416058394},{"$f":"H15+E15","v":548},225.009,"PASS","DP=547;VDB=1.16908e-33;SGB=-0.693147;RPB=0.846816;MQB=0;MQSB=0.504326;BQB=0.401223;MQ0F=0.00365631;AF1=0.5;AC1=1;DP4=76,230,39,121;MQ=37;FQ=225.007;PV4=1,1,0,0.0688946;ANN=G|synonymous_variant|LOW|NS2|GENE_NS2|transcript|TRANSCRIPT_NS2|protein_coding|1/1|c.1368A>G|p.Ser456Ser|1368/2394|1368/2394|456/797||WARNING_TRANSCRIPT_NO_START_CODON,G|upstream_gene_variant|MODIFIER|NS3|GENE_NS3|transcript|TRANSCRIPT_NS3|protein_coding||c.-1027A>G|||||1027|WARNING_TRANSCRIPT_NO_START_CODON,G|upstream_gene_variant|MODIFIER|NS4|GENE_NS4|transcript|TRANSCRIPT_NS4|protein_coding||c.-2617A>G|||||2617|WARNING_TRANSCRIPT_NO_START_CODON,G|upstream_gene_variant|MODIFIER|capsid|GENE_capsid|transcript|TRANSCRIPT_capsid|protein_coding||c.-4518A>G|||||4518|WARNING_TRANSCRIPT_NO_STOP_CODON,G|downstream_gene_variant|MODIFIER|NS1|GENE_NS1|transcript|TRANSCRIPT_NS1|protein_coding||c.*1368A>G|||||1368|WARNING_TRANSCRIPT_NO_STOP_CODON,G|non_coding_transcript_variant|MODIFIER|EDEN.1|null|transcript|EDEN.1|protein_coding||||||||WARNING_TRANSCRIPT_NO_START_CODON","LOW","Synonymous","GT:PL","0/1:255,0,255"]
["KP164568_BHI3734_H804698_2014_08_26_Human_Brazil",3078,".","A",508,{"$f":"E16*100/J16","v":65.974025974026},"G",262,{"$f":"H16*100/J16","v":34.025974025974},{"$f":"H16+E16","v":770},223.009,"PASS","DP=769;VDB=0.113015;SGB=-0.693147;RPB=2.51795e-06;MQB=2.52234e-44;MQSB=0.630716;BQB=0.662558;MQ0F=0.0104031;AF1=0.5;AC1=1;DP4=111,281,46,169;MQ=37;FQ=223.893;PV4=0.0660844,0.0360868,0,0.00107105;ANN=G|missense_variant|MODERATE|NS2|GENE_NS2|transcript|TRANSCRIPT_NS2|protein_coding|1/1|c.1396A>G|p.Met466Val|1396/2394|1396/2394|466/797||WARNING_TRANSCRIPT_NO_START_CODON,G|upstream_gene_variant|MODIFIER|NS3|GENE_NS3|transcript|TRANSCRIPT_NS3|protein_coding||c.-999A>G|||||999|WARNING_TRANSCRIPT_NO_START_CODON,G|upstream_gene_variant|MODIFIER|NS4|GENE_NS4|transcript|TRANSCRIPT_NS4|protein_coding||c.-2589A>G|||||2589|WARNING_TRANSCRIPT_NO_START_CODON,G|upstream_gene_variant|MODIFIER|capsid|GENE_capsid|transcript|TRANSCRIPT_capsid|protein_coding||c.-4490A>G|||||4490|WARNING_TRANSCRIPT_NO_STOP_CODON,G|downstream_gene_variant|MODIFIER|NS1|GENE_NS1|transcript|TRANSCRIPT_NS1|protein_coding||c.*1396A>G|||||1396|WARNING_TRANSCRIPT_NO_STOP_CODON,G|non_coding_transcript_variant|MODIFIER|EDEN.1|null|transcript|EDEN.1|protein_coding||||||||WARNING_TRANSCRIPT_NO_START_CODON","MODERATE","Non-synonymous","GT:PL","0/1:253,0,255"]
["KP164568_BHI3734_H804698_2014_08_26_Human_Brazil",3089,null,"T",480,{"$f":"E17*100/J17","v":74.3034055727554},"C",166,{"$f":"H17*100/J17","v":25.6965944272446},{"$f":"H17+E17","v":646},null,null,"Dlu -> Asp","MODERATE","Non-synonymous"]
["KP164568_BHI3734_H804698_2014_08_26_Human_Brazil",3092,".","A",436,{"$f":"E18*100/J18","v":74.7855917667238},"G",147,{"$f":"H18*100/J18","v":25.2144082332762},{"$f":"H18+E18","v":583},86.0076,"PASS","DP=582;VDB=3.37774e-12;SGB=-0.693147;RPB=0.35911;MQB=3.78351e-44;MQSB=0.667371;BQB=0.514332;MQ0F=0.0137457;AF1=0.5;AC1=1;DP4=121,193,32,82;MQ=37;FQ=89.0158;PV4=0.052444,0.0203381,0,1;ANN=G|synonymous_variant|LOW|NS2|GENE_NS2|transcript|TRANSCRIPT_NS2|protein_coding|1/1|c.1410A>G|p.Thr470Thr|1410/2394|1410/2394|470/797||WARNING_TRANSCRIPT_NO_START_CODON,G|upstream_gene_variant|MODIFIER|NS3|GENE_NS3|transcript|TRANSCRIPT_NS3|protein_coding||c.-985A>G|||||985|WARNING_TRANSCRIPT_NO_START_CODON,G|upstream_gene_variant|MODIFIER|NS4|GENE_NS4|transcript|TRANSCRIPT_NS4|protein_coding||c.-2575A>G|||||2575|WARNING_TRANSCRIPT_NO_START_CODON,G|upstream_gene_variant|MODIFIER|capsid|GENE_capsid|transcript|TRANSCRIPT_capsid|protein_coding||c.-4476A>G|||||4476|WARNING_TRANSCRIPT_NO_STOP_CODON,G|downstream_gene_variant|MODIFIER|NS1|GENE_NS1|transcript|TRANSCRIPT_NS1|protein_coding||c.*1410A>G|||||1410|WARNING_TRANSCRIPT_NO_STOP_CODON,G|non_coding_transcript_variant|MODIFIER|EDEN.1|null|transcript|EDEN.1|protein_coding||||||||WARNING_TRANSCRIPT_NO_START_CODON","LOW","Synonymous","GT:PL","0/1:116,0,255"]
["KP164568_BHI3734_H804698_2014_08_26_Human_Brazil",3902,".","G",180,{"$f":"E19*100/J19","v":75.6302521008403},"A",58,{"$f":"H19*100/J19","v":24.3697478991597},{"$f":"H19+E19","v":238},38.0077,"PASS","DP=239;VDB=3.79357e-07;SGB=-0.693147;RPB=0.000776964;MQB=2.33871e-06;MQSB=0.639645;BQB=0.00882834;MQ0F=0.0292887;AF1=0.5;AC1=1;DP4=110,30,36,11;MQ=38;FQ=41.0155;PV4=0.839054,0.0954982,1.00391e-15,5.18956e-09;ANN=A|synonymous_variant|LOW|NS2|GENE_NS2|transcript|TRANSCRIPT_NS2|protein_coding|1/1|c.2220G>A|p.Val740Val|2220/2394|2220/2394|740/797||WARNING_TRANSCRIPT_NO_START_CODON,A|upstream_gene_variant|MODIFIER|NS3|GENE_NS3|transcript|TRANSCRIPT_NS3|protein_coding||c.-175G>A|||||175|WARNING_TRANSCRIPT_NO_START_CODON,A|upstream_gene_variant|MODIFIER|NS4|GENE_NS4|transcript|TRANSCRIPT_NS4|protein_coding||c.-1765G>A|||||1765|WARNING_TRANSCRIPT_NO_START_CODON,A|upstream_gene_variant|MODIFIER|capsid|GENE_capsid|transcript|TRANSCRIPT_capsid|protein_coding||c.-3666G>A|||||3666|WARNING_TRANSCRIPT_NO_STOP_CODON,A|upstream_gene_variant|MODIFIER|E3|GENE_E3|transcript|TRANSCRIPT_E3|protein_coding||c.-4458G>A|||||4458|WARNING_TRANSCRIPT_NO_START_CODON,A|upstream_gene_variant|MODIFIER|E2|GENE_E2|transcript|TRANSCRIPT_E2|protein_coding||c.-4641G>A|||||4641|WARNING_TRANSCRIPT_NO_START_CODON,A|downstream_gene_variant|MODIFIER|NS1|GENE_NS1|transcript|TRANSCRIPT_NS1|protein_coding||c.*2220G>A|||||2220|WARNING_TRANSCRIPT_NO_STOP_CODON,A|non_coding_transcript_variant|MODIFIER|EDEN.1|null|transcript|EDEN.1|protein_coding||||||||WARNING_TRANSCRIPT_NO_START_CODON","LOW","Synonymous","GT:PL","0/1:68,0,255"]
["KP164568_BHI3734_H804698_2014_08_26_Human_Brazil",3903,".","T",183,{"$f":"E20*100/J20","v":75.9336099585062},"C",58,{"$f":"H20*100/J20","v":24.0663900414938},{"$f":"H20+E20","v":241},48.0072,"PASS","DP=241;VDB=3.53627e-07;SGB=-0.693147;RPB=0.000548096;MQB=5.09877e-06;MQSB=0.824347;BQB=0.735348;MQ0F=0.0290456;AF1=0.5;AC1=1;DP4=111,31,36,10;MQ=38;FQ=51.0153;PV4=1,0.328518,3.14197e-15,5.46854e-10;ANN=C|synonymous_variant|LOW|NS2|GENE_NS2|transcript|TRANSCRIPT_NS2|protein_coding|1/1|c.2221T>C|p.Leu741Leu|2221/2394|2221/2394|741/797||WARNING_TRANSCRIPT_NO_START_CODON,C|upstream_gene_variant|MODIFIER|NS3|GENE_NS3|transcript|TRANSCRIPT_NS3|protein_coding||c.-174T>C|||||174|WARNING_TRANSCRIPT_NO_START_CODON,C|upstream_gene_variant|MODIFIER|NS4|GENE_NS4|transcript|TRANSCRIPT_NS4|protein_coding||c.-1764T>C|||||1764|WARNING_TRANSCRIPT_NO_START_CODON,C|upstream_gene_variant|MODIFIER|capsid|GENE_capsid|transcript|TRANSCRIPT_capsid|protein_coding||c.-3665T>C|||||3665|WARNING_TRANSCRIPT_NO_STOP_CODON,C|upstream_gene_variant|MODIFIER|E3|GENE_E3|transcript|TRANSCRIPT_E3|protein_coding||c.-4457T>C|||||4457|WARNING_TRANSCRIPT_NO_START_CODON,C|upstream_gene_variant|MODIFIER|E2|GENE_E2|transcript|TRANSCRIPT_E2|protein_coding||c.-4640T>C|||||4640|WARNING_TRANSCRIPT_NO_START_CODON,C|downstream_gene_variant|MODIFIER|NS1|GENE_NS1|transcript|TRANSCRIPT_NS1|protein_coding||c.*2221T>C|||||2221|WARNING_TRANSCRIPT_NO_STOP_CODON,C|non_coding_transcript_variant|MODIFIER|EDEN.1|null|transcript|EDEN.1|protein_coding||||||||WARNING_TRANSCRIPT_NO_START_CODON","LOW","Synonymous","GT:PL","0/1:78,0,255"]
["KP164568_BHI3734_H804698_2014_08_26_Human_Brazil",3956,null,"C",472,{"$f":"E21*100/J21","v":79.327731092437},"T",123,{"$f":"H21*100/J21","v":20.672268907563},{"$f":"H21+E21","v":595},null,null,null,"LOW","Synonymous"]
["KP164568_BHI3734_H804698_2014_08_26_Human_Brazil",3980,".","C",492,{"$f":"E22*100/J22","v":78.4688995215311},"T",135,{"$f":"H22*100/J22","v":21.5311004784689},{"$f":"H22+E22","v":627},26.0177,"PASS","DP=562;VDB=0.998646;SGB=-0.693147;RPB=0.66282;MQB=2.9631e-20;MQSB=0.000888493;BQB=0.976173;MQ0F=0.0587189;AF1=0.499999;AC1=1;DP4=229,64,73,19;MQ=38;FQ=29.0205;PV4=0.884983,1,0,3.5733e-05;ANN=T|synonymous_variant|LOW|NS2|GENE_NS2|transcript|TRANSCRIPT_NS2|protein_coding|1/1|c.2298C>T|p.Phe766Phe|2298/2394|2298/2394|766/797||WARNING_TRANSCRIPT_NO_START_CODON,T|upstream_gene_variant|MODIFIER|NS3|GENE_NS3|transcript|TRANSCRIPT_NS3|protein_coding||c.-97C>T|||||97|WARNING_TRANSCRIPT_NO_START_CODON,T|upstream_gene_variant|MODIFIER|NS4|GENE_NS4|transcript|TRANSCRIPT_NS4|protein_coding||c.-1687C>T|||||1687|WARNING_TRANSCRIPT_NO_START_CODON,T|upstream_gene_variant|MODIFIER|capsid|GENE_capsid|transcript|TRANSCRIPT_capsid|protein_coding||c.-3588C>T|||||3588|WARNING_TRANSCRIPT_NO_STOP_CODON,T|upstream_gene_variant|MODIFIER|E3|GENE_E3|transcript|TRANSCRIPT_E3|protein_coding||c.-4380C>T|||||4380|WARNING_TRANSCRIPT_NO_START_CODON,T|upstream_gene_variant|MODIFIER|E2|GENE_E2|transcript|TRANSCRIPT_E2|protein_coding||c.-4563C>T|||||4563|WARNING_TRANSCRIPT_NO_START_CODON,T|downstream_gene_variant|MODIFIER|NS1|GENE_NS1|transcript|TRANSCRIPT_NS1|protein_coding||c.*2298C>T|||||2298|WARNING_TRANSCRIPT_NO_STOP_CODON,T|non_coding_transcript_variant|MODIFIER|EDEN.1|null|transcript|EDEN.1|protein_coding||||||||WARNING_TRANSCRIPT_NO_START_CODON","LOW","Synonymous","GT:PL","0/1:56,0,255"]
["KP164568_BHI3734_H804698_2014_08_26_Human_Brazil",3985,null,"A",493,{"$f":"E23*100/J23","v":79.7734627831715},"G",125,{"$f":"H23*100/J23","v":20.2265372168285},{"$f":"H23+E23","v":618},null,null,"Asp -> Ser","MODERATE","Non-synonymous"]
["KP164568_BHI3734_H804698_2014_08_26_Human_Brazil",4010,".","C",341,{"$f":"E24*100/J24","v":65.8301158301158},"T",177,{"$f":"H24*100/J24","v":34.1698841698842},{"$f":"H24+E24","v":518},164.009,"PASS","DP=518;VDB=4.7756e-16;SGB=-0.693147;RPB=1.83105e-15;MQB=1.02463e-11;MQSB=6.47359e-07;BQB=0.154454;MQ0F=0.0559846;AF1=0.5;AC1=1;DP4=157,96,76,41;MQ=38;FQ=167.017;PV4=0.64386,1,1.28443e-18,4.56199e-12;ANN=T|synonymous_variant|LOW|NS2|GENE_NS2|transcript|TRANSCRIPT_NS2|protein_coding|1/1|c.2328C>T|p.Phe776Phe|2328/2394|2328/2394|776/797||WARNING_TRANSCRIPT_NO_START_CODON,T|upstream_gene_variant|MODIFIER|NS3|GENE_NS3|transcript|TRANSCRIPT_NS3|protein_coding||c.-67C>T|||||67|WARNING_TRANSCRIPT_NO_START_CODON,T|upstream_gene_variant|MODIFIER|NS4|GENE_NS4|transcript|TRANSCRIPT_NS4|protein_coding||c.-1657C>T|||||1657|WARNING_TRANSCRIPT_NO_START_CODON,T|upstream_gene_variant|MODIFIER|capsid|GENE_capsid|transcript|TRANSCRIPT_capsid|protein_coding||c.-3558C>T|||||3558|WARNING_TRANSCRIPT_NO_STOP_CODON,T|upstream_gene_variant|MODIFIER|E3|GENE_E3|transcript|TRANSCRIPT_E3|protein_coding||c.-4350C>T|||||4350|WARNING_TRANSCRIPT_NO_START_CODON,T|upstream_gene_variant|MODIFIER|E2|GENE_E2|transcript|TRANSCRIPT_E2|protein_coding||c.-4533C>T|||||4533|WARNING_TRANSCRIPT_NO_START_CODON,T|downstream_gene_variant|MODIFIER|NS1|GENE_NS1|transcript|TRANSCRIPT_NS1|protein_coding||c.*2328C>T|||||2328|WARNING_TRANSCRIPT_NO_STOP_CODON,T|non_coding_transcript_variant|MODIFIER|EDEN.1|null|transcript|EDEN.1|protein_coding||||||||WARNING_TRANSCRIPT_NO_START_CODON","LOW","Synonymous","GT:PL","0/1:194,0,255"]
["KP164568_BHI3734_H804698_2014_08_26_Human_Brazil",4016,".","T",342,{"$f":"E25*100/J25","v":66.6666666666667},"G",171,{"$f":"H25*100/J25","v":33.3333333333333},{"$f":"H25+E25","v":513},182.009,"PASS","DP=513;VDB=1.94948e-19;SGB=-0.693147;RPB=2.70602e-16;MQB=3.95262e-19;MQSB=3.9329e-06;BQB=0.145794;MQ0F=0.0389864;AF1=0.5;AC1=1;DP4=146,97,73,38;MQ=38;FQ=185.017;PV4=0.346008,1,4.38116e-26,1.19606e-08;ANN=G|synonymous_variant|LOW|NS2|GENE_NS2|transcript|TRANSCRIPT_NS2|protein_coding|1/1|c.2334T>G|p.Thr778Thr|2334/2394|2334/2394|778/797||WARNING_TRANSCRIPT_NO_START_CODON,G|upstream_gene_variant|MODIFIER|NS3|GENE_NS3|transcript|TRANSCRIPT_NS3|protein_coding||c.-61T>G|||||61|WARNING_TRANSCRIPT_NO_START_CODON,G|upstream_gene_variant|MODIFIER|NS4|GENE_NS4|transcript|TRANSCRIPT_NS4|protein_coding||c.-1651T>G|||||1651|WARNING_TRANSCRIPT_NO_START_CODON,G|upstream_gene_variant|MODIFIER|capsid|GENE_capsid|transcript|TRANSCRIPT_capsid|protein_coding||c.-3552T>G|||||3552|WARNING_TRANSCRIPT_NO_STOP_CODON,G|upstream_gene_variant|MODIFIER|E3|GENE_E3|transcript|TRANSCRIPT_E3|protein_coding||c.-4344T>G|||||4344|WARNING_TRANSCRIPT_NO_START_CODON,G|upstream_gene_variant|MODIFIER|E2|GENE_E2|transcript|TRANSCRIPT_E2|protein_coding||c.-4527T>G|||||4527|WARNING_TRANSCRIPT_NO_START_CODON,G|downstream_gene_variant|MODIFIER|NS1|GENE_NS1|transcript|TRANSCRIPT_NS1|protein_coding||c.*2334T>G|||||2334|WARNING_TRANSCRIPT_NO_STOP_CODON,G|non_coding_transcript_variant|MODIFIER|EDEN.1|null|transcript|EDEN.1|protein_coding||||||||WARNING_TRANSCRIPT_NO_START_CODON","LOW","Synonymous","GT:PL","0/1:212,0,255"]
["KP164568_BHI3734_H804698_2014_08_26_Human_Brazil",4022,".","C",365,{"$f":"E26*100/J26","v":74.1869918699187},"T",127,{"$f":"H26*100/J26","v":25.8130081300813},{"$f":"H26+E26","v":492},57.0073,"PASS","DP=492;VDB=5.2692e-07;SGB=-0.693147;RPB=1.45681e-16;MQB=6.27443e-17;MQSB=0.001026;BQB=0.280919;MQ0F=0.0304878;AF1=0.5;AC1=1;DP4=149,114,57,27;MQ=38;FQ=60.0154;PV4=0.0749064,1,9.88445e-26,1.73816e-16;ANN=T|synonymous_variant|LOW|NS2|GENE_NS2|transcript|TRANSCRIPT_NS2|protein_coding|1/1|c.2340C>T|p.Val780Val|2340/2394|2340/2394|780/797||WARNING_TRANSCRIPT_NO_START_CODON,T|upstream_gene_variant|MODIFIER|NS3|GENE_NS3|transcript|TRANSCRIPT_NS3|protein_coding||c.-55C>T|||||55|WARNING_TRANSCRIPT_NO_START_CODON,T|upstream_gene_variant|MODIFIER|NS4|GENE_NS4|transcript|TRANSCRIPT_NS4|protein_coding||c.-1645C>T|||||1645|WARNING_TRANSCRIPT_NO_START_CODON,T|upstream_gene_variant|MODIFIER|capsid|GENE_capsid|transcript|TRANSCRIPT_capsid|protein_coding||c.-3546C>T|||||3546|WARNING_TRANSCRIPT_NO_STOP_CODON,T|upstream_gene_variant|MODIFIER|E3|GENE_E3|transcript|TRANSCRIPT_E3|protein_coding||c.-4338C>T|||||4338|WARNING_TRANSCRIPT_NO_START_CODON,T|upstream_gene_variant|MODIFIER|E2|GENE_E2|transcript|TRANSCRIPT_E2|protein_coding||c.-4521C>T|||||4521|WARNING_TRANSCRIPT_NO_START_CODON,T|downstream_gene_variant|MODIFIER|NS1|GENE_NS1|transcript|TRANSCRIPT_NS1|protein_coding||c.*2340C>T|||||2340|WARNING_TRANSCRIPT_NO_STOP_CODON,T|non_coding_transcript_variant|MODIFIER|EDEN.1|null|transcript|EDEN.1|protein_coding||||||||WARNING_TRANSCRIPT_NO_START_CODON","LOW","Synonymous","GT:PL","0/1:87,0,255"]
["KP164568_BHI3734_H804698_2014_08_26_Human_Brazil",4082,".","G",207,{"$f":"E27*100/J27","v":69.9324324324324},"A",89,{"$f":"H27*100/J27","v":30.0675675675676},{"$f":"H27+E27","v":296},211.009,"PASS","DP=294;VDB=3.42743e-10;SGB=-0.693147;RPB=0.848808;MQB=0.00133106;MQSB=0.766836;BQB=0.904011;MQ0F=0.0102041;AF1=0.5;AC1=1;DP4=53,110,23,43;MQ=40;FQ=213.848;PV4=0.758094,1,1.12528e-08,0.00040775;ANN=A|synonymous_variant|LOW|NS3|GENE_NS3|transcript|TRANSCRIPT_NS3|protein_coding|1/1|c.6G>A|p.Pro2Pro|6/1572|6/1572|2/523||WARNING_TRANSCRIPT_NO_START_CODON,A|upstream_gene_variant|MODIFIER|NS4|GENE_NS4|transcript|TRANSCRIPT_NS4|protein_coding||c.-1585G>A|||||1585|WARNING_TRANSCRIPT_NO_START_CODON,A|upstream_gene_variant|MODIFIER|capsid|GENE_capsid|transcript|TRANSCRIPT_capsid|protein_coding||c.-3486G>A|||||3486|WARNING_TRANSCRIPT_NO_STOP_CODON,A|upstream_gene_variant|MODIFIER|E3|GENE_E3|transcript|TRANSCRIPT_E3|protein_coding||c.-4278G>A|||||4278|WARNING_TRANSCRIPT_NO_START_CODON,A|upstream_gene_variant|MODIFIER|E2|GENE_E2|transcript|TRANSCRIPT_E2|protein_coding||c.-4461G>A|||||4461|WARNING_TRANSCRIPT_NO_START_CODON,A|downstream_gene_variant|MODIFIER|NS1|GENE_NS1|transcript|TRANSCRIPT_NS1|protein_coding||c.*2400G>A|||||2400|WARNING_TRANSCRIPT_NO_STOP_CODON,A|downstream_gene_variant|MODIFIER|NS2|GENE_NS2|transcript|TRANSCRIPT_NS2|protein_coding||c.*6G>A|||||6|WARNING_TRANSCRIPT_NO_START_CODON,A|non_coding_transcript_variant|MODIFIER|EDEN.1|null|transcript|EDEN.1|protein_coding||||||||WARNING_TRANSCRIPT_NO_START_CODON","LOW","Synonymous","GT:PL","0/1:241,0,255"]
["KP164568_BHI3734_H804698_2014_08_26_Human_Brazil",5094,".","C",93,{"$f":"E28*100/J28","v":41.3333333333333},"G",132,{"$f":"H28*100/J28","v":58.6666666666667},{"$f":"H28+E28","v":225},100.008,"PASS","DP=245;VDB=1;SGB=-0.693147;RPB=0.996631;MQB=4.12554e-14;MQSB=1;BQB=0.694389;MQ0F=0.208163;AF1=0.5;AC1=1;DP4=69,0,103,1;MQ=33;FQ=103.016;PV4=1,1,8.30468e-17,9.10545e-39;ANN=G|missense_variant|MODERATE|NS3|GENE_NS3|transcript|TRANSCRIPT_NS3|protein_coding|1/1|c.1018C>G|p.Leu340Val|1018/1572|1018/1572|340/523||WARNING_TRANSCRIPT_NO_START_CODON,G|upstream_gene_variant|MODIFIER|NS4|GENE_NS4|transcript|TRANSCRIPT_NS4|protein_coding||c.-573C>G|||||573|WARNING_TRANSCRIPT_NO_START_CODON,G|upstream_gene_variant|MODIFIER|capsid|GENE_capsid|transcript|TRANSCRIPT_capsid|protein_coding||c.-2474C>G|||||2474|WARNING_TRANSCRIPT_NO_STOP_CODON,G|upstream_gene_variant|MODIFIER|E3|GENE_E3|transcript|TRANSCRIPT_E3|protein_coding||c.-3266C>G|||||3266|WARNING_TRANSCRIPT_NO_START_CODON,G|upstream_gene_variant|MODIFIER|E2|GENE_E2|transcript|TRANSCRIPT_E2|protein_coding||c.-3449C>G|||||3449|WARNING_TRANSCRIPT_NO_START_CODON,G|upstream_gene_variant|MODIFIER|6K|GENE_6K|transcript|TRANSCRIPT_6K|protein_coding||c.-4718C>G|||||4718|WARNING_TRANSCRIPT_NO_START_CODON,G|upstream_gene_variant|MODIFIER|E1|GENE_E1|transcript|TRANSCRIPT_E1|protein_coding||c.-4901C>G|||||4901|WARNING_TRANSCRIPT_NO_START_CODON,G|downstream_gene_variant|MODIFIER|NS1|GENE_NS1|transcript|TRANSCRIPT_NS1|protein_coding||c.*3412C>G|||||3412|WARNING_TRANSCRIPT_NO_STOP_CODON,G|downstream_gene_variant|MODIFIER|NS2|GENE_NS2|transcript|TRANSCRIPT_NS2|protein_coding||c.*1018C>G|||||1018|WARNING_TRANSCRIPT_NO_START_CODON,G|non_coding_transcript_variant|MODIFIER|EDEN.1|null|transcript|EDEN.1|protein_coding||||||||WARNING_TRANSCRIPT_NO_START_CODON","MODERATE","Non-synonymous","GT:PL","0/1:130,0,192"]
["KP164568_BHI3734_H804698_2014_08_26_Human_Brazil",5095,null,"T",147,{"$f":"E29*100/J29","v":60.4938271604938},"A",96,{"$f":"H29*100/J29","v":39.5061728395062},{"$f":"H29+E29","v":243},null,null,"Leu -> Glu","MODERATE","Non-synonymous"]
["KP164568_BHI3734_H804698_2014_08_26_Human_Brazil",5254,".","TAA",null,{"$f":"E30*100/J30","v":{"$error":"#DIV/0!"}},"TA",null,{"$f":"H30*100/J30","v":{"$error":"#DIV/0!"}},{"$f":"H30+E30","v":0},215.468,"PASS","INDEL;IDV=66;IMF=0.283262;DP=233;VDB=0.999998;SGB=-0.693147;MQSB=0.937435;MQ0F=0.00858369;AF1=0.5;AC1=1;DP4=54,32,15,36;MQ=40;FQ=216.354;PV4=0.000194359,0.028002,1.26713e-09,8.12299e-11;ANN=TA|frameshift_variant|HIGH|NS3|GENE_NS3|transcript|TRANSCRIPT_NS3|protein_coding|1/1|c.1180delA|p.Met394fs|1180/1572|1180/1572|394/523||WARNING_TRANSCRIPT_NO_START_CODON,TA|upstream_gene_variant|MODIFIER|NS4|GENE_NS4|transcript|TRANSCRIPT_NS4|protein_coding||c.-411delA|||||411|WARNING_TRANSCRIPT_NO_START_CODON,TA|upstream_gene_variant|MODIFIER|capsid|GENE_capsid|transcript|TRANSCRIPT_capsid|protein_coding||c.-2312delA|||||2312|WARNING_TRANSCRIPT_NO_STOP_CODON,TA|upstream_gene_variant|MODIFIER|E3|GENE_E3|transcript|TRANSCRIPT_E3|protein_coding||c.-3104delA|||||3104|WARNING_TRANSCRIPT_NO_START_CODON,TA|upstream_gene_variant|MODIFIER|E2|GENE_E2|transcript|TRANSCRIPT_E2|protein_coding||c.-3287delA|||||3287|WARNING_TRANSCRIPT_NO_START_CODON,TA|upstream_gene_variant|MODIFIER|6K|GENE_6K|transcript|TRANSCRIPT_6K|protein_coding||c.-4556delA|||||4556|WARNING_TRANSCRIPT_NO_START_CODON,TA|upstream_gene_variant|MODIFIER|E1|GENE_E1|transcript|TRANSCRIPT_E1|protein_coding||c.-4739delA|||||4739|WARNING_TRANSCRIPT_NO_START_CODON,TA|downstream_gene_variant|MODIFIER|NS1|GENE_NS1|transcript|TRANSCRIPT_NS1|protein_coding||c.*3574delA|||||3574|WARNING_TRANSCRIPT_NO_STOP_CODON,TA|downstream_gene_variant|MODIFIER|NS2|GENE_NS2|transcript|TRANSCRIPT_NS2|protein_coding||c.*1180delA|||||1180|WARNING_TRANSCRIPT_NO_START_CODON,TA|non_coding_transcript_variant|MODIFIER|EDEN.1|null|transcript|EDEN.1|protein_coding||||||||WARNING_TRANSCRIPT_NO_START_CODON;LOF=(NS3|GENE_NS3|1|1,00)","-","-","GT:PL","0/1:253,0,255"]
["KP164568_BHI3734_H804698_2014_08_26_Human_Brazil",5323,".","A",158,{"$f":"E31*100/J31","v":71.8181818181818},"C",62,{"$f":"H31*100/J31","v":28.1818181818182},{"$f":"H31+E31","v":220},21.0411,"PASS","DP=267;VDB=6.34251e-36;SGB=-0.693147;RPB=1.42114e-16;MQB=1.87761e-08;MQSB=8.55442e-05;BQB=0.000184111;MQ0F=0.179775;AF1=0.499998;AC1=1;DP4=50,59,49,8;MQ=33;FQ=24.0321;PV4=3.58597e-07,1,2.88664e-07,7.31128e-16;ANN=C|missense_variant|MODERATE|NS3|GENE_NS3|transcript|TRANSCRIPT_NS3|protein_coding|1/1|c.1247A>C|p.Glu416Ala|1247/1572|1247/1572|416/523||WARNING_TRANSCRIPT_NO_START_CODON,C|upstream_gene_variant|MODIFIER|NS4|GENE_NS4|transcript|TRANSCRIPT_NS4|protein_coding||c.-344A>C|||||344|WARNING_TRANSCRIPT_NO_START_CODON,C|upstream_gene_variant|MODIFIER|capsid|GENE_capsid|transcript|TRANSCRIPT_capsid|protein_coding||c.-2245A>C|||||2245|WARNING_TRANSCRIPT_NO_STOP_CODON,C|upstream_gene_variant|MODIFIER|E3|GENE_E3|transcript|TRANSCRIPT_E3|protein_coding||c.-3037A>C|||||3037|WARNING_TRANSCRIPT_NO_START_CODON,C|upstream_gene_variant|MODIFIER|E2|GENE_E2|transcript|TRANSCRIPT_E2|protein_coding||c.-3220A>C|||||3220|WARNING_TRANSCRIPT_NO_START_CODON,C|upstream_gene_variant|MODIFIER|6K|GENE_6K|transcript|TRANSCRIPT_6K|protein_coding||c.-4489A>C|||||4489|WARNING_TRANSCRIPT_NO_START_CODON,C|upstream_gene_variant|MODIFIER|E1|GENE_E1|transcript|TRANSCRIPT_E1|protein_coding||c.-4672A>C|||||4672|WARNING_TRANSCRIPT_NO_START_CODON,C|downstream_gene_variant|MODIFIER|NS1|GENE_NS1|transcript|TRANSCRIPT_NS1|protein_coding||c.*3641A>C|||||3641|WARNING_TRANSCRIPT_NO_STOP_CODON,C|downstream_gene_variant|MODIFIER|NS2|GENE_NS2|transcript|TRANSCRIPT_NS2|protein_coding||c.*1247A>C|||||1247|WARNING_TRANSCRIPT_NO_START_CODON,C|non_coding_transcript_variant|MODIFIER|EDEN.1|null|transcript|EDEN.1|protein_coding||||||||WARNING_TRANSCRIPT_NO_START_CODON","MODERATE","Non-synonymous","GT:PL","0/1:51,0,255"]
["KP164568_BHI3734_H804698_2014_08_26_Human_Brazil",5324,".","G",118,{"$f":"E32*100/J32","v":52.212389380531},"A",108,{"$f":"H32*100/J32","v":47.787610619469},{"$f":"H32+E32","v":226},119.008,"PASS","DP=269;VDB=1.04342e-29;SGB=-0.693147;RPB=1.37244e-18;MQB=1.61933e-22;MQSB=1.04034e-05;BQB=2.9829e-09;MQ0F=0.178439;AF1=0.5;AC1=1;DP4=31,58,71,9;MQ=33;FQ=122.016;PV4=2.50004e-13,1,1.18799e-30,1.07806e-15;ANN=A|synonymous_variant|LOW|NS3|GENE_NS3|transcript|TRANSCRIPT_NS3|protein_coding|1/1|c.1248G>A|p.Glu416Glu|1248/1572|1248/1572|416/523||WARNING_TRANSCRIPT_NO_START_CODON,A|upstream_gene_variant|MODIFIER|NS4|GENE_NS4|transcript|TRANSCRIPT_NS4|protein_coding||c.-343G>A|||||343|WARNING_TRANSCRIPT_NO_START_CODON,A|upstream_gene_variant|MODIFIER|capsid|GENE_capsid|transcript|TRANSCRIPT_capsid|protein_coding||c.-2244G>A|||||2244|WARNING_TRANSCRIPT_NO_STOP_CODON,A|upstream_gene_variant|MODIFIER|E3|GENE_E3|transcript|TRANSCRIPT_E3|protein_coding||c.-3036G>A|||||3036|WARNING_TRANSCRIPT_NO_START_CODON,A|upstream_gene_variant|MODIFIER|E2|GENE_E2|transcript|TRANSCRIPT_E2|protein_coding||c.-3219G>A|||||3219|WARNING_TRANSCRIPT_NO_START_CODON,A|upstream_gene_variant|MODIFIER|6K|GENE_6K|transcript|TRANSCRIPT_6K|protein_coding||c.-4488G>A|||||4488|WARNING_TRANSCRIPT_NO_START_CODON,A|upstream_gene_variant|MODIFIER|E1|GENE_E1|transcript|TRANSCRIPT_E1|protein_coding||c.-4671G>A|||||4671|WARNING_TRANSCRIPT_NO_START_CODON,A|downstream_gene_variant|MODIFIER|NS1|GENE_NS1|transcript|TRANSCRIPT_NS1|protein_coding||c.*3642G>A|||||3642|WARNING_TRANSCRIPT_NO_STOP_CODON,A|downstream_gene_variant|MODIFIER|NS2|GENE_NS2|transcript|TRANSCRIPT_NS2|protein_coding||c.*1248G>A|||||1248|WARNING_TRANSCRIPT_NO_START_CODON,A|non_coding_transcript_variant|MODIFIER|EDEN.1|null|transcript|EDEN.1|protein_coding||||||||WARNING_TRANSCRIPT_NO_START_CODON","LOW","Synonymous","GT:PL","0/1:149,0,255"]
["KP164568_BHI3734_H804698_2014_08_26_Human_Brazil",5967,null,"A",11,{"$f":"E33*100/J33","v":5.18867924528302},"G",201,{"$f":"H33*100/J33","v":94.811320754717},{"$f":"H33+E33","v":212},null,null,"Thr -> Ala","MODERATE","Non-synonymous"]
["KP164568_BHI3734_H804698_2014_08_26_Human_Brazil",5968,null,"C",11,{"$f":"E34*100/J34","v":5.16431924882629},"T",202,{"$f":"H34*100/J34","v":94.8356807511737},{"$f":"H34+E34","v":213},null,null,"Thr -> Ile","MODERATE","Non-synonymous"]
["KP164568_BHI3734_H804698_2014_08_26_Human_Brazil",5972,null,"T",12,{"$f":"E35*100/J35","v":4.74308300395257},"C",241,{"$f":"H35*100/J35","v":95.2569169960474},{"$f":"H35+E35","v":253},null,null,null,"LOW","Synonymous"]
["KP164568_BHI3734_H804698_2014_08_26_Human_Brazil",6009,".","C",9,{"$f":"E36*100/J36","v":2.29591836734694},"T",383,{"$f":"H36*100/J36","v":97.7040816326531},{"$f":"H36+E36","v":392},151.998,"PASS","DP=392;VDB=5.97098e-13;SGB=-0.693147;RPB=0.466663;MQB=0.00216244;MQSB=0.00829141;BQB=0.724793;MQ0F=0.165816;AF1=1;AC1=2;DP4=5,0,200,21;MQ=16;FQ=-281.989;PV4=1,1,2.67617e-06,1;ANN=T|synonymous_variant|LOW|NS4|GENE_NS4|transcript|TRANSCRIPT_NS4|protein_coding|1/1|c.343C>T|p.Leu115Leu|343/1833|343/1833|115/610||WARNING_TRANSCRIPT_NO_START_CODON,T|upstream_gene_variant|MODIFIER|capsid|GENE_capsid|transcript|TRANSCRIPT_capsid|protein_coding||c.-1559C>T|||||1559|WARNING_TRANSCRIPT_NO_STOP_CODON,T|upstream_gene_variant|MODIFIER|E3|GENE_E3|transcript|TRANSCRIPT_E3|protein_coding||c.-2351C>T|||||2351|WARNING_TRANSCRIPT_NO_START_CODON,T|upstream_gene_variant|MODIFIER|E2|GENE_E2|transcript|TRANSCRIPT_E2|protein_coding||c.-2534C>T|||||2534|WARNING_TRANSCRIPT_NO_START_CODON,T|upstream_gene_variant|MODIFIER|6K|GENE_6K|transcript|TRANSCRIPT_6K|protein_coding||c.-3803C>T|||||3803|WARNING_TRANSCRIPT_NO_START_CODON,T|upstream_gene_variant|MODIFIER|E1|GENE_E1|transcript|TRANSCRIPT_E1|protein_coding||c.-3986C>T|||||3986|WARNING_TRANSCRIPT_NO_START_CODON,T|downstream_gene_variant|MODIFIER|NS1|GENE_NS1|transcript|TRANSCRIPT_NS1|protein_coding||c.*4327C>T|||||4327|WARNING_TRANSCRIPT_NO_STOP_CODON,T|downstream_gene_variant|MODIFIER|NS2|GENE_NS2|transcript|TRANSCRIPT_NS2|protein_coding||c.*1933C>T|||||1933|WARNING_TRANSCRIPT_NO_START_CODON,T|downstream_gene_variant|MODIFIER|NS3|GENE_NS3|transcript|TRANSCRIPT_NS3|protein_coding||c.*361C>T|||||361|WARNING_TRANSCRIPT_NO_START_CODON,T|non_coding_transcript_variant|MODIFIER|EDEN.1|null|transcript|EDEN.1|protein_coding||||||||WARNING_TRANSCRIPT_NO_START_CODON","LOW","Synonymous","GT:PL","1/1:185,255,0"]
["KP164568_BHI3734_H804698_2014_08_26_Human_Brazil",6017,".","C",9,{"$f":"E37*100/J37","v":2.45231607629428},"T",358,{"$f":"H37*100/J37","v":97.5476839237057},{"$f":"H37+E37","v":367},144.998,"PASS","DP=368;VDB=2.91734e-15;SGB=-0.693147;RPB=0.643551;MQB=0.00314179;MQSB=9.43244e-07;BQB=0.809717;MQ0F=0.122283;AF1=1;AC1=2;DP4=4,1,180,34;MQ=16;FQ=-281.989;PV4=0.585009,0.366886,4.87774e-05,1;ANN=T|synonymous_variant|LOW|NS4|GENE_NS4|transcript|TRANSCRIPT_NS4|protein_coding|1/1|c.351C>T|p.Asn117Asn|351/1833|351/1833|117/610||WARNING_TRANSCRIPT_NO_START_CODON,T|upstream_gene_variant|MODIFIER|capsid|GENE_capsid|transcript|TRANSCRIPT_capsid|protein_coding||c.-1551C>T|||||1551|WARNING_TRANSCRIPT_NO_STOP_CODON,T|upstream_gene_variant|MODIFIER|E3|GENE_E3|transcript|TRANSCRIPT_E3|protein_coding||c.-2343C>T|||||2343|WARNING_TRANSCRIPT_NO_START_CODON,T|upstream_gene_variant|MODIFIER|E2|GENE_E2|transcript|TRANSCRIPT_E2|protein_coding||c.-2526C>T|||||2526|WARNING_TRANSCRIPT_NO_START_CODON,T|upstream_gene_variant|MODIFIER|6K|GENE_6K|transcript|TRANSCRIPT_6K|protein_coding||c.-3795C>T|||||3795|WARNING_TRANSCRIPT_NO_START_CODON,T|upstream_gene_variant|MODIFIER|E1|GENE_E1|transcript|TRANSCRIPT_E1|protein_coding||c.-3978C>T|||||3978|WARNING_TRANSCRIPT_NO_START_CODON,T|downstream_gene_variant|MODIFIER|NS1|GENE_NS1|transcript|TRANSCRIPT_NS1|protein_coding||c.*4335C>T|||||4335|WARNING_TRANSCRIPT_NO_STOP_CODON,T|downstream_gene_variant|MODIFIER|NS2|GENE_NS2|transcript|TRANSCRIPT_NS2|protein_coding||c.*1941C>T|||||1941|WARNING_TRANSCRIPT_NO_START_CODON,T|downstream_gene_variant|MODIFIER|NS3|GENE_NS3|transcript|TRANSCRIPT_NS3|protein_coding||c.*369C>T|||||369|WARNING_TRANSCRIPT_NO_START_CODON,T|non_coding_transcript_variant|MODIFIER|EDEN.1|null|transcript|EDEN.1|protein_coding||||||||WARNING_TRANSCRIPT_NO_START_CODON","LOW","Synonymous","GT:PL","1/1:178,255,0"]
["KP164568_BHI3734_H804698_2014_08_26_Human_Brazil",6041,".","C",3,{"$f":"E38*100/J38","v":1.36986301369863},"T",216,{"$f":"H38*100/J38","v":98.6301369863014},{"$f":"H38+E38","v":219},135.998,"PASS","DP=218;VDB=5.10074e-08;SGB=-0.693147;RPB=0.573248;MQB=0.0477707;MQSB=0.00743195;BQB=0.996815;MQ0F=0.0412844;AF1=1;AC1=2;DP4=1,1,94,63;MQ=16;FQ=-281.989;PV4=1,1,0.0011262,0.116632;ANN=T|synonymous_variant|LOW|NS4|GENE_NS4|transcript|TRANSCRIPT_NS4|protein_coding|1/1|c.375C>T|p.Cys125Cys|375/1833|375/1833|125/610||WARNING_TRANSCRIPT_NO_START_CODON,T|upstream_gene_variant|MODIFIER|capsid|GENE_capsid|transcript|TRANSCRIPT_capsid|protein_coding||c.-1527C>T|||||1527|WARNING_TRANSCRIPT_NO_STOP_CODON,T|upstream_gene_variant|MODIFIER|E3|GENE_E3|transcript|TRANSCRIPT_E3|protein_coding||c.-2319C>T|||||2319|WARNING_TRANSCRIPT_NO_START_CODON,T|upstream_gene_variant|MODIFIER|E2|GENE_E2|transcript|TRANSCRIPT_E2|protein_coding||c.-2502C>T|||||2502|WARNING_TRANSCRIPT_NO_START_CODON,T|upstream_gene_variant|MODIFIER|6K|GENE_6K|transcript|TRANSCRIPT_6K|protein_coding||c.-3771C>T|||||3771|WARNING_TRANSCRIPT_NO_START_CODON,T|upstream_gene_variant|MODIFIER|E1|GENE_E1|transcript|TRANSCRIPT_E1|protein_coding||c.-3954C>T|||||3954|WARNING_TRANSCRIPT_NO_START_CODON,T|downstream_gene_variant|MODIFIER|NS1|GENE_NS1|transcript|TRANSCRIPT_NS1|protein_coding||c.*4359C>T|||||4359|WARNING_TRANSCRIPT_NO_STOP_CODON,T|downstream_gene_variant|MODIFIER|NS2|GENE_NS2|transcript|TRANSCRIPT_NS2|protein_coding||c.*1965C>T|||||1965|WARNING_TRANSCRIPT_NO_START_CODON,T|downstream_gene_variant|MODIFIER|NS3|GENE_NS3|transcript|TRANSCRIPT_NS3|protein_coding||c.*393C>T|||||393|WARNING_TRANSCRIPT_NO_START_CODON,T|non_coding_transcript_variant|MODIFIER|EDEN.1|null|transcript|EDEN.1|protein_coding||||||||WARNING_TRANSCRIPT_NO_START_CODON","LOW","Synonymous","GT:PL","1/1:169,255,0"]
["KP164568_BHI3734_H804698_2014_08_26_Human_Brazil",6707,null,"T",626,{"$f":"E39*100/J39","v":75.1500600240096},"C",207,{"$f":"H39*100/J39","v":24.8499399759904},{"$f":"H39+E39","v":833},null,null,null,"LOW","Synonymous"]
["KP164568_BHI3734_H804698_2014_08_26_Human_Brazil",6722,".","T",608,{"$f":"E40*100/J40","v":74.0560292326431},"C",213,{"$f":"H40*100/J40","v":25.9439707673569},{"$f":"H40+E40","v":821},49.0072,"PASS","DP=819;VDB=0.246605;SGB=-0.693147;RPB=0.0045737;MQB=0;MQSB=0.210871;BQB=0.337155;MQ0F=0.003663;AF1=0.5;AC1=1;DP4=358,77,121,25;MQ=38;FQ=52.0153;PV4=1,1,0,0.315257;ANN=C|synonymous_variant|LOW|NS4|GENE_NS4|transcript|TRANSCRIPT_NS4|protein_coding|1/1|c.1056T>C|p.Asp352Asp|1056/1833|1056/1833|352/610||WARNING_TRANSCRIPT_NO_START_CODON,C|upstream_gene_variant|MODIFIER|capsid|GENE_capsid|transcript|TRANSCRIPT_capsid|protein_coding||c.-846T>C|||||846|WARNING_TRANSCRIPT_NO_STOP_CODON,C|upstream_gene_variant|MODIFIER|E3|GENE_E3|transcript|TRANSCRIPT_E3|protein_coding||c.-1638T>C|||||1638|WARNING_TRANSCRIPT_NO_START_CODON,C|upstream_gene_variant|MODIFIER|E2|GENE_E2|transcript|TRANSCRIPT_E2|protein_coding||c.-1821T>C|||||1821|WARNING_TRANSCRIPT_NO_START_CODON,C|upstream_gene_variant|MODIFIER|6K|GENE_6K|transcript|TRANSCRIPT_6K|protein_coding||c.-3090T>C|||||3090|WARNING_TRANSCRIPT_NO_START_CODON,C|upstream_gene_variant|MODIFIER|E1|GENE_E1|transcript|TRANSCRIPT_E1|protein_coding||c.-3273T>C|||||3273|WARNING_TRANSCRIPT_NO_START_CODON,C|downstream_gene_variant|MODIFIER|NS2|GENE_NS2|transcript|TRANSCRIPT_NS2|protein_coding||c.*2646T>C|||||2646|WARNING_TRANSCRIPT_NO_START_CODON,C|downstream_gene_variant|MODIFIER|NS3|GENE_NS3|transcript|TRANSCRIPT_NS3|protein_coding||c.*1074T>C|||||1074|WARNING_TRANSCRIPT_NO_START_CODON,C|non_coding_transcript_variant|MODIFIER|EDEN.1|null|transcript|EDEN.1|protein_coding||||||||WARNING_TRANSCRIPT_NO_START_CODON","LOW","Synonymous","GT:PL","0/1:79,0,255"]
["KP164568_BHI3734_H804698_2014_08_26_Human_Brazil",6734,".","C",641,{"$f":"E41*100/J41","v":69.2224622030238},"T",285,{"$f":"H41*100/J41","v":30.7775377969762},{"$f":"H41+E41","v":926},156.008,"PASS","DP=925;VDB=0.996419;SGB=-0.693147;RPB=0.0511333;MQB=2.77457e-43;MQSB=0.00572441;BQB=0.0984322;MQ0F=0.00216216;AF1=0.5;AC1=1;DP4=341,112,136,48;MQ=37;FQ=159.017;PV4=0.762493,1,0,0.000652522;ANN=T|synonymous_variant|LOW|NS4|GENE_NS4|transcript|TRANSCRIPT_NS4|protein_coding|1/1|c.1068C>T|p.Ile356Ile|1068/1833|1068/1833|356/610||WARNING_TRANSCRIPT_NO_START_CODON,T|upstream_gene_variant|MODIFIER|capsid|GENE_capsid|transcript|TRANSCRIPT_capsid|protein_coding||c.-834C>T|||||834|WARNING_TRANSCRIPT_NO_STOP_CODON,T|upstream_gene_variant|MODIFIER|E3|GENE_E3|transcript|TRANSCRIPT_E3|protein_coding||c.-1626C>T|||||1626|WARNING_TRANSCRIPT_NO_START_CODON,T|upstream_gene_variant|MODIFIER|E2|GENE_E2|transcript|TRANSCRIPT_E2|protein_coding||c.-1809C>T|||||1809|WARNING_TRANSCRIPT_NO_START_CODON,T|upstream_gene_variant|MODIFIER|6K|GENE_6K|transcript|TRANSCRIPT_6K|protein_coding||c.-3078C>T|||||3078|WARNING_TRANSCRIPT_NO_START_CODON,T|upstream_gene_variant|MODIFIER|E1|GENE_E1|transcript|TRANSCRIPT_E1|protein_coding||c.-3261C>T|||||3261|WARNING_TRANSCRIPT_NO_START_CODON,T|downstream_gene_variant|MODIFIER|NS2|GENE_NS2|transcript|TRANSCRIPT_NS2|protein_coding||c.*2658C>T|||||2658|WARNING_TRANSCRIPT_NO_START_CODON,T|downstream_gene_variant|MODIFIER|NS3|GENE_NS3|transcript|TRANSCRIPT_NS3|protein_coding||c.*1086C>T|||||1086|WARNING_TRANSCRIPT_NO_START_CODON,T|non_coding_transcript_variant|MODIFIER|EDEN.1|null|transcript|EDEN.1|protein_coding||||||||WARNING_TRANSCRIPT_NO_START_CODON","LOW","Synonymous","GT:PL","0/1:186,0,255"]
["KP164568_BHI3734_H804698_2014_08_26_Human_Brazil",6762,".","A",541,{"$f":"E42*100/J42","v":67.964824120603},"G",255,{"$f":"H42*100/J42","v":32.035175879397},{"$f":"H42+E42","v":796},92.0077,"PASS","DP=794;VDB=0.999846;SGB=-0.693147;RPB=0.0948964;MQB=1.44334e-43;MQSB=0.0399984;BQB=0.999534;MQ0F=0.00629723;AF1=0.5;AC1=1;DP4=268,131,122,56;MQ=37;FQ=95.0159;PV4=0.773316,1,0,0.00299089;ANN=G|missense_variant|MODERATE|NS4|GENE_NS4|transcript|TRANSCRIPT_NS4|protein_coding|1/1|c.1096A>G|p.Thr366Ala|1096/1833|1096/1833|366/610||WARNING_TRANSCRIPT_NO_START_CODON,G|upstream_gene_variant|MODIFIER|capsid|GENE_capsid|transcript|TRANSCRIPT_capsid|protein_coding||c.-806A>G|||||806|WARNING_TRANSCRIPT_NO_STOP_CODON,G|upstream_gene_variant|MODIFIER|E3|GENE_E3|transcript|TRANSCRIPT_E3|protein_coding||c.-1598A>G|||||1598|WARNING_TRANSCRIPT_NO_START_CODON,G|upstream_gene_variant|MODIFIER|E2|GENE_E2|transcript|TRANSCRIPT_E2|protein_coding||c.-1781A>G|||||1781|WARNING_TRANSCRIPT_NO_START_CODON,G|upstream_gene_variant|MODIFIER|6K|GENE_6K|transcript|TRANSCRIPT_6K|protein_coding||c.-3050A>G|||||3050|WARNING_TRANSCRIPT_NO_START_CODON,G|upstream_gene_variant|MODIFIER|E1|GENE_E1|transcript|TRANSCRIPT_E1|protein_coding||c.-3233A>G|||||3233|WARNING_TRANSCRIPT_NO_START_CODON,G|downstream_gene_variant|MODIFIER|NS2|GENE_NS2|transcript|TRANSCRIPT_NS2|protein_coding||c.*2686A>G|||||2686|WARNING_TRANSCRIPT_NO_START_CODON,G|downstream_gene_variant|MODIFIER|NS3|GENE_NS3|transcript|TRANSCRIPT_NS3|protein_coding||c.*1114A>G|||||1114|WARNING_TRANSCRIPT_NO_START_CODON,G|non_coding_transcript_variant|MODIFIER|EDEN.1|null|transcript|EDEN.1|protein_coding||||||||WARNING_TRANSCRIPT_NO_START_CODON","MODERATE","Non-synonymous","GT:PL","0/1:122,0,255"]
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["KP164568_BHI3734_H804698_2014_08_26_Human_Brazil",11015,".","GAA",null,{"$f":"E46*100/J46","v":{"$error":"#DIV/0!"}},"GAGATTTCAA",null,{"$f":"H46*100/J46","v":{"$error":"#DIV/0!"}},{"$f":"H46+E46","v":0},134.457,"PASS","INDEL;IDV=27;IMF=0.129187;DP=209;VDB=1.13402e-30;SGB=-0.693147;MQSB=1.03141e-08;MQ0F=0.220096;AF1=1;AC1=2;DP4=0,0,33,22;MQ=19;FQ=-200.527;ANN=GAGATTTCAA|frameshift_variant|HIGH|E1|GENE_E1|transcript|TRANSCRIPT_E1|protein_coding|1/1|c.1022_1023insGATTTCA|p.Ala342fs|1023/1317|1023/1317|341/438||WARNING_TRANSCRIPT_NO_START_CODON,GAGATTTCAA|downstream_gene_variant|MODIFIER|NS4|GENE_NS4|transcript|TRANSCRIPT_NS4|protein_coding||c.*3517_*3518insGATTTCA|||||3518|WARNING_TRANSCRIPT_NO_START_CODON,GAGATTTCAA|downstream_gene_variant|MODIFIER|capsid|GENE_capsid|transcript|TRANSCRIPT_capsid|protein_coding||c.*2657_*2658insGATTTCA|||||2658|WARNING_TRANSCRIPT_NO_STOP_CODON,GAGATTTCAA|downstream_gene_variant|MODIFIER|E3|GENE_E3|transcript|TRANSCRIPT_E3|protein_coding||c.*2474_*2475insGATTTCA|||||2475|WARNING_TRANSCRIPT_NO_START_CODON,GAGATTTCAA|downstream_gene_variant|MODIFIER|E2|GENE_E2|transcript|TRANSCRIPT_E2|protein_coding||c.*1205_*1206insGATTTCA|||||1206|WARNING_TRANSCRIPT_NO_START_CODON,GAGATTTCAA|downstream_gene_variant|MODIFIER|6K|GENE_6K|transcript|TRANSCRIPT_6K|protein_coding||c.*1022_*1023insGATTTCA|||||1023|WARNING_TRANSCRIPT_NO_START_CODON,GAGATTTCAA|non_coding_transcript_variant|MODIFIER|EDEN.1|null|transcript|EDEN.1|protein_coding||||||||WARNING_TRANSCRIPT_NO_START_CODON;LOF=(E1|GENE_E1|1|1,00)",null,null,"GT:PL","1/1:175,166,0"]