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Add h5n1 dataset
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‎.gitignore‎

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\.env
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\.vscode
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/docs/tmp/
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.venv

‎data/nextstrain/flu/h5n1/seg1/PB2.fasta‎

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MERIKELRDLMSQSRTREILTKTTVDHMAIIKKYTSGRQEKNPALRMKWMMAMKYPITADKRIMEMIPERNEQGQTLWSKTNDAGSDRVMVSPLAVTWWNRNGPTTSTVHYPKVYKTYFEKVERLKHGTFGPVHFRNQVKIRRRVDINPGHADLSAKEAQDVIMEVVFPNEVGARILTSESQLTITKEKKEELQDCKIAPLMVAYMLERELVRKTRFLPVAGGTSSVYIEVLHLTQGTCWEQMYTPGGEVRNDDVDQSLIIAARNIVRRATVSADPLASLLEMCHSTQIGGIRMVDILRQNPTEEQAVDICKAAMGLRISSSFSFGGFTFKRTNGSSVKKEEEVLTGNLQTLKIKVHEGYEEFTMVGRRATAILRKATRRLIQLIVSGRDEQSIAEAIIVAMVFSQEDCMIKAVRGDLNFVNRANQRLNPMHQLLRHFQKDAKVLFQNWGIEPIDNVMGMIGILPDMTPSAEMSLRGVRVSKMGVDEYSSTERVVVSIDRFLRVRDQQGNVLLSPEEVSETQGTEKLTITYSSSMMWEINGPESVLVNTYQWIIRNWETVKIQWSQDPTMLYNKMEFESFQSLVPKAARSQYSGFVRTLFQQMRDVLGTFDTVQIIKLLPFAAAPPEPSRMQFSSLTVNVRGSGMRILVRGNSPVFNYNKATKRLTVLGKDAGALTEDPDEGTAGVESAVLRGFLILGREDKRYGPALSINELSNLAKGEKANVLIMQGDVVLVMKRKRDFSILTDSQTATKRIRMAIN

‎data/nextstrain/flu/h5n1/seg1/README.md‎

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Influenza A/H5N1 dataset using [GCF_000864105.1](https://www.ncbi.nlm.nih.gov/datasets/genome/GCF_000864105.1/) as the reference

‎data/nextstrain/flu/h5n1/seg1/genome_annotation.gff3‎

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. . CDS 28 2307 . + . gene="PB2"

‎data/nextstrain/flu/h5n1/seg1/pathogen.json‎

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{
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"schemaVersion": "3.0.0",
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"attributes": {
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"name": "Influenza A/H5N1 (segment 1/PB2)",
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"reference name": "Influenza A virus (A/Goose/Guangdong/1/96(H5N1)) polymerase (PB2) gene, complete cds",
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"reference accession": "NC_007357.1"
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},
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"files": {
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"reference": "reference.fasta",
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"pathogenJson": "pathogen.json",
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"genomeAnnotation": "genome_annotation.gff3",
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"readme": "README.md"
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}
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}

‎data/nextstrain/flu/h5n1/seg1/reference.fasta‎

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>NC_007357.1 Influenza A virus (A/Goose/Guangdong/1/96(H5N1)) polymerase (PB2) gene, complete cds
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AGCAAAAGCAGGTCAATTATATTCAATATGGAAAGAATAAAAGAACTAAGAGATCTAATGTCGCAGTCCC
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GCACTCGCGAGATACTAACAAAAACCACTGTGGATCATATGGCCATAATCAAGAAATACACATCAGGAAG
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ACAAGAGAAGAACCCTGCTCTCAGAATGAAATGGATGATGGCAATGAAATATCCAATCACAGCAGACAAG
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AGAATAATGGAGATGATTCCTGAAAGGAATGAGCAAGGACAAACGCTTTGGAGCAAGACAAATGATGCTG
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GGTCGGACAGAGTGATGGTGTCTCCCCTAGCTGTAACTTGGTGGAACAGGAATGGGCCGACAACAAGTAC
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AGTCCATTATCCAAAGGTTTACAAAACATACTTTGAGAAGGTTGAAAGGTTAAAACATGGAACCTTCGGT
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CCCGTTCATTTCCGAAACCAAGTTAAAATACGTCGCCGGGTGGATATAAACCCGGGCCATGCAGATCTCA
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GTGCTAAAGAAGCACAAGATGTTATCATGGAGGTCGTTTTCCCAAATGAAGTGGGAGCTAGAATATTGAC
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ATCAGAGTCGCAATTGACAATAACAAAAGAGAAGAAAGAAGAGCTCCAGGATTGTAAAATTGCTCCTTTA
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ATGGTGGCATACATGTTGGAAAGAGAACTGGTCCGCAAAACCAGATTTCTACCGGTAGCAGGCGGAACAA
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GCAGTGTGTACATTGAGGTATTGCATTTGACTCAAGGGACCTGTTGGGAACAGATGTACACTCCCGGCGG
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AGAAGTAAGAAATGATGATGTTGACCAGAGTTTGATCATCGCTGCCAGAAACATTGTTAGGAGAGCAACA
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GTATCAGCGGACCCACTGGCATCACTCTTGGAGATGTGTCACAGCACACAAATTGGGGGAATAAGGATGG
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TGGACATCCTTAGGCAAAACCCAACTGAGGAGCAAGCTGTGGATATATGCAAAGCAGCAATGGGTTTGAG
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GATCAGTTCATCCTTTAGCTTTGGAGGCTTCACTTTCAAAAGAACAAATGGATCATCCGTCAAGAAGGAA
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GAGGAAGTGCTTACAGGCAACCTCCAAACATTGAAAATAAAAGTACATGAGGGGTATGAAGAATTCACAA
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TGGTTGGGCGGAGAGCAACAGCTATCCTGAGGAAAGCAACTAGAAGGCTGATTCAGTTGATAGTAAGTGG
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AAGAGATGAACAATCAATCGCTGAAGCGATCATTGTAGCAATGGTGTTCTCACAGGAGGATTGCATGATA
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AAGGCAGTCCGAGGCGATCTGAATTTCGTGAACAGAGCAAACCAAAGATTGAACCCCATGCATCAACTCC
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TGAGGCACTTCCAAAAAGATGCAAAAGTGCTGTTTCAGAACTGGGGAATTGAACCTATTGACAATGTCAT
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GGGGATGATCGGAATATTACCTGACATGACTCCAAGCGCAGAGATGTCACTGAGAGGAGTGAGAGTTAGT
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AAGATGGGAGTAGATGAATATTCCAGCACGGAGAGAGTGGTGGTGAGTATTGACCGTTTCTTGAGGGTCC
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GAGATCAGCAGGGGAACGTACTCTTATCTCCTGAAGAGGTTAGTGAAACACAGGGAACAGAGAAGTTGAC
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AATAACATATTCATCCTCAATGATGTGGGAAATCAACGGTCCTGAGTCAGTGCTTGTTAACACTTATCAA
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TGGATCATCAGGAATTGGGAGACTGTAAAGATTCAATGGTCTCAAGATCCCACAATGCTGTACAATAAGA
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TGGAGTTTGAATCGTTCCAATCCTTGGTGCCAAAGGCTGCCAGAAGCCAATATAGTGGATTTGTGAGAAC
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ACTATTCCAACAGATGCGTGATGTTTTGGGGACATTTGATACTGTCCAAATAATCAAGCTGCTACCATTT
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GCAGCAGCCCCACCGGAGCCGAGCAGAATGCAGTTTTCTTCTCTAACTGTGAATGTGAGAGGCTCAGGAA
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TGAGAATACTCGTGAGGGGTAACTCCCCCGTGTTCAACTACAACAAGGCAACCAAAAGGCTTACAGTCCT
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CGGAAAGGACGCAGGTGCATTAACAGAAGATCCAGACGAGGGAACAGCCGGGGTGGAATCTGCAGTATTG
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AGGGGATTCCTAATTCTAGGCAGAGAGGACAAAAGATATGGACCCGCATTGAGCATCAATGAACTGAGCA
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ATCTTGCAAAAGGGGAGAAGGCTAATGTATTGATAATGCAAGGAGACGTGGTGTTGGTAATGAAACGGAA
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ACGGGACTTTAGCATACTTACTGACAGCCAGACAGCGACCAAAAGAATTCGGATGGCCATCAATTAGTGT
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TGAATAGTTTAAAAACGACCTTGTTTCTACT

‎data/nextstrain/flu/h5n1/seg2/PB1.fasta‎

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MDVNPTLLFLKVPAQNAISTTFPYTGDPPYSHGTGTGYTMDTVNRTHQYSEKGKWTTNTETGAPQLNPIDGPLPEDNEPSGYAQTDCVLEAMAFLEESHPGIFENSCLETMEVVQQTRVDKLTQGRQTYDWTLKRNQPAATALANTIEVFRSNGLTANESGRLIDFLKDVMESMDKGEMEIITHFQRKRRVRDNMTKKMVTQRTIGKKKQRLNKRSYLIRALTLNTMTKDAERGKLKRRAIATPGMQIRGFVYFVETLARSICEKLEQSGLPVGGNEKKAKLANVVRKMMTNSQDTELSFTITGDNTKWNENQNPRMFLAMITYITRNQPEWFRNVLSIAPIMFSNKMARLGKGYMFESKSMKLRTQIPAEMLASIDLKYFNESTRKKIEKIRPLLIDGTASLSPGMMMGMFNMLSTVLGVSILNLGQKRYTKTTYWWDGLQSSDDFALIVNAPNHEGIEAGVDRFYRTCKLVGINMTKKKSYINRTGTCEFTSFFYRYGFVANFSMELPSFGVSGINESADMSIGVTVIKNNMMDNDLGPATAQMALQLFIKDYRYPYRCHRGDTQIQTRRSFELKKLWEQTRSKAGLLVSDGGPNPYNIRNLHIPEAGLKWELMDEDYQGRLCNPLNPFVSHKEIESVNNAVVMPAHGPAKSMEYDAVATTHSWIPKRNRSILNTSQRGILEDEQMYQKCCNLFEKFFPSSSYRRPVGISSMVEAMVSRARIDARIDFESGRIKKEEFAEIMKICSTIEELGRQK

‎data/nextstrain/flu/h5n1/seg2/README.md‎

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Influenza A/H5N1 dataset using [GCF_000864105.1](https://www.ncbi.nlm.nih.gov/datasets/genome/GCF_000864105.1/) as the reference

‎data/nextstrain/flu/h5n1/seg2/genome_annotation.gff3‎

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. . CDS 25 2298 . + . gene="PB1"

‎data/nextstrain/flu/h5n1/seg2/pathogen.json‎

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{
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"schemaVersion": "3.0.0",
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"attributes": {
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"name": "Influenza A/H5N1 (segment 2/PB1)",
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"reference name": "Influenza A virus (A/goose/Guangdong/1/1996(H5N1)) polymerase (PB1) and PB1-F2 protein (PB1-F2) genes, complete cds",
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"reference accession": "NC_007358.1"
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},
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"files": {
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"reference": "reference.fasta",
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"pathogenJson": "pathogen.json",
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"genomeAnnotation": "genome_annotation.gff3",
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"readme": "README.md"
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}
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}

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