niman Posted February 5, 2016 Report Share Posted February 5, 2016 (edited) Faculte de Medecine de Marseille has released a full Zika sequence from a patient in December 2015 Martinique outbreak.http://www.ncbi.nlm.nih.gov/nuccore/KU647676.1 Edited February 5, 2016 by niman Link to comment Share on other sites More sharing options...
niman Posted February 5, 2016 Author Report Share Posted February 5, 2016 LOCUS KU647676 10617 bp RNA linear VRL 04-FEB-2016 DEFINITION Zika virus strain MRS_OPY_Martinique_PaRi_2015 polyprotein gene, complete cds. ACCESSION KU647676 VERSION KU647676.1 GI:984915975 KEYWORDS . SOURCE Zika virus ORGANISM Zika virus Viruses; ssRNA viruses; ssRNA positive-strand viruses, no DNA stage; Flaviviridae; Flavivirus; Spondweni virus group. REFERENCE 1 (bases 1 to 10617) AUTHORS Piorkowski,G., Gallian,P., Baronti,C., Richard,P., Leparc Goffart,I. and De Lamballerie,X. TITLE Complete coding sequence of Zika virus from Martinique outbreak 2015 JOURNAL Unpublished REFERENCE 2 (bases 1 to 10617) AUTHORS Piorkowski,G., Gallian,P., Baronti,C., Richard,P., Leparc Goffart,I. and De Lamballerie,X. TITLE Direct Submission JOURNAL Submitted (01-FEB-2016) Umr190 Unite des Virus Emergents, Faculte de Medecine de Marseille, 27 Boulevard Jean Moulin, Marseille 13005, France COMMENT ##Assembly-Data-START## Assembly Method :: CLC Genomics Workbench v. 8.5.1 Coverage :: 8570 Sequencing Technology :: IonTorrent ##Assembly-Data-END## FEATURES Location/Qualifiers source 1..10617 /organism="Zika virus" /mol_type="genomic RNA" /strain="MRS_OPY_Martinique_PaRi_2015" /host="Homo sapiens" /db_xref="taxon:64320" /lab_host="Vero cells" /country="Martinique" /collection_date="Dec-2015" /note="EVA 1589" CDS 48..10319 /codon_start=1 /product="polyprotein" /protein_id="AMC33116.1" /db_xref="GI:984915976" /translation="MKNPKKKSGGFRIVNMLKRGVARVSPFGGLKRLPAGLLLGHGPI RMVLAILAFLRFTAIKPSLGLINRWGSVGKKEAMEIIKKFKKDLAAMLRIINARKEKK RRGAETSVGIVGLLLTTAMAAEVTRRGSAYYMYLDRNDAGEAISFPTTLGMNKCYIQI MDLGHMCDATMSYECPMLDEGVEPDDVDCWCNTTSTWVVYGTCHHKKGEARRSRRAVT LPSHSTRKLQTRSQTWLESREYTKHLIRVENWIFRNPGFALAAAAIAWLLGSSTSQKV IYLVMILLIAPAYSIRCIGVSNRDFVEGMSGGTWVDVVLEHGGCVTVMAQDKPTVDIE LVTTTVSNMAEVRSYCYEASISDMASDSRCPTQGEAYLDKQSDTQYVCKRTLVDRGWG NGCGLFGKGSLVTCAKFACSKKMTGKSIQPENLEYRIMLSVHGSQHSGMIVNDTGHET DENRAKVEITPNSPRAEATLGGFGSLGLDCEPRTGLDFSDLYYLTMNNKHWLVHKEWF HDIPLPWHAGADTGTPHWNNKEALVEFKDAHAKRQTVVVLGSQEGAVHTALAGALEAE MDGAKGRLSSGHLKCRLKMDKLRLKGVSYSLCTAAFTFTKIPAETLHGTVTVEVQYAG TDGPCKVPAQMAVDMQTLTPVGRLITANPVITESTENSKMMLELDPPFGDSYIVIGVG EKKITHHWHRSGSTIGKAFEATVRGAKRMAVLGDTAWDFGSVGGALNSLGKGIHQIFG AAFKSLFGGMSWFSQILIGTLLMWLGLNTKNGSISLMCLALGGVLIFLSTAVSADVGC SVDFSKKETRCGTGVFVYNDVEAWRDRYKYHPDSPRRLAAAVKQAWEDGICGISSVSR MENIMWRSVEGELNAILEENGVQLTVVVGSVKNPMWRGPQRLPVPVNELPHGWKAWGK SYFVRAAKTNNSFVVDGDTLKECPLKHRAWNSFLVEDHGFGVFHTSVWLKVREDYSLE CDPAVIGTAVKGKEAVHSDLGYWIESEKNDTWRLKRAHLIEMKTCEWPKSHTLWTDGI EESDLIIPKSLAGPLSHHNTREGYRTQMKGPWHSEELEIRFEECPGTKVHVEETCGTR GPSLRSTTASGRVIEEWCCRECTMPPLSFWAKDGCWYGMEIRPRKEPESNLVRSMVTA GSTDHMDHFSLGVLVILLMVQEGLKKRMTTKIIISTSMAVLVAMILGGFSMSDLAKLA ILMGATFAEMNTGGDVAHLALTAAFKVRPALLVSFIFRANWTPRESMLLALASCLLQT AISALEGDLMVLINGFALAWLAIRAMVVPRTDNITLAILAALTPLARGTLLVAWRAGL ATCGGFMLLSLKGKGSVKKNLPFVMALGLTAVRLVDPINVVGLLLLTRSGKRSWPPSE VLTAVGLICALAGGFAKADIEMAGPMAAVGLLIVSYVVSGKSVDMYIERAGDITWEKD AEVTGNSPRLDVALDESGDFSLVEDDGPPMREIILKVVLMTICGMNPIAIPFAAGAWY VYVKTGKRSGALWDVPAPKEVKKGETTDGVYRVMTRRLLGSTQVGVGVMQEGVFHTMW HVTKGSALRSGEGRLDPYWGDVKQDLVSYCGPWKLDAAWDGHSEVQLLAVPPGERARN IQTLPGIFKTKDGDIGAVALDYPAGTSGSPILDKCGRVIGLYGNGVVIKNGSYVSAIT QGRREEETPVECFEPSMLKKKQLTVLDLHPGAGKTRRVLPEIVREAIKTRLRTVILAP TRVVAAEMEEALRGLPVRYMTTAVNVTHSGTEIVDLMCHATFTSRLLQPIRVPNYNLY IMDEAHFTDPSSIAARGYISTRVEMGEAAAIFMTATPPGTRDAFPDSNSPIMDTEVEV PERAWSSGFDWVTDHSGKTVWFVPSVRNGNEIAACLTKAGKRVIQLSRKTFETEFQKT KHQEWDFVVTTDISEMGANFKADRVIDSRRCLKPVILDGERVILAGPMPVTHASAAQR RGRIGRNPNKPGDEYLYGGGCAETDEDHAHWLEARMLLDNIYLQDGLIASLYRPEADK VAAIEGEFKLRTEQRKTFVELMKRGDLPVWLAYQVASAGITYTDRRWCFDGTTNNTIM EDSVPAEVWTRHGEKRVLKPRWMDARVCSDHAALKSFKEFAAGKRGAAFGVMEALGTL PGHMTERFQEAIDNLAVLMRAETGSRPYKAAAAQLPETLETIMLLGLLGTVSLGIFFV LMRNKGIGKMGFGMVTLGASAWLMWLSEIEPARIACVLIVVFLLLVVLIPEPEKQRSP QDNQMAIIIMVAVGLLGLITANELGWLERTKSDLSHLMGRREEGATIGFSMDIDLRPA SAWAIYAALTTFITPAVQHAVTTSYNNYSLMAMATQAGVLFGMGKGMPFYAWDFGVPL LMIGCYSQLTPLTLIVAIILLVAHYMYLIPGLQAAAARAAQKRTAAGIMKNPVVDGIV VTDIDTMTIDPQVEKKMGQVLLIAVAVSSAILSRTAWGWGEAGALITAATSTLWEGSP NKYWNSSTATSLCNIFRGSYLAGASLIYTVTRNAGLVKRRGGGTGETLGEKWKARLNQ MSALEFYSYKKSGITEVCREEARRALKDGVATGGHAVSRGSAKLRWLVERGYLQPYGK VIDLGCGRGGWSYYAATIRKVQEVKGYTKGGPGHEEPVLVQSYGWNIVRLKSGVDVFH MAAEPCDTLLCDIGESSSSPEVEEARTLRVLSMVGDWLEKRPGAFCIKVLCPYTSTMM ETLERLQRRYGGGLVRVPLSRNSTHEMYWVSGAKSNTIKSVSTTSQLLLGRMDGPRRP VKYEEDVNLGSGTRAVVSCAEAPNMKIIGNRIERIRSEHAETWFFDENHPYRTWAYHG SYEAPTQGSASSLINGVVRLLSKPWDVVTGVTGIAMTDTTPYGQQRVFKEKVDTRVPD PQEGTRQVMSMVSSWLWKELGKHKRPRVCTKEEFINKVRSNAALGAIFEEEKEWKTAV EAVNDPRFWALVDKEREHHLRGECQSCVYNMMGKREKKQGEFGKAKGSRAIWYMWLGA RFLEFEALGFLNEDHWMGRENSGGGVEGLGLQRLGYVLEEMSRIPGGRMYADDTAGWD TRISRFDLENEALITNQMEKGHRALALAIIKYTYQNKVVKVLRPAEKGKTVMDIISRQ DQRGSGQVVTYALNTFTNLVVQLIRNMEAEEVLEMQDLWLLRRSEKVTNWLQSNGWDR LKRMAVSGDDCVVKPIDDRFAHALRFLNDMGKVRKDTQEWKPSTGWDNWEEVPFCSHH FNKLHLKDGRSIVVPCRHQDELIGRARVSPGAGWSIRETACLAKSYAQMWQLLYFHRR DLRLMANAICSSVPVDWVPTGRTTWSIHGKGEWMTTEDMLVVWNRVWIEENDHMEDKT PVAKWTDIPYLGKREDLWCGSLIGHRPRTTWAENIKNTVNMVRRIIGDEEKYMDYLST QVRYLGEEGSTPGVL" ORIGIN 1 agtatcaaca ggttttattt tggatttgga aacgagagtt tctggtcatg aaaaacccaa 61 aaaagaaatc cggaggattc cggattgtca atatgctaaa acgcggagta gcccgtgtga 121 gcccctttgg gggcttgaag aggctgccag ccggacttct gctgggtcat gggcccatca 181 ggatggtctt ggcgattcta gcctttttga gattcacggc aatcaagcca tcactgggtc 241 tcatcaatag atggggttca gtggggaaaa aagaggctat ggaaataata aagaagttca 301 agaaagatct ggctgccatg ctgagaataa tcaatgctag gaaggagaag aagagacgag 361 gcgcagaaac tagtgtcgga attgttggcc tcctgctgac cacagctatg gcagcggagg 421 tcactagacg tgggagtgca tactatatgt acttggacag aaacgatgct ggggaggcca 481 tatcttttcc aaccacattg gggatgaata agtgttatat acagatcatg gatcttggac 541 acatgtgtga tgccaccatg agctatgaat gccctatgct ggatgagggg gtggaaccag 601 atgacgtcga ttgttggtgc aacacgacgt caacttgggt tgtgtacgga acctgccatc 661 acaaaaaagg tgaagcacgg agatctagaa gagccgtgac gctcccctcc cattccacta 721 ggaagctgca aacgcggtcg caaacctggt tggaatcaag agaatacaca aagcacttga 781 ttagagtcga aaattggata ttcaggaacc ctggtttcgc tttagcagca gctgccatcg 841 cgtggctttt gggaagctca acgagccaaa aagtcatata cttggtcatg atactgctga 901 ttgccccggc atacagcatc aggtgcatag gagtcagcaa tagggacttt gtggaaggta 961 tgtcaggtgg gacttgggtt gatgttgtct tggaacatgg aggttgtgtc accgtaatgg 1021 cacaggacaa accgactgtc gacatagagc tggttacaac aacagtcagc aacatggcgg 1081 aggtaagatc ctactgctat gaggcatcaa tatcagacat ggcttcggac agccgctgcc 1141 caacacaagg tgaagcctac cttgacaagc aatcagacac tcaatatgtc tgcaaaagaa 1201 cgttagtgga cagaggctgg ggaaatggat gtggactttt tggcaaaggg agcctggtga 1261 catgcgctaa gtttgcatgc tccaagaaaa tgaccgggaa gagcatccag ccagagaatc 1321 tggagtaccg gataatgttg tcagttcatg gctcccagca cagtgggatg atcgttaatg 1381 acacaggaca tgaaactgat gagaatagag cgaaggttga gataacgccc aattcaccaa 1441 gagccgaagc caccctgggg ggttttggaa gcctaggact tgattgtgaa ccgaggacag 1501 gccttgactt ttcagatttg tattacttga ctatgaataa caagcactgg ttggttcaca 1561 aggagtggtt ccacgacatt ccattacctt ggcacgctgg ggcagacacc ggaactccac 1621 actggaacaa caaagaagca ctggtagagt tcaaggacgc acatgccaaa aggcaaactg 1681 tcgtggttct agggagtcaa gaaggagcag ttcacacggc ccttgctgga gctctggagg 1741 ctgagatgga tggtgcaaag ggaaggctgt cctctggcca cttgaaatgt cgcctgaaaa 1801 tggataaact tagattgaag ggcgtgtcat actccttgtg taccgcagcg ttcacattca 1861 ccaagatccc ggctgaaaca ctgcacggga cagtcacagt ggaggtacag tacgcaggga 1921 cagatggacc ttgcaaggtt ccagcccaga tggcggtgga catgcaaact ctgaccccag 1981 ttgggaggtt gataaccgct aaccccgtaa tcactgaaag cactgagaac tctaagatga 2041 tgctggaact tgatccacca tttggggact cttacattgt cataggagtc ggggagaaga 2101 agatcaccca ccactggcac aggagtggca gcaccattgg aaaagcattt gaagccactg 2161 tgagaggtgc caagagaatg gcagtcttgg gagacacagc ctgggacttt ggatcagttg 2221 gaggcgctct caactcattg ggcaagggca tccatcaaat ttttggagca gctttcaaat 2281 cattgtttgg aggaatgtcc tggttctcac aaattctcat tggaacgttg ctgatgtggt 2341 tgggtctgaa cacaaagaat ggatctattt cccttatgtg cttggcctta gggggagtgt 2401 tgatcttctt atccacagcc gtctctgctg atgtggggtg ctcggtggac ttctcaaaga 2461 aggagacgag atgtggtaca ggggtgttcg tctataacga cgttgaagcc tggagggaca 2521 ggtacaagta ccatcctgac tccccccgta gattggcagc agcagtcaag caagcctggg 2581 aagatggtat ctgcgggatc tcctctgttt caagaatgga aaacatcatg tggagatcag 2641 tagaagggga gctcaacgca atcctggaag agaatggagt tcaactgacg gtcgttgtgg 2701 gatctgtaaa aaaccccatg tggagaggtc cacagagatt gcccgtgcct gtgaacgagc 2761 tgccccacgg ctggaaggct tgggggaaat cgtacttcgt cagagcagca aagacaaata 2821 acagctttgt cgtggatggt gacacactga aggaatgccc actcaaacat agagcatgga 2881 acagctttct tgtggaggat catgggttcg gggtatttca cactagtgtc tggctcaagg 2941 ttagagaaga ttattcatta gagtgtgatc cagccgttat tggaacagct gttaagggaa 3001 aggaggctgt acacagtgat ctaggctact ggattgagag tgagaagaat gacacatgga 3061 ggctgaagag ggcccatctg atcgagatga aaacatgtga atggccaaaa tcccacacat 3121 tgtggacaga tggaatagaa gagagtgatc tgatcatacc caagtcttta gctgggccac 3181 tcagccatca caataccaga gagggctaca ggacccaaat gaaagggcca tggcacagtg 3241 aagagcttga aattcggttt gaggaatgcc caggcactaa ggtccacgtg gaggaaacat 3301 gtggaacaag aggaccatct ctgagatcaa ccactgcaag cggaagggtg atcgaggaat 3361 ggtgctgcag ggagtgcaca atgcccccac tgtcgttctg ggctaaagat ggctgttggt 3421 atggaatgga gataaggccc aggaaagaac cagaaagcaa cttagtaagg tcaatggtga 3481 ctgcaggatc aactgatcac atggatcact tctcccttgg agtgcttgtg attctgctca 3541 tggtgcagga agggctgaag aagagaatga ccacaaagat catcataagc acatcaatgg 3601 cagtgctggt agctatgatc ctgggaggat tttcaatgag tgacctggct aagcttgcaa 3661 ttttgatggg tgccaccttc gcggaaatga acactggagg agatgtagct catctggcgc 3721 tgacagcggc attcaaagtc agaccagcgt tgctggtatc tttcatcttc agagctaatt 3781 ggacaccccg tgaaagcatg ctgctggcct tggcctcgtg tcttttgcaa actgcgatct 3841 ctgccttgga aggcgacctg atggttctca tcaatggttt tgctttggcc tggttggcaa 3901 tacgagcgat ggttgttcca cgcactgaca acatcacctt ggcaatcctg gctgctctga 3961 caccactggc ccggggcaca ctgcttgtgg cgtggagagc aggccttgct acttgcgggg 4021 ggtttatgct cctctctctg aagggaaaag gcagtgtgaa gaagaactta ccatttgtca 4081 tggccctggg actaaccgct gtgaggctgg tcgaccccat caacgtggtg ggactgctgt 4141 tgctcacaag gagtgggaag cggagctggc cccctagcga agtactcaca gctgttggcc 4201 tgatatgtgc attggctgga gggttcgcca aggcagatat agagatggct gggcccatgg 4261 ccgcggtcgg tctgctaatt gtcagttacg tggtctcagg aaagagtgtg gacatgtaca 4321 ttgaaagagc aggtgacatc acatgggaaa aagatgcgga agtcactgga aacagtcccc 4381 ggctcgacgt ggcgctagat gagagtggtg atttctccct ggtggaggat gacggtcccc 4441 ccatgagaga gatcatactc aaggtggtcc tgatgaccat ctgtggcatg aacccaatag 4501 ccataccctt tgcagctgga gcgtggtacg tatacgtgaa gactggaaaa aggagtggtg 4561 ctctatggga tgtgcctgct cccaaggaag taaaaaaggg ggagaccaca gatggagtgt 4621 acagagtaat gactcgtaga ctgctaggtt caacacaagt tggagtggga gttatgcaag 4681 agggggtctt tcacactatg tggcacgtca caaaaggatc cgcgctgaga agcggtgaag 4741 ggagacttga tccatactgg ggagatgtca agcaggatct ggtgtcatac tgtggtccat 4801 ggaagctaga tgccgcctgg gacgggcaca gcgaggtgca gctcttggcc gtgccccccg 4861 gagagagagc gaggaacatc cagactctgc ccggaatatt taagacaaag gatggggaca 4921 ttggagcggt tgcgctggat tacccagcag gaacttcagg atctccaatc ctagacaagt 4981 gtgggagagt gataggactt tatggcaatg gggtcgtgat caaaaatggg agttatgtta 5041 gtgccatcac ccaagggagg agggaggaag agactcctgt tgagtgcttc gagccttcga 5101 tgctgaagaa gaagcagcta actgtcttag acttgcatcc tggagctggg aaaaccagga 5161 gagttcttcc tgaaatagtc cgtgaagcca taaaaacaag actccgtact gtgatcttag 5221 ctccaaccag ggttgtcgct gctgaaatgg aggaagccct tagagggctt ccagtgcgtt 5281 atatgacaac agcagtcaat gtcacccact ctggaacaga aatcgtcgac ttaatgtgcc 5341 atgccacctt cacttcacgt ctactacagc caatcagagt ccccaactat aatctgtata 5401 ttatggatga ggcccacttc acagatccct caagtatagc agcaagagga tacatttcaa 5461 caagggttga gatgggcgag gcggctgcca tcttcatgac cgccacgcca ccaggaaccc 5521 gtgacgcatt tccggactcc aactcaccaa ttatggacac cgaagtggaa gtcccagaga 5581 gagcctggag ctcaggcttt gattgggtga cggatcattc tggaaaaaca gtttggtttg 5641 ttccaagcgt gaggaacggc aatgagatcg cagcttgtct gacaaaggct ggaaaacggg 5701 tcatacagct cagcagaaag acttttgaga cagagttcca gaaaacaaaa catcaagagt 5761 gggactttgt cgtgacaact gacatttcag agatgggcgc caactttaaa gctgaccgtg 5821 tcatagattc caggagatgc ctaaagccgg tcatacttga tggcgagaga gtcattctgg 5881 ctggacccat gcctgtcaca catgccagcg ctgcccagag gagggggcgc ataggcagga 5941 atcccaataa acctggagat gagtatctgt atggaggtgg gtgcgcagag actgacgaag 6001 accatgcaca ctggcttgaa gcaagaatgc tccttgacaa tatttacctc caagatggcc 6061 tcatagcctc gctctatcga cctgaggccg acaaagtagc agccattgag ggagagttca 6121 agcttaggac ggagcaaagg aagacctttg tggaactcat gaaaagagga gatcttcctg 6181 tttggctggc ctatcaggtt gcatctgccg gaataaccta cacagataga agatggtgct 6241 ttgatggcac gaccaacaac accataatgg aagacagtgt gccggcagag gtgtggacca 6301 gacacggaga gaaaagagtg ctcaaaccga ggtggatgga cgccagagtt tgttcagatc 6361 atgcggccct gaagtcattc aaggagtttg ccgctgggaa aagaggagcg gcttttggag 6421 tgatggaagc cctgggaaca ctgccaggac acatgacaga gagattccag gaagccattg 6481 acaacctcgc tgtgctcatg cgggcagaga ctggaagcag gccttacaaa gccgcggcgg 6541 cccaattgcc ggagacccta gagaccatta tgcttttggg gttgctggga acagtctcgc 6601 tgggaatctt tttcgtcttg atgaggaaca agggcatagg gaagatgggc tttggaatgg 6661 tgactcttgg ggccagcgca tggctcatgt ggctctcgga aattgagcca gccagaattg 6721 catgtgtcct cattgttgtg ttcctattgc tggtggtgct catacctgag ccagaaaagc 6781 aaagatctcc ccaggacaac caaatggcaa tcatcatcat ggtagcagta ggtcttctgg 6841 gcttgattac cgccaatgaa ctcggatggt tggagagaac aaagagtgac ctaagccatc 6901 taatgggaag gagagaggag ggggcaacca taggattctc aatggacatt gacctgcggc 6961 cagcctcagc ttgggccatc tatgctgcct tgacaacttt cattacccca gccgtccaac 7021 atgcagtgac cacttcatac aacaactact ccttaatggc gatggccacg caagctggag 7081 tgttgtttgg tatgggcaaa gggatgccat tctacgcatg ggactttgga gtcccactgc 7141 taatgatagg ttgctactca caattaacac ccctgaccct aatagtggcc atcattttgc 7201 tcgtggcgca ctacatgtac ttgatcccag ggctgcaggc agcagctgcg cgtgctgccc 7261 agaagagaac ggcagctggc atcatgaaga accctgttgt ggatggaata gtggtgactg 7321 acattgacac aatgacaatt gacccccaag tggagaaaaa gatgggacag gtgctactca 7381 tagcagtagc cgtctccagc gccatactgt cgcggaccgc ctgggggtgg ggggaggctg 7441 gggccctgat cacagccgca acttccactt tgtgggaagg ctctccgaac aagtactgga 7501 actcctctac agccacttca ctgtgtaaca tttttagggg aagttacttg gctggagctt 7561 ctctaatcta cacagtaaca agaaacgctg gcttggtcaa gagacgtggg ggtggaacag 7621 gagagaccct gggagagaaa tggaaggccc gcttgaacca gatgtcggcc ctggagttct 7681 actcctacaa aaagtcaggc atcaccgagg tgtgcagaga agaggcccgc cgcgccctca 7741 aggacggtgt ggcaacggga ggccatgctg tgtcccgagg aagtgcaaag ctgagatggt 7801 tggtggagcg gggatacctg cagccctatg gaaaggtcat tgatcttgga tgtggcagag 7861 ggggctggag ttactacgcc gccaccatcc gcaaagttca agaagtgaaa ggatacacaa 7921 aaggaggccc tggtcatgaa gaacccgtgt tggtgcaaag ctatgggtgg aacatagtcc 7981 gtcttaagag tggggtggac gtctttcata tggcggctga gccgtgtgac acgttgctgt 8041 gtgacatagg tgagtcatca tctagtcctg aagtggaaga agcacggacg ctcagagtcc 8101 tctccatggt gggggattgg cttgaaaaaa gaccaggagc cttttgtata aaagtgttgt 8161 gcccatacac cagcactatg atggaaaccc tggagcgact gcagcgtagg tatgggggag 8221 gactggtcag agtgccactc tcccgcaact ctacacatga gatgtactgg gtctctggag 8281 cgaaaagcaa caccataaaa agtgtgtcca ccacgagcca gctcctcttg gggcgcatgg 8341 acgggcctag gaggccagtg aaatatgagg aggatgtgaa tctcggctct ggcacgcggg 8401 ctgtggtaag ctgcgctgaa gctcccaaca tgaagatcat tggtaaccgc attgaaagga 8461 tccgcagtga gcacgcggaa acgtggttct ttgacgagaa ccacccatat aggacatggg 8521 cttaccatgg aagctatgag gcccccacac aagggtcagc gtcctctcta ataaacgggg 8581 ttgtcaggct cctgtcaaaa ccctgggatg tggtgactgg agtcacagga atagccatga 8641 ccgacaccac accgtatggt cagcaaagag ttttcaagga aaaagtggac actagggtgc 8701 cagaccccca agaaggcact cgtcaggtta tgagcatggt ctcttcctgg ttgtggaaag 8761 agctaggcaa acacaaacgg ccacgagtct gtaccaaaga agagttcatc aacaaggttc 8821 gtagcaatgc agcattaggg gcaatatttg aagaggaaaa agagtggaag actgcagtgg 8881 aagctgtgaa cgatccaagg ttctgggctc tagtggacaa ggaaagagag caccacctga 8941 gaggagagtg ccagagttgt gtgtacaaca tgatgggaaa aagagaaaag aaacaagggg 9001 aatttggaaa ggccaagggc agccgcgcca tctggtatat gtggctaggg gctagatttc 9061 tagagttcga agcccttgga ttcttgaacg aggatcactg gatggggaga gagaactcag 9121 gaggtggtgt tgaagggctg ggattacaaa gactcggata tgtcctagaa gagatgagtc 9181 gcataccagg aggaaggatg tatgcagatg acactgctgg ctgggacacc cgcatcagca 9241 ggtttgatct ggagaatgaa gctctaatca ccaaccaaat ggagaaaggg cacagggcct 9301 tggcattggc cataatcaag tacacatacc aaaacaaagt ggtaaaggtc cttagaccag 9361 ctgaaaaagg gaaaacagtt atggacatta tttcgagaca agaccaaagg gggagcggac 9421 aagttgtcac ttacgctctt aacacattta ccaacctagt ggtgcaactc attcggaata 9481 tggaggctga ggaagttcta gagatgcaag acttgtggct gctgcggagg tcagagaaag 9541 tgaccaactg gttgcagagc aacggatggg ataggctcaa acgaatggca gtcagtggag 9601 atgattgcgt tgtgaagcca attgatgata ggtttgcaca tgccctcagg ttcttgaatg 9661 atatgggaaa agttaggaag gacacacaag agtggaaacc ctcaactgga tgggacaact 9721 gggaagaagt tccgttttgc tcccaccact tcaacaagct ccatctcaag gacgggaggt 9781 ccattgtggt tccctgccgc caccaagatg aactgattgg ccgggcccgc gtctctccag 9841 gggcgggatg gagcatccgg gagactgctt gcctagcaaa atcatatgcg caaatgtggc 9901 agctccttta tttccacaga agggacctcc gactgatggc caatgccatt tgttcatctg 9961 tgccagttga ctgggttcca actgggagaa ctacctggtc aatccatgga aagggagaat 10021 ggatgaccac tgaagacatg cttgtggtgt ggaacagagt gtggattgag gagaacgacc 10081 acatggaaga caagacccca gttgcgaaat ggacagacat tccctatttg ggaaaaaggg 10141 aagacttgtg gtgtggatct ctcatagggc acagaccgcg caccacctgg gctgagaaca 10201 ttaaaaacac agtcaacatg gtgcgcagga tcataggtga tgaagaaaag tacatggact 10261 acctatccac ccaagttcgc tacttgggtg aagaagggtc tacacctgga gtgctgtaag 10321 caccaatctt aatgttgtca ggcctgctag tcagccacag cttggggaaa gctgtgcagc 10381 ctgtgacccc cccaggagaa gctgggaaac caagcctata gtcaggccga gaacgccatg 10441 gcacggaaga agccatgctg cctgtgagcc cctcagagga cactgagtca aaaaacccca 10501 cgcgcttgga ggcgcaggat gggaaaagaa ggtggcgacc ttccccaccc ttcaatctgg 10561 ggcctgaact ggagatcagc tgtggatctc cagaagaggg actagtggtt agaggag Link to comment Share on other sites More sharing options...
niman Posted February 5, 2016 Author Report Share Posted February 5, 2016 Sequences producing significant alignments:Select:AllNone Selected:0AlignmentsDownloadGenBankGraphicsDistance tree of resultsShow/hide columns of the table presenting sequences producing significant alignmentsSequences producing significant alignments:Select for downloading or viewing reportsDescriptionMax scoreTotal scoreQuery coverE valueIdentAccessionSelect seq gb|KJ776791.1|Zika virus strain H/PF/2013 polyprotein gene, complete cds1901619016100%0.099%KJ776791.1Select seq gb|KU321639.1|Zika virus strain ZikaSPH2015, complete genome1900319003100%0.099%KU321639.1Select seq gb|KU365779.1|Zika virus strain BeH819966 polyprotein gene, complete cds1899018990100%0.099%KU365779.1Select seq gb|KU365780.1|Zika virus strain BeH815744 polyprotein gene, complete cds1898118981100%0.099%KU365780.1Select seq gb|KU365777.1|Zika virus strain BeH818995 polyprotein gene, complete cds1897218972100%0.099%KU365777.1Select seq gb|KU365778.1|Zika virus strain BeH819015 polyprotein gene, complete cds1895418954100%0.099%KU365778.1Select seq gb|KU312312.1|Zika virus isolate Z1106033 polyprotein gene, complete cds185321853297%0.099%KU312312.1Select seq gb|JN860885.1|Zika virus isolate FSS13025 polyprotein gene, partial cds177571775796%0.098%JN860885.1Select seq gb|KF993678.1|Zika virus strain PLCal_ZV from Canada polyprotein gene, partial cds177241772495%0.099%KF993678.1Select seq gb|EU545988.1|Zika virus polyprotein gene, complete cds176071760796%0.098%EU545988.1Select seq gb|HQ234499.1|Zika virus isolate P6-740 polyprotein gene, partial cds164291642996%0.095%HQ234499.1 Link to comment Share on other sites More sharing options...
niman Posted February 5, 2016 Author Report Share Posted February 5, 2016 Volume 22, Number 5—May 2016LetterPhylogeny of Zika Virus in Western Hemisphere, 2015Robert S. Lanciotti , Amy J. Lambert, Mark Holodniy, Sonia Saavedra, and Leticia del Carmen Castillo SignorAuthor affiliations: Centers for Disease Control and Prevention, Fort Collins, Colorado, USA (R.S. Lanciotti, A.J. Lambert); Department of Veterans Affairs, Palo Alto, California, USA (M. Holodniy); VA Caribbean Health Care System, San Juan, Puerto Rico, USA (S. Saavedra); Laboratorio Nacional de Salud Guatemala, Villa Nueva, Guatemala (L. del Carmen Castillo Signor)Main ArticleFigureFigure. Phylogenetic tree of Zika virus isolates identified from Guatemala and Puerto Rico in December 2015 (indicated in boldface) compared with reference isolates obtained from GenBank. The isolates from Guatemala and Puerto Rico grouped with other Asian genotype viruses. The tree was derived by neighbor-joining methods (bootstrapped 1,000 times) using complete-genome sequences. Location, year identified, and GenBank strain identification for the viruses used in tree construction are shown. Scale bar indicates number of nucleotide substitutions per site. GenBank accession nos.: KU321639 (Brazil 2015 SPH2015), KJ776791 (French Polynesia H/PF/2013), KF383115 (Central African Republic ARB1362), KF383116 (Senegal 1968 ArD7117), KF383117 (Senegal 1997 ArD128000), KF383118 (Senegal 2001 ArD157995), KF383119 (Senegal 2001 ArD158084), KF268948 (CAR 1979 ARB13565), KF268949 (CAR 1980 ARB15076), KF268950 (CAR 1976 ARB7701), EU545988 (Yap 2007), KF993678 (Thailand 2013 PLCal_ZV), JN860885 (Cambodia 2010 FSS13025), HQ234499 (Malaysia 1966 P6-740), HQ234501 (Senegal 1984 ArD41519), HQ234500 (Nigeria 1968 IbH 30656), LC002520 (Uganda 1947 MR766), KU501215 (Puerto Rico PRVABC59), KU501216 (Guatemala 8375), and KU501217 (Guatemala 103344). Link to comment Share on other sites More sharing options...
niman Posted February 5, 2016 Author Report Share Posted February 5, 2016 Sequences producing significant alignments:Select:AllNone Selected:0AlignmentsDownloadGenBankGraphicsDistance tree of resultsShow/hide columns of the table presenting sequences producing significant alignmentsSequences producing significant alignments:Select for downloading or viewing reportsDescriptionMax scoreTotal scoreQuery coverE valueIdentAccessionSelect seq gb|KU365778.1|Zika virus strain BeH819015 polyprotein gene, complete cds191131911399%0.099%KU365778.1Select seq gb|KU365779.1|Zika virus strain BeH819966 polyprotein gene, complete cds191021910299%0.099%KU365779.1Select seq gb|KU365780.1|Zika virus strain BeH815744 polyprotein gene, complete cds190931909399%0.099%KU365780.1Select seq gb|KU365777.1|Zika virus strain BeH818995 polyprotein gene, complete cds190841908499%0.099%KU365777.1Select seq gb|KU321639.1|Zika virus strain ZikaSPH2015, complete genome190551905599%0.099%KU321639.1Select seq gb|KJ776791.1|Zika virus strain H/PF/2013 polyprotein gene, complete cds189921899299%0.099%KJ776791.1Select seq gb|KU312312.1|Zika virus isolate Z1106033 polyprotein gene, complete cds185831858397%0.099%KU312312.1Select seq gb|JN860885.1|Zika virus isolate FSS13025 polyprotein gene, partial cds177391773996%0.098%JN860885.1Select seq gb|KF993678.1|Zika virus strain PLCal_ZV from Canada polyprotein gene, partial cds176881768894%0.099%KF993678.1Select seq gb|EU545988.1|Zika virus polyprotein gene, complete cds175851758596%0.098%EU545988.1Select seq gb|HQ234499.1|Zika virus isolate P6-740 polyprotein gene, partial cds164241642496%0.095%HQ234499.1 Link to comment Share on other sites More sharing options...
niman Posted February 9, 2016 Author Report Share Posted February 9, 2016 Sequences producing significant alignments:Select:AllNone Selected:0AlignmentsDownloadGenBankGraphicsDistance tree of resultsShow/hide columns of the table presenting sequences producing significant alignmentsSequences producing significant alignments:Select for downloading or viewing reportsDescriptionMax scoreTotal scoreQuery coverE valueIdentAccessionSelect seq gb|KU647676.1|Zika virus strain MRS_OPY_Martinique_PaRi_2015 polyprotein gene, complete cds1852518525100%0.0100%KU647676.1Select seq gb|KU509998.1|Zika virus strain Haiti/1225/2014, complete genome1840218402100%0.099%KU509998.1Select seq gb|KJ776791.1|Zika virus strain H/PF/2013 polyprotein gene, complete cds1839918399100%0.099%KJ776791.1Select seq gb|KU321639.1|Zika virus strain ZikaSPH2015, complete genome1839018390100%0.099%KU321639.1Select seq gb|KU365779.1|Zika virus strain BeH819966 polyprotein gene, complete cds1838118381100%0.099%KU365779.1Select seq gb|KU365780.1|Zika virus strain BeH815744 polyprotein gene, complete cds1836618366100%0.099%KU365780.1Select seq gb|KU365777.1|Zika virus strain BeH818995 polyprotein gene, complete cds1836318363100%0.099%KU365777.1Select seq gb|KU501217.1|Zika virus strain 8375 polyprotein gene, complete cds1835718357100%0.099%KU501217.1Select seq gb|KU501216.1|Zika virus strain 103344 polyprotein gene, complete cds1835418354100%0.099%KU501216.1Select seq gb|KU365778.1|Zika virus strain BeH819015 polyprotein gene, complete cds1834818348100%0.099%KU365778.1Select seq gb|KU312312.1|Zika virus isolate Z1106033 polyprotein gene, complete cds1834818348100%0.099%KU312312.1Select seq gb|KU501215.1|Zika virus strain PRVABC59, complete genome1833918339100%0.099%KU501215.1Select seq gb|JN860885.1|Zika virus isolate FSS13025 polyprotein gene, partial cds177571775799%0.098%JN860885.1Select seq gb|KF993678.1|Zika virus strain PLCal_ZV from Canada polyprotein gene, partial cds177241772498%0.099%KF993678.1Select seq gb|EU545988.1|Zika virus polyprotein gene, complete cds1760717607100%0.098%EU545988.1 Link to comment Share on other sites More sharing options...
Recommended Posts
Please sign in to comment
You will be able to leave a comment after signing in
Sign In Now