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feat(data): full-genome yellow fever virus #453
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e9f6e06
Adding data files for yellow fever virus whole-genome
maverbiest b695c47
Reformat pathogen.json
maverbiest 353e5f9
Updated README.md
maverbiest 4fc4a2e
Fixed corrupted CHANGELOG.md, ran rebuild script
maverbiest 63348a5
Actually add YFV data...
maverbiest ef17e28
Updated NC data files, reran rebuild script
maverbiest 8dc354a
Fix json
maverbiest b9b190a
Ran rebuild script after rebase
maverbiest ca4abf4
Update README
maverbiest 831f226
Update tree.json (strip Clade prefix)
maverbiest aa2cab4
Update README
maverbiest bf99f5b
Run rebuild script
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Apply suggestions from code review
maverbiest 1ead7f3
Update data/community/pathoplexus/yellow-fever-virus/pathogen.json
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| ## Unreleased | ||
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| Initial release |
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| # Yellow fever virus dataset (full genome) | ||
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| | Key | Value | | ||
| | ------------ | ------------------------------------------------------------------------------------------------------- | | ||
| | name | Yellow Fever Virus (full genome) | | ||
| | workflow | <https://github.com/hodcroftlab/nextclade-yellow-fever> | | ||
| | authors | [Hodcroft Lab](https://github.com/hodcroftlab) | | ||
| | reference | [NC_002031.1](https://www.ncbi.nlm.nih.gov/nuccore/NC_002031.1) | | ||
| | dataset path | `community/pathoplexus/yellow-fever-virus` | | ||
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| ## Scope of this dataset | ||
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| This dataset can be used for clade assignment of yellow fever virus samples. | ||
| In contrast to the existing `nextstrain/yellow-fever/prM-E` dataset (which aligns only a short 600 nucleotide subsection of the yellow fever virus genome), this dataset aligns versus the full yellow fever virus genome. | ||
| It also uses the NCBI reference sequence [NC_002031.1](https://www.ncbi.nlm.nih.gov/nuccore/NC_002031.1) instead of [AY640589.1](https://www.ebi.ac.uk/ena/browser/view/AY640589). | ||
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| ### Clade system | ||
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| Since the clade system described in `nextstrain/yellow-fever/prM-E` maps well onto the tree produced by this dataset, it is used for clade assignment here as well. | ||
| The system is based on strain and genotype information from [Mutebi et al.][] (J Virol. 2001 Aug;75(15):6999-7008) and [Bryant et al.][] (PLoS Pathog. 2007 May 18;3(5):e75), and consists of seven clades: | ||
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| | Clade | Genotype | | ||
| |-----------|---------------------| | ||
| | Clade I | Angola | | ||
| | Clade II | East Africa | | ||
| | Clade III | East Central/Africa | | ||
| | Clade IV | West Africa I | | ||
| | Clade V | West Africa II | | ||
| | Clade VI | South America I | | ||
| | Clade VII | South America II | | ||
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| The set of mutations used for clade assignment in the current dataset was extended with mutations spread throughout the yellow fever virus genome. | ||
| Therefore, this dataset also supports clade assignment of sequences generated from genomic regions outside of the prM-E subsection. | ||
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| ## Features | ||
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| This dataset was created using open data from NCBI Virus and the pipeline in https://github.com/hodcroftlab. | ||
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| This dataset offers: | ||
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| - Phylogenetic placement | ||
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maverbiest marked this conversation as resolved.
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| - Clade assignment | ||
| - Genome Annotation and Alignment | ||
| - QC | ||
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| ## What is Nextclade dataset | ||
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| Read more about Nextclade datasets in Nextclade documentation: https://docs.nextstrain.org/projects/nextclade/en/stable/user/datasets.html | ||
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| [Mutebi et al.]: https://pubmed.ncbi.nlm.nih.gov/11435580/ | ||
| [Bryant et al.]: https://pubmed.ncbi.nlm.nih.gov/17511518/ | ||
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data/community/pathoplexus/yellow-fever-virus/genome_annotation.gff3
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| ##gff-version 3 | ||
| #!gff-spec-version 1.21 | ||
| #!processor NCBI annotwriter | ||
| ##sequence-region NC_002031.1 1 10862 | ||
| ##species https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?id=11089 | ||
| NC_002031.1 RefSeq region 1 10862 . + . ID=NC_002031.1:1..10862;Dbxref=taxon:11089;gb-acronym=YFV;gbkey=Src;mol_type=genomic RNA;note=virion RNA mosquito-borne;strain=17D vaccine strain | ||
| NC_002031.1 RefSeq gene 119 421 . + . gene_name=C;gbkey=Prot;protein_id=NP_775998.1;product=core protein C;ID=id-NP_041726.1:1..101 | ||
| NC_002031.1 RefSeq gene 482 973 . + . gene_name=prM;gbkey=Prot;protein_id=NP_776000.1;product=M protein precursor;ID=id-NP_041726.1:122..285 | ||
| NC_002031.1 RefSeq gene 749 973 . + . gene_name=M;gbkey=Prot;protein_id=NP_776001.1;product=matrix protein M;ID=id-NP_041726.1:211..285 | ||
| NC_002031.1 RefSeq gene 974 2452 . + . gene_name=E;gbkey=Prot;protein_id=NP_740305.1;product=envelope protein;ID=id-NP_041726.1:286..778 | ||
| NC_002031.1 RefSeq gene 2453 3508 . + . gene_name=NS1;gbkey=Prot;protein_id=NP_776002.1;ID=id-NP_041726.1:779..1130;product=non-structural protein NS1 | ||
| NC_002031.1 RefSeq gene 3509 4180 . + . gene_name=NS2a;gbkey=Prot;protein_id=NP_776003.1;ID=id-NP_041726.1:1131..1354;product=non-structural protein NS2a | ||
| NC_002031.1 RefSeq gene 4181 4570 . + . gene_name=NS2b;gbkey=Prot;protein_id=NP_776004.1;ID=id-NP_041726.1:1355..1484;product=non-structural protein NS2b | ||
| NC_002031.1 RefSeq gene 4571 6439 . + . gene_name=NS3;gbkey=Prot;protein_id=NP_776005.1;ID=id-NP_041726.1:1485..2107;product=non-structural protein NS3;Note=proteinase and putative helicase | ||
| NC_002031.1 RefSeq gene 6440 6817 . + . gene_name=NS4a;gbkey=Prot;protein_id=NP_776006.1;ID=id-NP_041726.1:2108..2233;product=non-structural protein NS4a | ||
| NC_002031.1 RefSeq gene 6818 6886 . + . gene_name=2K;gbkey=Prot;product=2K protein;protein_id=NP_776007.1;ID=id-NP_041726.1:2234..2256 | ||
| NC_002031.1 RefSeq gene 6887 7636 . + . gene_name=NS4b;gbkey=Prot;protein_id=NP_776008.1;ID=id-NP_041726.1:2257..2506;product=non-structural protein NS4b | ||
| NC_002031.1 RefSeq gene 7637 10351 . + . gene_name=RdRPol;gbkey=Prot;protein_id=NP_776009.1;ID=id-NP_041726.1:2507..3411;product=RNA-dependent RNA polymerase |
55 changes: 55 additions & 0 deletions
55
data/community/pathoplexus/yellow-fever-virus/pathogen.json
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| { | ||
| "$schema": "https://raw.githubusercontent.com/nextstrain/nextclade/refs/heads/release/packages/nextclade-schemas/input-pathogen-json.schema.json", | ||
| "schemaVersion": "3.0.0", | ||
| "compatibility": { | ||
| "cli": "3.0.0-alpha.0", | ||
| "web": "3.0.0-alpha.0" | ||
| }, | ||
| "files": { | ||
| "reference": "reference.fasta", | ||
| "pathogenJson": "pathogen.json", | ||
| "genomeAnnotation": "genome_annotation.gff3", | ||
| "treeJson": "tree.json", | ||
| "examples": "sequences.fasta", | ||
| "readme": "README.md", | ||
| "changelog": "CHANGELOG.md" | ||
| }, | ||
| "attributes": { | ||
| "name": "Yellow Fever Virus", | ||
| "reference name": "Yellow fever virus, complete genome", | ||
| "reference accession": "NC_002031.1" | ||
| }, | ||
| "alignmentParams": { | ||
| "retryReverseComplement": true, | ||
| "includeReference": false, | ||
| "minSeedCover": 0.01 | ||
| }, | ||
| "defaultCds": "E", | ||
| "qc": { | ||
| "frameShifts": { | ||
| "enabled": true, | ||
| "scoreWeight": 25 | ||
| }, | ||
| "missingData": { | ||
| "enabled": true, | ||
| "missingDataThreshold": 2000, | ||
| "scoreBias": 500 | ||
| }, | ||
| "mixedSites": { | ||
| "enabled": true, | ||
| "mixedSitesThreshold": 50 | ||
| }, | ||
| "privateMutations": { | ||
| "enabled": true, | ||
| "weightReversionSubstitutions": 2, | ||
| "weightLabeledSubstitutions": 1, | ||
| "weightUnlabeledSubstitutions": 1, | ||
| "typical": 10, | ||
| "cutoff": 20 | ||
| }, | ||
| "stopCodons": { | ||
| "enabled": true | ||
| } | ||
| }, | ||
| "cdsOrderPreference": ["C", "prM", "M", "E", "NS1", "NS2a", "NS2b", "NS3", "NS4a", "2K", "NS4b", "RdRPol"] | ||
| } |
183 changes: 183 additions & 0 deletions
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data/community/pathoplexus/yellow-fever-virus/reference.fasta
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| >NC_002031.1 Yellow fever virus, complete genome | ||
| AGTAAATCCTGTGTGCTAATTGAGGTGCATTGGTCTGCAAATCGAGTTGCTAGGCAATAA | ||
| ACACATTTGGATTAATTTTAATCGTTCGTTGAGCGATTAGCAGAGAACTGACCAGAACAT | ||
| GTCTGGTCGTAAAGCTCAGGGAAAAACCCTGGGCGTCAATATGGTACGACGAGGAGTTCG | ||
| CTCCTTGTCAAACAAAATAAAACAAAAAACAAAACAAATTGGAAACAGACCTGGACCTTC | ||
| AAGAGGTGTTCAAGGATTTATCTTTTTCTTTTTGTTCAACATTTTGACTGGAAAAAAGAT | ||
| CACAGCCCACCTAAAGAGGTTGTGGAAAATGCTGGACCCAAGACAAGGCTTGGCTGTTCT | ||
| AAGGAAAGTCAAGAGAGTGGTGGCCAGTTTGATGAGAGGATTGTCCTCAAGGAAACGCCG | ||
| TTCCCATGATGTTCTGACTGTGCAATTCCTAATTTTGGGAATGCTGTTGATGACGGGTGG | ||
| AGTGACCTTGGTGCGGAAAAACAGATGGTTGCTCCTAAATGTGACATCTGAGGACCTCGG | ||
| GAAAACATTCTCTGTGGGCACAGGCAACTGCACAACAAACATTTTGGAAGCCAAGTACTG | ||
| GTGCCCAGACTCAATGGAATACAACTGTCCCAATCTCAGTCCAAGAGAGGAGCCAGATGA | ||
| CATTGATTGCTGGTGCTATGGGGTGGAAAACGTTAGAGTCGCATATGGTAAGTGTGACTC | ||
| AGCAGGCAGGTCTAGGAGGTCAAGAAGGGCCATTGACTTGCCTACGCATGAAAACCATGG | ||
| TTTGAAGACCCGGCAAGAAAAATGGATGACTGGAAGAATGGGTGAAAGGCAACTCCAAAA | ||
| GATTGAGAGATGGTTCGTGAGGAACCCCTTTTTTGCAGTGACGGCTCTGACCATTGCCTA | ||
| CCTTGTGGGAAGCAACATGACGCAACGAGTCGTGATTGCCCTACTGGTCTTGGCTGTTGG | ||
| TCCGGCCTACTCAGCTCACTGCATTGGAATTACTGACAGGGATTTCATTGAGGGGGTGCA | ||
| TGGAGGAACTTGGGTTTCAGCTACCCTGGAGCAAGACAAGTGTGTCACTGTTATGGCCCC | ||
| TGACAAGCCTTCATTGGACATCTCACTAGAGACAGTAGCCATTGATAGACCTGCTGAGGT | ||
| GAGGAAAGTGTGTTACAATGCAGTTCTCACTCATGTGAAGATTAATGACAAGTGCCCCAG | ||
| CACTGGAGAGGCCCACCTAGCTGAAGAGAACGAAGGGGACAATGCGTGCAAGCGCACTTA | ||
| TTCTGATAGAGGCTGGGGCAATGGCTGTGGCCTATTTGGGAAAGGGAGCATTGTGGCATG | ||
| CGCCAAATTCACTTGTGCCAAATCCATGAGTTTGTTTGAGGTTGATCAGACCAAAATTCA | ||
| GTATGTCATCAGAGCACAATTGCATGTAGGGGCCAAGCAGGAAAATTGGAATACCGACAT | ||
| TAAGACTCTCAAGTTTGATGCCCTGTCAGGCTCCCAGGAAGTCGAGTTCATTGGGTATGG | ||
| AAAAGCTACACTGGAATGCCAGGTGCAAACTGCGGTGGACTTTGGTAACAGTTACATCGC | ||
| TGAGATGGAAACAGAGAGCTGGATAGTGGACAGACAGTGGGCCCAGGACTTGACCCTGCC | ||
| ATGGCAGAGTGGAAGTGGCGGGGTGTGGAGAGAGATGCATCATCTTGTCGAATTTGAACC | ||
| TCCGCATGCCGCCACTATCAGAGTACTGGCCCTGGGAAACCAGGAAGGCTCCTTGAAAAC | ||
| AGCTCTTACTGGCGCAATGAGGGTTACAAAGGACACAAATGACAACAACCTTTACAAACT | ||
| ACATGGTGGACATGTTTCTTGCAGAGTGAAATTGTCAGCTTTGACACTCAAGGGGACATC | ||
| CTACAAAATATGCACTGACAAAATGTTTTTTGTCAAGAACCCAACTGACACTGGCCATGG | ||
| CACTGTTGTGATGCAGGTGAAAGTGTCAAAAGGAGCCCCCTGCAGGATTCCAGTGATAGT | ||
| AGCTGATGATCTTACAGCGGCAATCAATAAAGGCATTTTGGTTACAGTTAACCCCATCGC | ||
| CTCAACCAATGATGATGAAGTGCTGATTGAGGTGAACCCACCTTTTGGAGACAGCTACAT | ||
| TATCGTTGGGAGAGGAGATTCACGTCTCACTTACCAGTGGCACAAAGAGGGAAGCTCAAT | ||
| AGGAAAGTTGTTCACTCAGACCATGAAAGGCGTGGAACGCCTGGCCGTCATGGGAGACAC | ||
| CGCCTGGGATTTCAGCTCCGCTGGAGGGTTCTTCACTTCGGTTGGGAAAGGAATTCATAC | ||
| GGTGTTTGGCTCTGCCTTTCAGGGGCTATTTGGCGGCTTGAACTGGATAACAAAGGTCAT | ||
| CATGGGGGCGGTACTTATATGGGTTGGCATCAACACAAGAAACATGACAATGTCCATGAG | ||
| CATGATCTTGGTAGGAGTGATCATGATGTTTTTGTCTCTAGGAGTTGGGGCGGATCAAGG | ||
| ATGCGCCATCAACTTTGGCAAGAGAGAGCTCAAGTGCGGAGATGGTATCTTCATATTTAG | ||
| AGACTCTGATGACTGGCTGAACAAGTACTCATACTATCCAGAAGATCCTGTGAAGCTTGC | ||
| ATCAATAGTGAAAGCCTCTTTTGAAGAAGGGAAGTGTGGCCTAAATTCAGTTGACTCCCT | ||
| TGAGCATGAGATGTGGAGAAGCAGGGCAGATGAGATCAATGCCATTTTTGAGGAAAACGA | ||
| GGTGGACATTTCTGTTGTCGTGCAGGATCCAAAGAATGTTTACCAGAGAGGAACTCATCC | ||
| ATTTTCCAGAATTCGGGATGGTCTGCAGTATGGTTGGAAGACTTGGGGTAAGAACCTTGT | ||
| GTTCTCCCCAGGGAGGAAGAATGGAAGCTTCATCATAGATGGAAAGTCCAGGAAAGAATG | ||
| CCCGTTTTCAAACCGGGTCTGGAATTCTTTCCAGATAGAGGAGTTTGGGACGGGAGTGTT | ||
| CACCACACGCGTGTACATGGACGCAGTCTTTGAATACACCATAGACTGCGATGGATCTAT | ||
| CTTGGGTGCAGCGGTGAACGGAAAAAAGAGTGCCCATGGCTCTCCAACATTTTGGATGGG | ||
| AAGTCATGAAGTAAATGGGACATGGATGATCCACACCTTGGAGGCATTAGATTACAAGGA | ||
| GTGTGAGTGGCCACTGACACATACGATTGGAACATCAGTTGAAGAGAGTGAAATGTTCAT | ||
| GCCGAGATCAATCGGAGGCCCAGTTAGCTCTCACAATCATATCCCTGGATACAAGGTTCA | ||
| GACGAACGGACCTTGGATGCAGGTACCACTAGAAGTGAAGAGAGAAGCTTGCCCAGGGAC | ||
| TAGCGTGATCATTGATGGCAACTGTGATGGACGGGGAAAATCAACCAGATCCACCACGGA | ||
| TAGCGGGAAAGTTATTCCTGAATGGTGTTGCCGCTCCTGCACAATGCCGCCTGTGAGCTT | ||
| CCATGGTAGTGATGGGTGTTGGTATCCCATGGAAATTAGGCCAAGGAAAACGCATGAAAG | ||
| CCATCTGGTGCGCTCCTGGGTTACAGCTGGAGAAATACATGCTGTCCCTTTTGGTTTGGT | ||
| GAGCATGATGATAGCAATGGAAGTGGTCCTAAGGAAAAGACAGGGACCAAAGCAAATGTT | ||
| GGTTGGAGGAGTAGTGCTCTTGGGAGCAATGCTGGTCGGGCAAGTAACTCTCCTTGATTT | ||
| GCTGAAACTCACAGTGGCTGTGGGATTGCATTTCCATGAGATGAACAATGGAGGAGACGC | ||
| CATGTATATGGCGTTGATTGCTGCCTTTTCAATCAGACCAGGGCTGCTCATCGGCTTTGG | ||
| GCTCAGGACCCTATGGAGCCCTCGGGAACGCCTTGTGCTGACCCTAGGAGCAGCCATGGT | ||
| GGAGATTGCCTTGGGTGGCGTGATGGGCGGCCTGTGGAAGTATCTAAATGCAGTTTCTCT | ||
| CTGCATCCTGACAATAAATGCTGTTGCTTCTAGGAAAGCATCAAATACCATCTTGCCCCT | ||
| CATGGCTCTGTTGACACCTGTCACTATGGCTGAGGTGAGACTTGCCGCAATGTTCTTTTG | ||
| TGCCGTGGTTATCATAGGGGTCCTTCACCAGAATTTCAAGGACACCTCCATGCAGAAGAC | ||
| TATACCTCTGGTGGCCCTCACACTCACATCTTACCTGGGCTTGACACAACCTTTTTTGGG | ||
| CCTGTGTGCATTTCTGGCAACCCGCATATTTGGGCGAAGGAGTATCCCAGTGAATGAGGC | ||
| ACTCGCAGCAGCTGGTCTAGTGGGAGTGCTGGCAGGACTGGCTTTTCAGGAGATGGAGAA | ||
| CTTCCTTGGTCCGATTGCAGTTGGAGGACTCCTGATGATGCTGGTTAGCGTGGCTGGGAG | ||
| GGTGGATGGGCTAGAGCTCAAGAAGCTTGGTGAAGTTTCATGGGAAGAGGAGGCGGAGAT | ||
| CAGCGGGAGTTCCGCCCGCTATGATGTGGCACTCAGTGAACAAGGGGAGTTCAAGCTGCT | ||
| TTCTGAAGAGAAAGTGCCATGGGACCAGGTTGTGATGACCTCGCTGGCCTTGGTTGGGGC | ||
| TGCCCTCCATCCATTTGCTCTTCTGCTGGTCCTTGCTGGGTGGCTGTTTCATGTCAGGGG | ||
| AGCTAGGAGAAGTGGGGATGTCTTGTGGGATATTCCCACTCCTAAGATCATCGAGGAATG | ||
| TGAACATCTGGAGGATGGGATTTATGGCATATTCCAGTCAACCTTCTTGGGGGCCTCCCA | ||
| GCGAGGAGTGGGAGTGGCACAGGGAGGGGTGTTCCACACAATGTGGCATGTCACAAGAGG | ||
| AGCTTTCCTTGTCAGGAATGGCAAGAAGTTGATTCCATCTTGGGCTTCAGTAAAGGAAGA | ||
| CCTTGTCGCCTATGGTGGCTCATGGAAGTTGGAAGGCAGATGGGATGGAGAGGAAGAGGT | ||
| CCAGTTGATCGCGGCTGTTCCAGGAAAGAACGTGGTCAACGTCCAGACAAAACCGAGCTT | ||
| GTTCAAAGTGAGGAATGGGGGAGAAATCGGGGCTGTCGCTCTTGACTATCCGAGTGGCAC | ||
| TTCAGGATCTCCTATTGTTAACAGGAACGGAGAGGTGATTGGGCTGTACGGCAATGGCAT | ||
| CCTTGTCGGTGACAACTCCTTCGTGTCCGCCATATCCCAGACTGAGGTGAAGGAAGAAGG | ||
| AAAGGAGGAGCTCCAAGAGATCCCGACAATGCTAAAGAAAGGAATGACAACTGTCCTTGA | ||
| TTTTCATCCTGGAGCTGGGAAGACAAGACGTTTCCTCCCACAGATCTTGGCCGAGTGCGC | ||
| ACGGAGACGCTTGCGCACTCTTGTGTTGGCCCCCACCAGGGTTGTTCTTTCTGAAATGAA | ||
| GGAGGCTTTTCACGGCCTGGACGTGAAATTCCACACACAGGCTTTTTCCGCTCACGGCAG | ||
| CGGGAGAGAAGTCATTGATGCCATGTGCCATGCCACCCTAACTTACAGGATGTTGGAACC | ||
| AACTAGGGTTGTTAACTGGGAAGTGATCATTATGGATGAAGCCCATTTTTTGGATCCAGC | ||
| TAGCATAGCCGCTAGAGGTTGGGCAGCGCACAGAGCTAGGGCAAATGAAAGTGCAACAAT | ||
| CTTGATGACAGCCACACCGCCTGGGACTAGTGATGAATTTCCACATTCAAATGGTGAAAT | ||
| AGAAGATGTTCAAACGGACATACCCAGTGAGCCCTGGAACACAGGGCATGACTGGATCCT | ||
| AGCTGACAAAAGGCCCACGGCATGGTTCCTTCCATCCATCAGAGCTGCAAATGTCATGGC | ||
| TGCCTCTTTGCGTAAGGCTGGAAAGAGTGTGGTGGTCCTGAACAGGAAAACCTTTGAGAG | ||
| AGAATACCCCACGATAAAGCAGAAGAAACCTGACTTTATATTGGCCACTGACATAGCTGA | ||
| AATGGGAGCCAACCTTTGCGTGGAGCGAGTGCTGGATTGCAGGACGGCTTTTAAGCCTGT | ||
| GCTTGTGGATGAAGGGAGGAAGGTGGCAATAAAAGGGCCACTTCGTATCTCCGCATCCTC | ||
| TGCTGCTCAAAGGAGGGGGCGCATTGGGAGAAATCCCAACAGAGATGGAGACTCATACTA | ||
| CTATTCTGAGCCTACAAGTGAAAATAATGCCCACCACGTCTGCTGGTTGGAGGCCTCAAT | ||
| GCTCTTGGACAACATGGAGGTGAGGGGTGGAATGGTCGCCCCACTCTATGGCGTTGAAGG | ||
| AACTAAAACACCAGTTTCCCCTGGTGAAATGAGACTGAGGGATGACCAGAGGAAAGTCTT | ||
| CAGAGAACTAGTGAGGAATTGTGACCTGCCCGTTTGGCTTTCGTGGCAAGTGGCCAAGGC | ||
| TGGTTTGAAGACGAATGATCGTAAGTGGTGTTTTGAAGGCCCTGAGGAACATGAGATCTT | ||
| GAATGACAGCGGTGAAACAGTGAAGTGCAGGGCTCCTGGAGGAGCAAAGAAGCCTCTGCG | ||
| CCCAAGGTGGTGTGATGAAAGGGTGTCATCTGACCAGAGTGCGCTGTCTGAATTTATTAA | ||
| GTTTGCTGAAGGTAGGAGGGGAGCTGCTGAAGTGCTAGTTGTGCTGAGTGAACTCCCTGA | ||
| TTTCCTGGCTAAAAAAGGTGGAGAGGCAATGGATACCATCAGTGTGTTCCTCCACTCTGA | ||
| GGAAGGCTCTAGGGCTTACCGCAATGCACTATCAATGATGCCTGAGGCAATGACAATAGT | ||
| CATGCTGTTTATACTGGCTGGACTACTGACATCGGGAATGGTCATCTTTTTCATGTCTCC | ||
| CAAAGGCATCAGTAGAATGTCTATGGCGATGGGCACAATGGCCGGCTGTGGATATCTCAT | ||
| GTTCCTTGGAGGCGTCAAACCCACTCACATCTCCTATGTCATGCTCATATTCTTTGTCCT | ||
| GATGGTGGTTGTGATCCCCGAGCCAGGGCAACAAAGGTCCATCCAAGACAACCAAGTGGC | ||
| ATACCTCATTATTGGCATCCTGACGCTGGTTTCAGCGGTGGCAGCCAACGAGCTAGGCAT | ||
| GCTGGAGAAAACCAAAGAGGACCTCTTTGGGAAGAAGAACTTAATTCCATCTAGTGCTTC | ||
| ACCCTGGAGTTGGCCGGATCTTGACCTGAAGCCAGGAGCTGCCTGGACAGTGTACGTTGG | ||
| CATTGTTACAATGCTCTCTCCAATGTTGCACCACTGGATCAAAGTCGAATATGGCAACCT | ||
| GTCTCTGTCTGGAATAGCCCAGTCAGCCTCAGTCCTTTCTTTCATGGACAAGGGGATACC | ||
| ATTCATGAAGATGAATATCTCGGTCATAATGCTGCTGGTCAGTGGCTGGAATTCAATAAC | ||
| AGTGATGCCTCTGCTCTGTGGCATAGGGTGCGCCATGCTCCACTGGTCTCTCATTTTACC | ||
| TGGAATCAAAGCGCAGCAGTCAAAGCTTGCACAGAGAAGGGTGTTCCATGGCGTTGCCGA | ||
| GAACCCTGTGGTTGATGGGAATCCAACAGTTGACATTGAGGAAGCTCCTGAAATGCCTGC | ||
| CCTTTATGAGAAGAAACTGGCTCTATATCTCCTTCTTGCTCTCAGCCTAGCTTCTGTTGC | ||
| CATGTGCAGAACGCCCTTTTCATTGGCTGAAGGCATTGTCCTAGCATCAGCTGCCTTAGG | ||
| GCCGCTCATAGAGGGAAACACCAGCCTTCTTTGGAATGGACCCATGGCTGTCTCCATGAC | ||
| AGGAGTCATGAGGGGGAATCACTATGCTTTTGTGGGAGTCATGTACAATCTATGGAAGAT | ||
| GAAAACTGGACGCCGGGGGAGCGCGAATGGAAAAACTTTGGGTGAAGTCTGGAAGAGGGA | ||
| ACTGAATCTGTTGGACAAGCGACAGTTTGAGTTGTATAAAAGGACCGACATTGTGGAGGT | ||
| GGATCGTGATACGGCACGCAGGCATTTGGCCGAAGGGAAGGTGGACACCGGGGTGGCGGT | ||
| CTCCAGGGGGACCGCAAAGTTAAGGTGGTTCCATGAGCGTGGCTATGTCAAGCTGGAAGG | ||
| TAGGGTGATTGACCTGGGGTGTGGCCGCGGAGGCTGGTGTTACTACGCTGCTGCGCAAAA | ||
| GGAAGTGAGTGGGGTCAAAGGATTTACTCTTGGAAGAGACGGCCATGAGAAACCCATGAA | ||
| TGTGCAAAGTCTGGGATGGAACATCATCACCTTCAAGGACAAAACTGATATCCACCGCCT | ||
| AGAACCAGTGAAATGTGACACCCTTTTGTGTGACATTGGAGAGTCATCATCGTCATCGGT | ||
| CACAGAGGGGGAAAGGACCGTGAGAGTTCTTGATACTGTAGAAAAATGGCTGGCTTGTGG | ||
| GGTTGACAACTTCTGTGTGAAGGTGTTAGCTCCATACATGCCAGATGTTCTCGAGAAACT | ||
| GGAATTGCTCCAAAGGAGGTTTGGCGGAACAGTGATCAGGAACCCTCTCTCCAGGAATTC | ||
| CACTCATGAAATGTACTACGTGTCTGGAGCCCGCAGCAATGTCACATTTACTGTGAACCA | ||
| AACATCCCGCCTCCTGATGAGGAGAATGAGGCGTCCAACTGGAAAAGTGACCCTGGAGGC | ||
| TGACGTCATCCTCCCAATTGGGACACGCAGTGTTGAGACAGACAAGGGACCCCTGGACAA | ||
| AGAGGCCATAGAAGAAAGGGTTGAGAGGATAAAATCTGAGTACATGACCTCTTGGTTTTA | ||
| TGACAATGACAACCCCTACAGGACCTGGCACTACTGTGGCTCCTATGTCACAAAAACCTC | ||
| AGGAAGTGCGGCGAGCATGGTAAATGGTGTTATTAAAATTCTGACATATCCATGGGACAG | ||
| GATAGAGGAGGTCACAAGAATGGCAATGACTGACACAACCCCTTTTGGACAGCAAAGAGT | ||
| GTTTAAAGAAAAAGTTGACACCAGAGCAAAGGATCCACCAGCGGGAACTAGGAAGATCAT | ||
| GAAAGTTGTCAACAGGTGGCTGTTCCGCCACCTGGCCAGAGAAAAGAACCCCAGACTGTG | ||
| CACAAAGGAAGAATTTATTGCAAAAGTCCGAAGTCATGCAGCCATTGGAGCTTACCTGGA | ||
| AGAACAAGAACAGTGGAAGACTGCCAATGAGGCTGTCCAAGACCCAAAGTTCTGGGAACT | ||
| GGTGGATGAAGAAAGGAAGCTGCACCAACAAGGCAGGTGTCGGACTTGTGTGTACAACAT | ||
| GATGGGGAAAAGAGAGAAGAAGCTGTCAGAGTTTGGGAAAGCAAAGGGAAGCCGTGCCAT | ||
| ATGGTATATGTGGCTGGGAGCGCGGTATCTTGAGTTTGAGGCCCTGGGATTCCTGAATGA | ||
| GGACCATTGGGCTTCCAGGGAAAACTCAGGAGGAGGAGTGGAAGGCATTGGCTTACAATA | ||
| CCTAGGATATGTGATCAGAGACCTGGCTGCAATGGATGGTGGTGGATTCTACGCGGATGA | ||
| CACCGCTGGATGGGACACGCGCATCACAGAGGCAGACCTTGATGATGAACAGGAGATCTT | ||
| GAACTACATGAGCCCACATCACAAAAAACTGGCACAAGCAGTGATGGAAATGACATACAA | ||
| GAACAAAGTGGTGAAAGTGTTGAGACCAGCCCCAGGAGGGAAAGCCTACATGGATGTCAT | ||
| AAGTCGACGAGACCAGAGAGGATCCGGGCAGGTAGTGACTTATGCTCTGAACACCATCAC | ||
| CAACTTGAAAGTCCAATTGATCAGAATGGCAGAAGCAGAGATGGTGATACATCACCAACA | ||
| TGTTCAAGATTGTGATGAATCAGTTCTGACCAGGCTGGAGGCATGGCTCACTGAGCACGG | ||
| ATGTGACAGACTGAAGAGGATGGCGGTGAGTGGAGACGACTGTGTGGTCCGGCCCATCGA | ||
| TGACAGGTTCGGCCTGGCCCTGTCCCATCTCAACGCCATGTCCAAGGTTAGAAAGGACAT | ||
| ATCTGAATGGCAGCCATCAAAAGGGTGGAATGATTGGGAGAATGTGCCCTTCTGTTCCCA | ||
| CCACTTCCATGAACTACAGCTGAAGGATGGCAGGAGGATTGTGGTGCCTTGCCGAGAACA | ||
| GGACGAGCTCATTGGGAGAGGAAGGGTGTCTCCAGGAAACGGCTGGATGATCAAGGAAAC | ||
| AGCTTGCCTCAGCAAAGCCTATGCCAACATGTGGTCACTGATGTATTTTCACAAAAGGGA | ||
| CATGAGGCTACTGTCATTGGCTGTTTCCTCAGCTGTTCCCACCTCATGGGTTCCACAAGG | ||
| ACGCACAACATGGTCGATTCATGGGAAAGGGGAGTGGATGACCACGGAAGACATGCTTGA | ||
| GGTGTGGAACAGAGTATGGATAACCAACAACCCACACATGCAGGACAAGACAATGGTGAA | ||
| AAAATGGAGAGATGTCCCTTATCTAACCAAGAGACAAGACAAGCTGTGCGGATCACTGAT | ||
| TGGAATGACCAATAGGGCCACCTGGGCCTCCCACATCCATTTAGTCATCCATCGTATCCG | ||
| AACGCTGATTGGACAGGAGAAATACACTGACTACCTAACAGTCATGGACAGGTATTCTGT | ||
| GGATGCTGACCTGCAACTGGGTGAGCTTATCTGAAACACCATCTAACAGGAATAACCGGG | ||
| ATACAAACCACGGGTGGAGAACCGGACTCCCCACAACCTGAAACCGGGATATAAACCACG | ||
| GCTGGAGAACCGGGCTCCGCACTTAAAATGAAACAGAAACCGGGATAAAAACTACGGATG | ||
| GAGAACCGGACTCCACACATTGAGACAGAAGAAGTTGTCAGCCCAGAACCCCACACGAGT | ||
| TTTGCCACTGCTAAGCTGTGAGGCAGTGCAGGCTGGGACAGCCGACCTCCAGGTTGCGAA | ||
| AAACCTGGTTTCTGGGACCTCCCACCCCAGAGTAAAAAGAACGGAGCCTCCGCTACCACC | ||
| CTCCCACGTGGTGGTAGAAAGACGGGGTCTAGAGGTTAGAGGAGACCCTCCAGGGAACAA | ||
| ATAGTGGGACCATATTGACGCCAGGGAAAGACCGGAGTGGTTCTCTGCTTTTCCTCCAGA | ||
| GGTCTGTGAGCACAGTTTGCTCAAGAATAAGCAGACCTTTGGATGACAAACACAAAACCA | ||
| CT |
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