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@KevinyWu
KevinyWu committed Oct 12, 2023
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Showing 71 changed files with 244,959 additions and 262 deletions.
136,115 changes: 136,115 additions & 0 deletions extras/variants/data/human/h1n1_ha.fasta
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105,847 changes: 105,847 additions & 0 deletions extras/variants/data/human/h1n1_na.fasta
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1,395 changes: 1,395 additions & 0 deletions extras/variants/data/human/h1n2_ha.fasta
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1,055 changes: 1,055 additions & 0 deletions extras/variants/data/human/h1n2_na.fasta
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16 changes: 8 additions & 8 deletions extras/variants/alberta.fasta → ...riants/A:Alberta:01:2020_(H1N2)v_ha.fasta
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>A/Alberta/01/2020_(H1N2)v|EPI_ISL_683998|A_/_H1N2|P1||6B.1|2020-10-01|Bastien_Nathalie||RV16380/20|2020-12-09|Provincial_Laboratory_of_Public_Health_for_Southern_Alberta|Public_Health_Agency_of_Canada_(PHAC)|HA|EPI1815179|
MKAILLVLLHTFAATSADTICVGYHANNSTDTVDTVLEKNVTVTHSVNLLEDKHNGKLCKLRGKAPLYLGKCNIAGWLLG
NPECELPLTVSSWSYIVETSDSDNGTCYPGDFTNYEELREQLSSVSSFERFEMFPKESSWPNHETNKSVTAACPYAGASS
FYRNLIWLVKKDDSYPMLNISYVNNKGKEVLVLWGIHHPPTEDDQKWLYKNADAYVFVGTSTYSQKFEPEIATRPRVRDQ
TGRMNYYWTLVKPGDKITFEATGNLVVPRYAFAMNRGSESGIIISDAPVHDCNTICQTPKGALNTSLPFQNVHPVTIGEC
PKYIKSTRLKMATGLRNTPSIQSRGLFGAIAGFIEGGWTGMVDGWYGYHHQNEQGSGYAADQKSTQRAVDGITNKVNSII
ERMNSQFTAVGKEFSNLERRIENLNKKVDDGFLDVWTYNAELLILLENERTLDFHDSNVKNLYERVRNQLRNNAKEIGNG
CFEFYHKCDNTCMESVKNGTYDYPKYSEESKLNREEIDGVKLDSTKVYQILAIYSTVASSLVVLVSLGALSFWMCSNGSL
>A/Alberta/01/2020_(H1N2)v|EPI_ISL_683998|A_/_H1N2|P1||6B.1|2020-10-01|Bastien_Nathalie||RV16380/20|2020-12-09|Provincial_Laboratory_of_Public_Health_for_Southern_Alberta|Public_Health_Agency_of_Canada_(PHAC)|HA|EPI1815179|
MKAILLVLLHTFAATSADTICVGYHANNSTDTVDTVLEKNVTVTHSVNLLEDKHNGKLCKLRGKAPLYLGKCNIAGWLLG
NPECELPLTVSSWSYIVETSDSDNGTCYPGDFTNYEELREQLSSVSSFERFEMFPKESSWPNHETNKSVTAACPYAGASS
FYRNLIWLVKKDDSYPMLNISYVNNKGKEVLVLWGIHHPPTEDDQKWLYKNADAYVFVGTSTYSQKFEPEIATRPRVRDQ
TGRMNYYWTLVKPGDKITFEATGNLVVPRYAFAMNRGSESGIIISDAPVHDCNTICQTPKGALNTSLPFQNVHPVTIGEC
PKYIKSTRLKMATGLRNTPSIQSRGLFGAIAGFIEGGWTGMVDGWYGYHHQNEQGSGYAADQKSTQRAVDGITNKVNSII
ERMNSQFTAVGKEFSNLERRIENLNKKVDDGFLDVWTYNAELLILLENERTLDFHDSNVKNLYERVRNQLRNNAKEIGNG
CFEFYHKCDNTCMESVKNGTYDYPKYSEESKLNREEIDGVKLDSTKVYQILAIYSTVASSLVVLVSLGALSFWMCSNGSL
QCRICI
7 changes: 7 additions & 0 deletions extras/variants/data/variants/A:Alberta:01:2020_(H1N2)v_na.fasta
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>A/Alberta/01/2020_(H1N2)v|EPI_ISL_683998|A_/_H1N2|P1||6B.1|2020-10-01|Bastien_Nathalie||RV16380/20|2020-12-09|Provincial_Laboratory_of_Public_Health_for_Southern_Alberta|Public_Health_Agency_of_Canada_(PHAC)|NA|EPI1815178|
MNPNQKIITIGSVSLIIATICFLMQIAILVTTVTLHFKQHDCNSSSNNQVMLCEPIIIERNKTEIVYLTNTTVEKEICPK
PAEYRNWSKPQCNIAGFAPFSKDNSIRLSAGGDIWVTREPYVSCDLDKCYQFALGQGTTLNNRHSNDTVHDRTPYRTLLM
NELGVPFHLGTRQVCVAWSSSSCHDGKAWLHVCITGDDNNATASFIYNGRLVDSVVSWSKNILRTQESECVCINGTCTVV
MTDGSASGKADTRILFIVEGKIIHVSKLSGSAQHVEECSCYPRYPGVRCVCRDNWKGSNRPIVDINMKDYSIVSSYVCSG
LVGDTPRKTDSLSSSNCLDPNNEEGDHGVKGWAFDDGDDVWMGRTINETLRLGYETFKVIKGWSKPNSKLQTNRQVIVKG
GNRSGYSGIFSVEGKNCINRCFYVELIRGRREETRVWWTSNSIVVFCGTSGTYGTGSWPDGADINLMPI
25 changes: 9 additions & 16 deletions ...variants/gisaid_epiflu_sequence (2).fasta → ...nts/data/variants/A:Iowa:39:2015_ha.fasta
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>A/Iowa/39/2015|EPI_ISL_194942|A_/_H1N1|Original|unknown|6B.1|2015-08-07|Jang_Yunho|279720_ORIGINAL|3000414071|2015-08-31|Iowa_State_Hygienic_Laboratory|Centers_for_Disease_Control_and_Prevention|HA|EPI638970|
MKAILVVLLYTFTTANADTLCIGYHANNSTDTVDTVLEKNVTVTHSVNLLENRHNGKLCKLRGVAPLHLGKCNIAGWILG
NPECESLSTASSWSYIVETSNSENGTCYPGDFINYEELREQLSSVSSFERFEIFPKTSSWPNHDTNKGVTAACPHSGTNS
FYRNLVWLVQKGNSYPKINKSYINNKENEVLVLWAIHHPSTSADQQSLYKNADAYVFVGSSRYSRKFEPEIATRPKVRDQ
AGRMNYYWTLVEPGDKITFEATGNLVAPRYAFTLKRNSGSGIIISDTSVHDCDTTCQTPNGAINTSLPFQNIHPVTIGEC
PKYVKSTKLRMATGLRNIPSIQSRGLFGAIAGFIEGGWTGMIDGWYGYHHQNEQGSGYAADLKSTQNAIDGITNKVNSVI
EKMNTQFTAVGKEFSHLERRIENLNKKVDDGFLDIWTYNAELLVLLENERTLDYHDSNVKNLYEKVRSQLKNNAKEIGNG
CFEFYHKCDDMCMESVKNGTYDYPKYSEEAKLNREEIDGVKLESTKIYQILAIYSTVASSLVLVVSLGAISFWMCSNGSL
QCRICI
>A/Iowa/39/2015|EPI_ISL_194942|A_/_H1N1|Original|unknown|6B.1|2015-08-07|Jang_Yunho|279720_ORIGINAL|3000414071|2015-08-31|Iowa_State_Hygienic_Laboratory|Centers_for_Disease_Control_and_Prevention|NA|EPI638969|
MNTNQRIITIGTVCMIVGMISLLLQIGSIVSLWISHSIQTGWENHTGVCNQSVITYVNNTWVNRTYVNISNIKIATIQDV
TPIILAGNSSLCPVNGWAVYSKDNSIRIGSKGDIFVIREPFISCSQLECRTFFLTQGALLNDKHSNGTVKDRSPYRTLMS
CPIGEAPSPYNSRFESVAWSASACHDGMGWLTIGISGPDNGAVAVLKYNGIITDTIKSWRNKILRTQESECVCMNGSCFT
VLTDGPSNGQASYKIFKVEKGKIIKSIELDAPNYHYEECSCYPDTGKVMCVCRDNWHASNRPWVSFNQNLDYQIGYICSG
VFGDNPRSTDGKGNCGPVLSNGANGVKGFSYRYGNGVWIGRTKSINSRSGFEMIWDPNGWTETDSSFSMKQDIIALNDYS
GYSGSFVQHPELTGMNCIRPCFWVELIRGQPKESTIWASGSSISFCGVNSETASWSWPDGADLPFAIDK
>A/Iowa/39/2015|EPI_ISL_194942|A_/_H1N1|Original|unknown|6B.1|2015-08-07|Jang_Yunho|279720_ORIGINAL|3000414071|2015-08-31|Iowa_State_Hygienic_Laboratory|Centers_for_Disease_Control_and_Prevention|HA|EPI638970|
MKAILVVLLYTFTTANADTLCIGYHANNSTDTVDTVLEKNVTVTHSVNLLENRHNGKLCKLRGVAPLHLGKCNIAGWILG
NPECESLSTASSWSYIVETSNSENGTCYPGDFINYEELREQLSSVSSFERFEIFPKTSSWPNHDTNKGVTAACPHSGTNS
FYRNLVWLVQKGNSYPKINKSYINNKENEVLVLWAIHHPSTSADQQSLYKNADAYVFVGSSRYSRKFEPEIATRPKVRDQ
AGRMNYYWTLVEPGDKITFEATGNLVAPRYAFTLKRNSGSGIIISDTSVHDCDTTCQTPNGAINTSLPFQNIHPVTIGEC
PKYVKSTKLRMATGLRNIPSIQSRGLFGAIAGFIEGGWTGMIDGWYGYHHQNEQGSGYAADLKSTQNAIDGITNKVNSVI
EKMNTQFTAVGKEFSHLERRIENLNKKVDDGFLDIWTYNAELLVLLENERTLDYHDSNVKNLYEKVRSQLKNNAKEIGNG
CFEFYHKCDDMCMESVKNGTYDYPKYSEEAKLNREEIDGVKLESTKIYQILAIYSTVASSLVLVVSLGAISFWMCSNGSL
QCRICI
7 changes: 7 additions & 0 deletions extras/variants/data/variants/A:Iowa:39:2015_na.fasta
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>A/Iowa/39/2015|EPI_ISL_194942|A_/_H1N1|Original|unknown|6B.1|2015-08-07|Jang_Yunho|279720_ORIGINAL|3000414071|2015-08-31|Iowa_State_Hygienic_Laboratory|Centers_for_Disease_Control_and_Prevention|NA|EPI638969|
MNTNQRIITIGTVCMIVGMISLLLQIGSIVSLWISHSIQTGWENHTGVCNQSVITYVNNTWVNRTYVNISNIKIATIQDV
TPIILAGNSSLCPVNGWAVYSKDNSIRIGSKGDIFVIREPFISCSQLECRTFFLTQGALLNDKHSNGTVKDRSPYRTLMS
CPIGEAPSPYNSRFESVAWSASACHDGMGWLTIGISGPDNGAVAVLKYNGIITDTIKSWRNKILRTQESECVCMNGSCFT
VLTDGPSNGQASYKIFKVEKGKIIKSIELDAPNYHYEECSCYPDTGKVMCVCRDNWHASNRPWVSFNQNLDYQIGYICSG
VFGDNPRSTDGKGNCGPVLSNGANGVKGFSYRYGNGVWIGRTKSINSRSGFEMIWDPNGWTETDSSFSMKQDIIALNDYS
GYSGSFVQHPELTGMNCIRPCFWVELIRGQPKESTIWASGSSISFCGVNSETASWSWPDGADLPFAIDK
9 changes: 9 additions & 0 deletions extras/variants/data/variants/A:Minnesota:19:2011_ha.fasta
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>A/Minnesota/19/2011|EPI_ISL_100477|A_/_H1N2|E1||6B.1A.5b|2011-11-04|Garten_Kondor_Rebecca|2011300231_ORIGINAL|2012701623|2012-01-09|Minnesota_Department_of_Health|Centers_for_Disease_Control_and_Prevention|HA|EPI347610|
MKVKLLTLFCTFTATYADTICIGYHANNSTDTVDTVLEKNVTVTHSVNLLEDSHNGKLCLLKGIAPLQLGNCSVAGWILG
NPECESLISKKSWSYIVETPNPENGACYPGEFADYEELREQLSSVSSFERFEIFPKESSWPNHTATGVSASCSHNGERSF
YRNLIWLTVKNGLYPNLSKSYENDKEKEVLILWGVHHPPNIENQRTLYHTENAYVSVVSSHYSGRFTPEITKRPKVRDQE
GRINYYWTLLEPGDTIIFEANGNLIAPWYAFTLSRGLGSGIITSNAPMDECDSKCQTPQGAINSSLPFQNVHPVTIGECP
KYVRSAKLRMVTGLRNIPSIQSRGLFGAIAGFIEGGWTGMVDGWYGYHHQNEQGSGYAADQESTQNAINGITNKVNSVIE
KMNTQFTAVGKEFNKLERRMENLNKKVDDGFLDIWTYNAELLVLLENERTLDFHDSNVKSLYEKVKSQLKNNAKEIGNGC
FEFYHKCNNECMESVKNGTYDYPKYYEESKLNREKIDGVKLDSMGVYRILAIYSTVASSLVLLVSLGAISFWMCSNGSLQ
CRICI
7 changes: 7 additions & 0 deletions extras/variants/data/variants/A:Minnesota:19:2011_na.fasta
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>A/Minnesota/19/2011|EPI_ISL_100477|A_/_H1N2|E1||6B.1A.5b|2011-11-04|Garten_Kondor_Rebecca|2011300231_ORIGINAL|2012701623|2012-01-09|Minnesota_Department_of_Health|Centers_for_Disease_Control_and_Prevention|NA|EPI347609|
MNPNQKIITIGSVSLIIATICFLMQIAILVTTVTLHFKQHDYNSPPNNQAMLCEPTIIERNTTEIVYLTNITIEKEICPK
LAEYRNWSKPQCNITGFAPFSKDNSIRLSAGGDIWVTREPYVSCDPDKCYQFALGQGTTLNNGHSNNTVHDRTPYRTLLM
NELGVPFHLGTRQVCMAWSSSSCHDGKAWLHVCITGNDNNATASFIYNGRLVDSIGSWSKNILRTQESECVCINGTCTVV
MTDGSASGKADTKILFVEEGKIVHISTLSGSAQHVEECSCYPRFPGVRCVCRDNWKGSNRPIVDINVKNYSIVSSYVCSG
LVGDTPRKGDSVSNSYCLDPNNEKGGHGVKGWAFDDGNDVWMGRTINETLRLGYETFKVIEGWSKANSKLQTNRQVIVEK
GDRSGYSGIFSVEGKSCINRCFYVELIRGRKEETKVWWTSNSIVVFCGTSGTYGTGSWPDGADINLMPI
9 changes: 9 additions & 0 deletions extras/variants/data/variants/A:Minnesota:45:2016_ha.fasta
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>A/Minnesota/45/2016|EPI_ISL_221825|A_/_H1N2|C1||6B.1|2016-03-29|Jang_Yunho|2016306831_ORIGINAL|3000478102|2016-05-24|Minnesota_Department_of_Health|Centers_for_Disease_Control_and_Prevention|HA|EPI760602|
MKAILLVLLHTFAAANADTICIGYHANNSTDTVDTVLEKNVTVTHSVNLLEDKHNGKLCKLGGKAPLYLGKCNIAGWLLG
NPECESILTVSSWSYIVETSNSDNGTCYPGSFTNYEELREQLSSVSSFEKFEIFPIESSWPNHKTGVTASCPDAGASSFY
RNLMWLVKKGDSYPRLNISYVNNKRKEVLVLWGIHHPPTGNDQQWLYQNANASVFVGTSTYSQEFKPEIATRPKVRGQTG
RMNYYWTLVEPGDTITFEATGNLVVPKYAFAMNRGSGSGIIVSDAPIHDCNTTCQTPKGALNTSLPFQNVHPVTIGECPK
YVKSTKLKMATGLRNIPSIQSRGLFGAIAGFIEGGWTGMIDGWYGYHHQNDQGSGYAADQKSTQRAIDGITNKVNSVIEK
MNTQFTAVGKEFNSLERRIENLNRKVDDGFLDVWTYNAELLILLENERTLDFHDSNVKNLYEKVRNQLRNNAKEIGNGCF
EFYHKCDNTCMESVKNGTYNYLKYSEESKLNREEIDGVKLDSTRVYQILAIYSTVASSLVLLVSLGALSFWMCSNGSLQC
RICI
7 changes: 7 additions & 0 deletions extras/variants/data/variants/A:Minnesota:45:2016_na.fasta
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>A/Minnesota/45/2016|EPI_ISL_221825|A_/_H1N2|C1||6B.1|2016-03-29|Jang_Yunho|2016306831_ORIGINAL|3000478102|2016-05-24|Minnesota_Department_of_Health|Centers_for_Disease_Control_and_Prevention|NA|EPI760601|
MNPNQKIITIGSASLIIATICFLMQVAILVTTVTLHFKQHDCNSSPNNQVMLCEPTIIERNKTEIVYLTNTTVEKEICPK
PAEYRNWSKPQCNIAGFAPFSKDNSIRLSAGGDIWVTREPYVSCDLDKCYQFALGQGTTLNNGHSNDTVHDRTPYRTLLM
NELGVPFHLGTRQVCIAWSSSSCHDGKAWLHVCITGDDENATASFIYNGRLVDSIGSWSKNILRTQESECVCINGTCTVV
MTDGSASGKADTRILFIVEGKIIHVSKLSGSAQHVEECSCYPRYPGVRCICRDNWKGSNRPIVDINVKDYSIVSSYVCSG
LVGDTPRKNDRLSSSHCLDPNNEKGGHGVKGWAFDDGDDLWMGRTINETLRLGYETFKVIKGWSQPNSKLQTNRQVIVEK
GNRSGYSGIFSVEGKNCINRCFYVELIRGRKEETRVWWTSNSIVVFCGTSGTYGTGSWPDGADINLMPI
9 changes: 9 additions & 0 deletions extras/variants/data/variants/A:New Jersey:8:1976_ha.fasta
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>A/New_Jersey/8/1976|EPI_ISL_132867|A_/_H1N1||unknown|6B.1|1976-01-01|||||||HA|EPI408003|AGB51356
MKAILLVLLCTFAATNADTLCIGYHANNSTDTVDTVLEKNVTVTHSVNLLEDRHNGKLCKLGGIAPLHLGKCNIAGWLLG
NPECELLLTVSSWSYIVETSNSDNGTCYPGDFINYEELREQLSSVSSFERFEIFPKTSSWPNHETNRGVTAACPYAGANS
FYRNLIWLVEKGNSYPKLSKSYVNNKGKEVLVLWGIHHPPTSTDQQSLYQNADAYVFVGSSKYNRKFKPEIAARPKVRGQ
AGRMNYYWTLIEPGDTITFEATGNLVVPRYAFAMNRGSGSGIIISDAPVHDCNTKCQTPKGAINTSLPFQNIHPVTIGEC
PKYVKSTKLRMATGLRNIPSIQSRGLFGAIAGFIEGGWTGMIDGWYGYHHQNEQGSGYAADQRSTQNAIDGITNKVNSVI
EKMNTQFTAVGKEFNHLEKRIENLNKKVDDGFLDIWTYNAELLVLLENERTLDFHDSNVKNLYEKVRSQLRNNAKEIGNG
CFEFYHKCDDTCMESVKNGTYDYPKYSEESKLNREEIDGVKLESTRIYQILAIYSTVASSLVLLVSLGAISFWMCSNGSL
QCRICI
7 changes: 7 additions & 0 deletions extras/variants/data/variants/A:New Jersey:8:1976_na.fasta
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>A/New_Jersey/8/1976|EPI_ISL_132867|A_/_H1N1||unknown|6B.1|1976-01-01|||||||NA|EPI408005|AGB51359
MNTNQRIITIGTICLIVGIISLLLQIGNIILLWMSHSIQTGEKSHPKVCNQSVITYENNTWVNQTYVNISNTNIAAGQGV
TPIILAGNSSLCPISGWAIYSKDNSIRIGSKGDIFVMREPFISCSHLECRTFFLTQGALLNDRHSNGTVKDRSPYRTLMS
CPIGEAPSPYNSRFESVAWSASACHDGMGWLTIGISGPDNGAVAVLKYNGIITDTIKSWRNKILRTQESECVCINGSCFT
IMTDGPSNGQASYKLFKMEKGKIIRSIELDAPNYHYEECSCYPDTGKVVCVCRDNWHASNRPWVSFDQNLDYQIGYICSG
VFGDNPRSNDGKGNCGPVLSNGANGVKGFSFRYGNGVWIGRTKSISSRSGFEMIWDPNGWTETDSSFSMKQDIIALTDWS
GYSGSFVQHPELTGMNCIRPCFWVELIRGQPKESTIWTSGSSISFCGVNSGTASWSWPDGADLPFTIDK
9 changes: 9 additions & 0 deletions extras/variants/data/variants/A:Ohio:02:2007_ha.fasta
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>A/Ohio/02/2007|EPI_ISL_30054|A_/_H1N1|Original|unknown|6B.1|2007-08-17|Garten_Kondor_Rebecca|07066303_ORIGINAL|2007731642|2011-10-07|Ohio_Department_of_Health_Laboratories|Centers_for_Disease_Control_and_Prevention|HA|EPI178949|
MKAILVVLLYTFTTANADTLCIGYHANNSTDTVDTVLEKNVTVTHSVNLLENRHNGKLCKLRGVAPLHLGKCNIAGWLLG
NPECESLSTASSWSYIVETSNSDNGTCYPGDFINYEELREQLSSVSSFERFEIFPKTSSWPNHDTNRGVTAACPHAGTNS
FYRNLIWLVKKGNSYPKINKSYINNKEKEVLVLWAIHHPSTSADQQSLYQNADAYVFVGSSRYSRKFEPEIATRPKVRDQ
AGRMNYYWTLVEPGDKITFEATGNLVVPRYAFALKRNSGSGIIISDTSVHDCDTTCQTPNGAINTSLPFQNIHPVTIGEC
PKYVKSTKLRMATGLRNIPSIQSRGLFGAIAGFIEGGWTGMIDGWYGYHHQNEQGSGYAADLKSTQNAIDGITNKVNSVI
EKMNTQFTAVGKEFSHLERRIENLNKKVDDGFLDIWTYNAELLVLLENERTLDYHDSNVKNLYEKVRSQLKNNAKEIGNG
CFEFYHKCDDTCMESVKNGTYDYPKYSEEAKLNREEIDGVKLESTRIYQILAIYSTVASSLVLVVSLGAISFWMCSNGSL
QCRICI
7 changes: 7 additions & 0 deletions extras/variants/data/variants/A:Ohio:02:2007_na.fasta
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>A/Ohio/02/2007|EPI_ISL_30054|A_/_H1N1|Original|unknown|6B.1|2007-08-17|Garten_Kondor_Rebecca|07066303_ORIGINAL|2007731642|2011-10-07|Ohio_Department_of_Health_Laboratories|Centers_for_Disease_Control_and_Prevention|NA|EPI338828|
MNTNQRIITIGTVCLIVGIVSLLLQIGNIVSLWINHSIQTGKRNHPETCSQNVITYENNTWVNQTYVNISNTNIVDGQGV
TSIILAGNSSLCPISGWAIYSKDNSIRIGSKGDIFVIREPFISCSHLECRTFFLTQGALLNDRHSNGTVKDRSPYRTLMS
CPIGEAPSPYNSRFESVAWSASACHDGMGWLTIGISGPDNGAVAVLKYNGIITDTIKSWRNKILRTQESECVCINGSCFT
IMTDGPSNGQASYKIFKMEKGKIIKSVELDAPNYHYEECSCYPDTGKVVCVCRDNWHASNRPWVTFDQNLNYQIGYICSG
VFGDNPRSNDGKGNCGPVPSNGANGVKGFSFRYGNGVWIGRTKSISSRSGFEMIWDPNGWTETDSSFSIKQDIIALTDWS
GYSGSFVQHPELTGMNCIKPCFWVELIRGQPKESTIWTSGSSISFCGVDSETVSWSWPDGAD
9 changes: 9 additions & 0 deletions extras/variants/data/variants/A:Ohio:09:2015_ha.fasta
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>A/Ohio/09/2015|EPI_ISL_179404|A_/_H1N1|C1|unknown|6B.1|2015-04-21|Garten_Kondor_Rebecca|2015005982|3000384932|2015-05-21|Ohio_Department_of_Health_Laboratories|Centers_for_Disease_Control_and_Prevention|HA|EPI590132|
MKAILIVLLYTFTTANADKICIGYHANNSTDTVDTVLEKNVTVTHSVNLLENKHNGKLCKLRGVAPLHLGKCNIAGWLLG
NPECESLATASSWSYIVETSSSNNGTCYPGDFINYEELREQLSSVSSFEKFEIFPKTSSWPNHETNKGVTAACPHAGTNS
FYKNLIWLVKKENSYPKINISYTNNRGKEVLVLWAIHHPPTSTDQQSLYQNANSYVFVGSSRYSRKFEPEIATRPKVRGQ
AGRMNYYWTLVEPGDKITFEATGNLVVPRYAFALKRNSGSGIIISETPVHDCDTTCQTPNGAINTSLPFQNIHPVTIGEC
PKYVKSTKLRMATGLRNIPSIQSRGLFGAIAGFIEGGWTGMIDGWYGYHHQNEQGSGYAADLKSTQNAIDGITNKVNSVI
EKMNTQFTAVGKEFSHLERRIENLNKKVDDGFIDIWTYNAELLVLLENERTLDYHDSNVKTLYEKVRSQLKNNAKEIGNG
CFEFYHKCDDTCMESVKNGTYDYPKYSEEAKLNREEIDGIKLESTRIYQILAIYSTVASSLVLVVSLGAISFWMCSNGSL
QCRVCI
7 changes: 7 additions & 0 deletions extras/variants/data/variants/A:Ohio:09:2015_na.fasta
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>A/Ohio/09/2015|EPI_ISL_179404|A_/_H1N1|C1|unknown|6B.1|2015-04-21|Garten_Kondor_Rebecca|2015005982|3000384932|2015-05-21|Ohio_Department_of_Health_Laboratories|Centers_for_Disease_Control_and_Prevention|NA|EPI590131|
MNANQRIITIGTVCLIIGIISLLLQIGNMVSLWISHSIQTGGKNHTEMCNQNVITYVNNTWVNRTYVNISNTKIVNVQDV
VSVILTGNSSLCSISGWAIYSKDNSIRIGSKGDIFVIREPFISCSHLECRTFFLTQGALLNDKHSNGTVKDRSPYRTLMS
CPIGEAPSPYNSRFESVAWSASACHDGIGWLTIGISGPDNGAVAVLKYNGIITDTIKSWRNKILRTQESECVCMNGSCFA
VLTDGPSNGQASYKIFKVKQGKIIKSIELDAPNYHYEECSCYPDAGKVMCVCRDNWHASNRPWVSFDQDLNYQIGYICSG
VFGDNPRSNDGKGNCGPVHSNGANGVKGFSYRYGNGVWIGRTKSIHSRSGFEMIWDPNGWTGTDSSFSMKQDIIALTDWS
GYSGSFVQHPELTGMNCIRPCFWVELIRGQPKENTIWASGSSISFCGVNGETASWSWPDGADLPFTIDK
25 changes: 9 additions & 16 deletions ...as/variants/gisaid_epiflu_sequence1.fasta → ...nts/data/variants/A:Ohio:24:2017_ha.fasta
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@@ -1,16 +1,9 @@
>A/Ohio/24/2017|EPI_ISL_277243|A_/_H1N2|Original||6B.1|2017-07-25|Jang_Yunho|2017011225_ORIGINAL|3000484122|2017-09-06|Ohio_Department_of_Health_Laboratories|Centers_for_Disease_Control_and_Prevention|HA|EPI1056725|
MKAILLVLLHTFAAANADTICIGYHANNSTDTVDTVLEKNVTVTHSVNLLEDKHNGKLCKLGGKAPLYLGKCNIAGWLLG
NPECESILTVSSWSYIVETSNSDNGTCYPGSFTNYEELREQLSSVSSFEKFEIFPIESSWPNHKTGVTASCPDAGASSFY
RNLIWLVKKGNSYPRLNISYVNNKRKEVLVLWGIHHPPTGNDQQWLYQNANASVFVGTSTYSQEFKPEIATRPKVRGQTG
RMNYYWTLVEPGDTITFEATGNLVVPKYAFAMNRGSGSGIIVSDAPIHDCNTTCQTPKGALNTSLPFQNVHPVTIGECPK
YVKSTKLKMATGLRNIPSIQSRGLFGAIAGFIEGGWTGMIDGWYGYHHQNDQGSGYAADQKSTQRAIDGITNKVNSVIEK
MNTQFTAVGKEFNSLERRIENLNRKVDDGFLDVWTYNAELLILLENERTLDFHDSNVKNLYEKVRNQLKNNAKEIGNGCF
EFYHKCDNTCMESVKNGTYNYLKYSEESKLNREEIDGVKLDSTRVYQILAIYSTVASSLVLLVSLGALSFWMCSNGSLQC
RICI
>A/Ohio/24/2017|EPI_ISL_277243|A_/_H1N2|Original||6B.1|2017-07-25|Jang_Yunho|2017011225_ORIGINAL|3000484122|2017-09-06|Ohio_Department_of_Health_Laboratories|Centers_for_Disease_Control_and_Prevention|NA|EPI1056724|
MNPNQKIITIGSASLIIATICFLMQVAILVTTVTLHFKQHDCNPSPNNQVMLCEPTVIERNKTEIVYLTNTTVEKEICPK
PAEYRNWSKPQCNIAGFAPFSKDNSIRLSAGGDIWVTREPYVSCDLDKCYQFALGQGTTLNNGHSNDTVHDRTPYRTLLM
NELGVPFHLGTRQVCIAWSSSSCHDGKAWLHVCITGDDENATASFIYNGRLVDSIGSWSKNILRTQESECVCINGTCTVV
MTDGSASGKADTRILFIVEGKIIHVSKLSGSAQHVEECSCYPRYPGVRCICRDNWKGSNRPIVDINVKDYSIVSSYVCSG
LVGDTPRKNDRLSSSHCLDPNNEKGGHGVKGWAFDDGDDVWMGRTINETLRLGYETFKVIKGWSQPNSKLQTNRQVIVEK
GNRSGYSGIFSVEGKNCINRCFYVELIRGRKEETRVWWTSNSIVVFCGTSGTYGTGSWPDGADINLMPI
>A/Ohio/24/2017|EPI_ISL_277243|A_/_H1N2|Original||6B.1|2017-07-25|Jang_Yunho|2017011225_ORIGINAL|3000484122|2017-09-06|Ohio_Department_of_Health_Laboratories|Centers_for_Disease_Control_and_Prevention|HA|EPI1056725|
MKAILLVLLHTFAAANADTICIGYHANNSTDTVDTVLEKNVTVTHSVNLLEDKHNGKLCKLGGKAPLYLGKCNIAGWLLG
NPECESILTVSSWSYIVETSNSDNGTCYPGSFTNYEELREQLSSVSSFEKFEIFPIESSWPNHKTGVTASCPDAGASSFY
RNLIWLVKKGNSYPRLNISYVNNKRKEVLVLWGIHHPPTGNDQQWLYQNANASVFVGTSTYSQEFKPEIATRPKVRGQTG
RMNYYWTLVEPGDTITFEATGNLVVPKYAFAMNRGSGSGIIVSDAPIHDCNTTCQTPKGALNTSLPFQNVHPVTIGECPK
YVKSTKLKMATGLRNIPSIQSRGLFGAIAGFIEGGWTGMIDGWYGYHHQNDQGSGYAADQKSTQRAIDGITNKVNSVIEK
MNTQFTAVGKEFNSLERRIENLNRKVDDGFLDVWTYNAELLILLENERTLDFHDSNVKNLYEKVRNQLKNNAKEIGNGCF
EFYHKCDNTCMESVKNGTYNYLKYSEESKLNREEIDGVKLDSTRVYQILAIYSTVASSLVLLVSLGALSFWMCSNGSLQC
RICI
7 changes: 7 additions & 0 deletions extras/variants/data/variants/A:Ohio:24:2017_na.fasta
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@@ -0,0 +1,7 @@
>A/Ohio/24/2017|EPI_ISL_277243|A_/_H1N2|Original||6B.1|2017-07-25|Jang_Yunho|2017011225_ORIGINAL|3000484122|2017-09-06|Ohio_Department_of_Health_Laboratories|Centers_for_Disease_Control_and_Prevention|NA|EPI1056724|
MNPNQKIITIGSASLIIATICFLMQVAILVTTVTLHFKQHDCNPSPNNQVMLCEPTVIERNKTEIVYLTNTTVEKEICPK
PAEYRNWSKPQCNIAGFAPFSKDNSIRLSAGGDIWVTREPYVSCDLDKCYQFALGQGTTLNNGHSNDTVHDRTPYRTLLM
NELGVPFHLGTRQVCIAWSSSSCHDGKAWLHVCITGDDENATASFIYNGRLVDSIGSWSKNILRTQESECVCINGTCTVV
MTDGSASGKADTRILFIVEGKIIHVSKLSGSAQHVEECSCYPRYPGVRCICRDNWKGSNRPIVDINVKDYSIVSSYVCSG
LVGDTPRKNDRLSSSHCLDPNNEKGGHGVKGWAFDDGDDVWMGRTINETLRLGYETFKVIKGWSQPNSKLQTNRQVIVEK
GNRSGYSGIFSVEGKNCINRCFYVELIRGRKEETRVWWTSNSIVVFCGTSGTYGTGSWPDGADINLMPI
25 changes: 9 additions & 16 deletions ...variants/gisaid_epiflu_sequence (3).fasta → .../data/variants/A:Parana:720:2015_ha.fasta
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@@ -1,16 +1,9 @@
>A/Parana/720/2015|EPI_ISL_223342|A_/_H1N2|original||6B.1|2015-11-27|Resende_Silva_Paola_Cristina|6662/15|A/PR/720/2015|2016-09-01|Laborat?rio_Central_do_Estado_do_Paran?_-_LACEN/PR|Instituto_Oswaldo_Cruz_FIOCRUZ_-_Laboratory_of_Respiratory_Viruses_and_Measles_(LVRS)|HA|EPI768456|
MKIKLLILLCTFTATYADTICTGYHANNSTDTVDTVLEKNVTVTHSVNLLEDSHNGKLCILKGIAPLQLGNCSVAGWILG
NPECESLISKESWSYIVEKPNPENGTCYPGYFADYEELREQLSSVSSFERFEIFPRESSWPNHNVTGVSASCSYNGKRNF
YKNLLWITSKNGLYPNLSKSYTNNKEKEVLILWGVHHPSNIGDQRTLYHTENAYVSVVSSHYGRRFAPEIIKRPKVRDQE
GRINYYWTLLEPGDTIIFEANGNLIAPWYAFALSRGLGSGIITSNAPMDECETKCQTPRGAINSSLPFQNVHPVTIGECP
KYVRSAKLRMVTGLRNIPSIQSRGLFGAIAGFIEGGWTGMIDGWYGYHHQNEQGSGYAADKKSTQTAINGITNKVNSVIE
KMNTQFTAVGKEFNNLERRMENLNKKVDDGFLDIWTYNAELLVLLENERTLDFHDSNVKNLYEKIKNQLKNNAKEIGNGC
FEFYHKCNNECMESVKNGTYDYPKYSEESRLNREKIDGVKLESMGVYQILAIYSTVASSLVLLVSLGAISFWMCSNGSLQ
CRICI
>A/Parana/720/2015|EPI_ISL_223342|A_/_H1N2|original||6B.1|2015-11-27|Resende_Silva_Paola_Cristina|6662/15|A/PR/720/2015|2016-09-01|Laborat?rio_Central_do_Estado_do_Paran?_-_LACEN/PR|Instituto_Oswaldo_Cruz_FIOCRUZ_-_Laboratory_of_Respiratory_Viruses_and_Measles_(LVRS)|NA|EPI768455|
MNPNQKIITIGSISLTIALMCFLMQVVILVTTVTLHFKQYECNPAPNNQVMLCEPTVIERNITKIVYLTNTTVEKEICPK
PVEYRNWSKPQCKITGFAPFSKDNSIRLSAGGDIWVTREPYVSCAPNKCYQFALGQGTTLNNRHSNDTVHDRTPYRTLLM
NELGIPFHLGTKQVCIAWSSSSCHDGKAWLHVCITGHDTNATASFIYDGRLVDSIGSWSKNILRTQESECVCINGTCTVV
MTDGSASGRADTKILFIKEGKIIHISQLSGSAQHVEECSCFPRYPGVRCVCRDNWKGSNRPIVDINVRDYSITSSYVCSG
LVGDTPRKNDSFSSSHCLNPNNEEGGHGVKGWAFDDGEDVWMGRTISEKLRSGYETFKVIKGWSKPNSKLQINRQVIVDR
DNRSGYSGIFSVEGKNCINRCFYVELIRGRKQETEVWWTSNSIVVFCGTSGTYGTGSWPDGADLNLMPI
>A/Parana/720/2015|EPI_ISL_223342|A_/_H1N2|original||6B.1|2015-11-27|Resende_Silva_Paola_Cristina|6662/15|A/PR/720/2015|2016-09-01|Laborat?rio_Central_do_Estado_do_Paran?_-_LACEN/PR|Instituto_Oswaldo_Cruz_FIOCRUZ_-_Laboratory_of_Respiratory_Viruses_and_Measles_(LVRS)|HA|EPI768456|
MKIKLLILLCTFTATYADTICTGYHANNSTDTVDTVLEKNVTVTHSVNLLEDSHNGKLCILKGIAPLQLGNCSVAGWILG
NPECESLISKESWSYIVEKPNPENGTCYPGYFADYEELREQLSSVSSFERFEIFPRESSWPNHNVTGVSASCSYNGKRNF
YKNLLWITSKNGLYPNLSKSYTNNKEKEVLILWGVHHPSNIGDQRTLYHTENAYVSVVSSHYGRRFAPEIIKRPKVRDQE
GRINYYWTLLEPGDTIIFEANGNLIAPWYAFALSRGLGSGIITSNAPMDECETKCQTPRGAINSSLPFQNVHPVTIGECP
KYVRSAKLRMVTGLRNIPSIQSRGLFGAIAGFIEGGWTGMIDGWYGYHHQNEQGSGYAADKKSTQTAINGITNKVNSVIE
KMNTQFTAVGKEFNNLERRMENLNKKVDDGFLDIWTYNAELLVLLENERTLDFHDSNVKNLYEKIKNQLKNNAKEIGNGC
FEFYHKCNNECMESVKNGTYDYPKYSEESRLNREKIDGVKLESMGVYQILAIYSTVASSLVLLVSLGAISFWMCSNGSLQ
CRICI
7 changes: 7 additions & 0 deletions extras/variants/data/variants/A:Parana:720:2015_na.fasta
View file
Original file line number Diff line number Diff line change
@@ -0,0 +1,7 @@
>A/Parana/720/2015|EPI_ISL_223342|A_/_H1N2|original||6B.1|2015-11-27|Resende_Silva_Paola_Cristina|6662/15|A/PR/720/2015|2016-09-01|Laborat?rio_Central_do_Estado_do_Paran?_-_LACEN/PR|Instituto_Oswaldo_Cruz_FIOCRUZ_-_Laboratory_of_Respiratory_Viruses_and_Measles_(LVRS)|NA|EPI768455|
MNPNQKIITIGSISLTIALMCFLMQVVILVTTVTLHFKQYECNPAPNNQVMLCEPTVIERNITKIVYLTNTTVEKEICPK
PVEYRNWSKPQCKITGFAPFSKDNSIRLSAGGDIWVTREPYVSCAPNKCYQFALGQGTTLNNRHSNDTVHDRTPYRTLLM
NELGIPFHLGTKQVCIAWSSSSCHDGKAWLHVCITGHDTNATASFIYDGRLVDSIGSWSKNILRTQESECVCINGTCTVV
MTDGSASGRADTKILFIKEGKIIHISQLSGSAQHVEECSCFPRYPGVRCVCRDNWKGSNRPIVDINVRDYSITSSYVCSG
LVGDTPRKNDSFSSSHCLNPNNEEGGHGVKGWAFDDGEDVWMGRTISEKLRSGYETFKVIKGWSKPNSKLQINRQVIVDR
DNRSGYSGIFSVEGKNCINRCFYVELIRGRKQETEVWWTSNSIVVFCGTSGTYGTGSWPDGADLNLMPI
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