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Miami Wynwood and Miami Beach Florida Zika Cases Linked


niman

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Last week the Andersen Lab at Scripps http://andersen-lab.com/ released a series of sequences from 2 patients and 3 mosquito batches collected in Miami.  These data indicated all five sequences fell on the same branch of a phylogenetic tree which was shared by sequences from an English traveler to Guadeloupe and an Italian traveler to the Dominican Republic (see tree posted below).

The lab is preparing to release another series, and has posted the sequence data on their website.  Included are six full Zika sequences from collections between July 16 and August 17.  The July collections (ZF 21 and ZF 22) are likely sequences from Wynwood, based on descriptions of local Florida cases.  

All six of the sequences in progress fall on the same branch as the five sequences deposited at Genbank (see second tree posted below), raising concerns of an introduction into Florida that significantly pre-dates Wynwood..  

 

Edited by niman
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LOCUS       KX838904               10524 bp    RNA     linear   VRL 22-SEP-2016
DEFINITION  Zika virus isolate ZIKV/Aedes_aegypti/USA/2016/ZM1-7501 polyprotein
            gene, complete cds.
ACCESSION   KX838904
VERSION     KX838904.1  GI:1063797021
DBLINK      BioProject: PRJNA342539
            BioSample: SAMN05761900
KEYWORDS    .
SOURCE      Zika virus
  ORGANISM  Zika virus
            Viruses; ssRNA viruses; ssRNA positive-strand viruses, no DNA
            stage; Flaviviridae; Flavivirus.
REFERENCE   1  (bases 1 to 10524)
  AUTHORS   Grubaugh,N., Paul,L., Gangavarupu,K., Oliveira,G.,
            Robles-Sikisaka,R., Michael,S., Isern,S. and Andersen,K.
  TITLE     Zika virus sequences from Florida, USA, 2016
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 10524)
  AUTHORS   Grubaugh,N., Paul,L., Gangavarupu,K., Oliveira,G.,
            Robles-Sikisaka,R., Michael,S., Isern,S. and Andersen,K.
  TITLE     Direct Submission
  JOURNAL   Submitted (12-SEP-2016) Department of Immunology and Microbial
            Science, The Scripps Research Institute, 10550 North Torrey Pines
            Road, IMM-210, La Jolla, CA 92037, USA
COMMENT     ##Assembly-Data-START##
            Assembly Method       :: NovoAlign v. V3.04
            Coverage              :: 160,000
            Sequencing Technology :: Illumina
            ##Assembly-Data-END##
FEATURES             Location/Qualifiers
     source          1..10524
                     /organism="Zika virus"
                     /mol_type="genomic RNA"
                     /isolate="ZIKV/Aedes_aegypti/USA/2016/ZM1-7501"
                     /isolation_source="pool of 39 adult mosquitoes"
                     /host="Aedes aegypti"
                     /db_xref="taxon:64320"
                     /country="USA: Miami, Florida"
                     /collection_date="22-Aug-2016"
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LOCUS       KX838905               10475 bp    RNA     linear   VRL 22-SEP-2016
DEFINITION  Zika virus isolate ZIKV/Aedes_aegypti/USA/2016/ZM2-7719 polyprotein
            gene, complete cds.
ACCESSION   KX838905
VERSION     KX838905.1  GI:1063797023
DBLINK      BioProject: PRJNA342539
            BioSample: SAMN05761899
KEYWORDS    .
SOURCE      Zika virus
  ORGANISM  Zika virus
            Viruses; ssRNA viruses; ssRNA positive-strand viruses, no DNA
            stage; Flaviviridae; Flavivirus.
REFERENCE   1  (bases 1 to 10475)
  AUTHORS   Grubaugh,N., Paul,L., Gangavarupu,K., Oliveira,G.,
            Robles-Sikisaka,R., Michael,S., Isern,S. and Andersen,K.
  TITLE     Zika virus sequences from Florida, USA, 2016
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 10475)
  AUTHORS   Grubaugh,N., Paul,L., Gangavarupu,K., Oliveira,G.,
            Robles-Sikisaka,R., Michael,S., Isern,S. and Andersen,K.
  TITLE     Direct Submission
  JOURNAL   Submitted (12-SEP-2016) Department of Immunology and Microbial
            Science, The Scripps Research Institute, 10550 North Torrey Pines
            Road, IMM-210, La Jolla, CA 92037, USA
COMMENT     ##Assembly-Data-START##
            Assembly Method       :: NovoAlign v. V3.04
            Coverage              :: 160,000
            Sequencing Technology :: Illumina
            ##Assembly-Data-END##
FEATURES             Location/Qualifiers
     source          1..10475
                     /organism="Zika virus"
                     /mol_type="genomic RNA"
                     /isolate="ZIKV/Aedes_aegypti/USA/2016/ZM2-7719"
                     /isolation_source="pool of 25 adult mosquitoes"
                     /host="Aedes aegypti"
                     /db_xref="taxon:64320"
                     /country="USA: Miami, Florida"
                     /collection_date="23-Aug-2016"
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LOCUS       KX838906               10610 bp    RNA     linear   VRL 22-SEP-2016
DEFINITION  Zika virus isolate ZIKV/Aedes_aegypti/USA/2016/ZM3-7729 polyprotein
            gene, complete cds.
ACCESSION   KX838906
VERSION     KX838906.1  GI:1063797025
DBLINK      BioProject: PRJNA342539
            BioSample: SAMN05761898
KEYWORDS    .
SOURCE      Zika virus
  ORGANISM  Zika virus
            Viruses; ssRNA viruses; ssRNA positive-strand viruses, no DNA
            stage; Flaviviridae; Flavivirus.
REFERENCE   1  (bases 1 to 10610)
  AUTHORS   Grubaugh,N., Paul,L., Gangavarupu,K., Oliveira,G.,
            Robles-Sikisaka,R., Michael,S., Isern,S. and Andersen,K.
  TITLE     Zika virus sequences from Florida, USA, 2016
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 10610)
  AUTHORS   Grubaugh,N., Paul,L., Gangavarupu,K., Oliveira,G.,
            Robles-Sikisaka,R., Michael,S., Isern,S. and Andersen,K.
  TITLE     Direct Submission
  JOURNAL   Submitted (12-SEP-2016) Department of Immunology and Microbial
            Science, The Scripps Research Institute, 10550 North Torrey Pines
            Road, IMM-210, La Jolla, CA 92037, USA
COMMENT     ##Assembly-Data-START##
            Assembly Method       :: NovoAlign v. V3.04
            Coverage              :: 160,000
            Sequencing Technology :: Illumina
            ##Assembly-Data-END##
FEATURES             Location/Qualifiers
     source          1..10610
                     /organism="Zika virus"
                     /mol_type="genomic RNA"
                     /isolate="ZIKV/Aedes_aegypti/USA/2016/ZM3-7729"
                     /isolation_source="pool of 15 adult mosquitoes"
                     /host="Aedes aegypti"
                     /db_xref="taxon:64320"
                     /country="USA: Miami, Florida"
                     /collection_date="23-Aug-2016"
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LOCUS       KX842449               10388 bp    RNA     linear   VRL 22-SEP-2016
DEFINITION  Zika virus isolate ZIKV/Human/USA/2016/ZF10.UR-010 polyprotein
            gene, complete cds.
ACCESSION   KX842449
VERSION     KX842449.1  GI:1063906997
DBLINK      BioProject: PRJNA342539
            BioSample: SAMN05792872
KEYWORDS    .
SOURCE      Zika virus
  ORGANISM  Zika virus
            Viruses; ssRNA viruses; ssRNA positive-strand viruses, no DNA
            stage; Flaviviridae; Flavivirus.
REFERENCE   1  (bases 1 to 10388)
  AUTHORS   Grubaugh,N., Tan,A., Gangavarupu,K., Oliveira,G.,
            Robles-Sikisaka,R., Cone,M., Kopp,E., Hogan,K., Cannons,A.,
            Michael,S., Isern,S. and Andersen,K.
  TITLE     Zika virus sequences from Florida, USA, 2016
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 10388)
  AUTHORS   Grubaugh,N., Tan,A., Gangavarupu,K., Oliveira,G.,
            Robles-Sikisaka,R., Cone,M., Kopp,E., Hogan,K., Cannons,A.,
            Michael,S., Isern,S. and Andersen,K.
  TITLE     Direct Submission
  JOURNAL   Submitted (13-SEP-2016) Department of Immunology and Microbial
            Science, The Scripps Research Institute, 10550 North Torrey Pines
            Road, IMM-210, La Jolla, CA 92037, USA
COMMENT     ##Assembly-Data-START##
            Assembly Method       :: NovoAlign v. V3.04
            Coverage              :: 80,000
            Sequencing Technology :: Illumina
            ##Assembly-Data-END##
FEATURES             Location/Qualifiers
     source          1..10388
                     /organism="Zika virus"
                     /mol_type="genomic RNA"
                     /isolate="ZIKV/Human/USA/2016/ZF10.UR-010"
                     /isolation_source="urine"
                     /host="Homo sapiens"
                     /db_xref="taxon:64320"
                     /country="USA: Miami, Florida"
                     /collection_date="22-Jun-2016"
                     /note="direct clinical sequencing; person returned from
                     Cuba 21 days prior to sample collection, but infection may
                     have occurred in Miami"
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LOCUS       KX832731               10467 bp    RNA     linear   VRL 22-SEP-2016
DEFINITION  Zika virus isolate ZIKV/Human/USA/2016/ZL2.SA-Hu0015 polyprotein
            gene, complete cds.
ACCESSION   KX832731
VERSION     KX832731.1  GI:1063797019
DBLINK      BioProject: PRJNA342539
            BioSample: SAMN05761901
KEYWORDS    .
SOURCE      Zika virus
  ORGANISM  Zika virus
            Viruses; ssRNA viruses; ssRNA positive-strand viruses, no DNA
            stage; Flaviviridae; Flavivirus.
REFERENCE   1  (bases 1 to 10467)
  AUTHORS   Grubaugh,N., Gangavarupu,K., Oliveira,G., Robles-Sikisaka,R.,
            Watkins,D., Lichtenberger,P., Ricciardi,M., Bailey,V., Magnani,D.
            and Andersen,K.
  TITLE     Zika virus sequences from Florida, USA, 2016
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 10467)
  AUTHORS   Grubaugh,N., Gangavarupu,K., Oliveira,G., Robles-Sikisaka,R.,
            Watkins,D., Lichtenberger,P., Ricciardi,M., Bailey,V., Magnani,D.
            and Andersen,K.
  TITLE     Direct Submission
  JOURNAL   Submitted (11-SEP-2016) Department of Immunology and Microbial
            Science, The Scripps Research Institute, 10550 North Torrey Pines
            Road, IMM-210, La Jolla, CA 92037, USA
COMMENT     ##Assembly-Data-START##
            Assembly Method       :: NovoAlign v. V2
            Sequencing Technology :: Illumina
            ##Assembly-Data-END##
FEATURES             Location/Qualifiers
     source          1..10467
                     /organism="Zika virus"
                     /mol_type="genomic RNA"
                     /isolate="ZIKV/Human/USA/2016/ZL2.SA-Hu0015"
                     /isolation_source="saliva"
                     /host="Homo sapiens"
                     /db_xref="taxon:64320"
                     /country="USA: Miami, Florida"
                     /collection_date="24-Aug-2016"
                     /note="direct clinical sequencing"
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ZF32_32U|XX|2016-08-05 matches

Sequences producing significant alignments:

Select:AllNone Selected:0

Sequences producing significant alignments:
Select for downloading or viewing reports Description Max score Total score Query cover E value Ident Accession
18493 18493 100% 0.0 99% KX838906.1
18429 18429 100% 0.0 99% KX673530.1
18426 18426 100% 0.0 99% KU853013.1
18424 18424 100% 0.0 99% KU853012.1
18417 18417 100% 0.0 99% KX842449.1
18411 18411 100% 0.0 99% KX838905.1
18408 18408 100% 0.0 99% KX838904.1
18408 18408 100% 0.0 99% KX832731.1
18336 18336 100% 0.0 99% KX447510.1
18330 18330 100% 0.0 99% KX280026.1
18330 18330 100% 0.0 99% KU729217.2
18327 18327 100% 0.0 99% KX447512.1
18327 18327 100% 0.0 99% KX369547.1
18327 18327 100% 0.0 99% KU509998.3
18321 18321 100% 0.0 99% KJ776791.2
18321 18321 100% 0.0 99% KX447509.1
18321 18321 100% 0.0 99% KU991811.1
18318 18318 100% 0.0 99% KX447513.1
18312 18312 100% 0.0 99% KX811222.1
18312 18312 100% 0.0 99% KX197205.1
18312 18312 100% 0.0 99% KX447515.1
18312 18312 100% 0.0 99% KX447511.1
18312 18312 100% 0.0 99% KU707826.1
18312 18312 100% 0.0 99% KU365779.1
18312 18312 100% 0.0 99% KU321639.1
18309 18309 100% 0.0 99% KX447514.1
18309 18309 100% 0.0 99% KX262887.1
18309 18309 100% 0.0 99% KX051563.1
18309 18309 100% 0.0 99% KU926309.1
18303 18303 100% 0.0 99% KX447516.1
18303 18303 100% 0.0 99% KU729218.1
18303 18303 100% 0.0 99% KU527068.1
18300 18300 100% 0.0 99% KX694534.1
18300 18300 100% 0.0 99% KX197192.1
18300 18300 100% 0.0 99% KU926310.1
18300 18300 100% 0.0 99% KU501217.1
18300 18300 100% 0.0 99% KU365780.1
18294 18294 100% 0.0 99% KU940228.1
18294 18294 100% 0.0 99% KU501216.1
18294 18294 100% 0.0 99% KU365777.1
18291 18291 100% 0.0 99% KU758877.1
18291 18291 100% 0.0 99% KX247632.1
18291 18291 100% 0.0 99% KX198135.1
18285 18285 100% 0.0 99% KU647676.1
18282 18282 100% 0.0 99% KX856011.1
18282 18282 100% 0.0 99% KX447517.1
18282 18282 100% 0.0 99% KX446951.1
18282 18282 100% 0.0 99% KX247646.1
18282 18282 100% 0.0 99% KX156776.1
18282 18282 100% 0.0 99% KU501215.1
18282 18282 100% 0.0 99% KU365778.1
18282 18282 100% 0.0 99% KU312312.1
18278 18278 99% 0.0 99% KU497555.1
18276 18276 100% 0.0 99% KX601168.1
18276 18276 100% 0.0 99% KX520666.1
18276 18276 100% 0.0 99% KX446950.1
18276 18276 100% 0.0 99% KX087101.2
18276 18276 100% 0.0 99% KX156774.1
18273 18273 100% 0.0 99% KU820897.5
18273 18273 100% 0.0 99% KX377337.1
18273 18273 100% 0.0 99% KU937936.1
18273 18273 100% 0.0 99% KX156775.1
18273 18273 100% 0.0 99% KX087102.1
18267 18267 100% 0.0 99% KU870645.1
18267 18267 100% 0.0 99% KU922960.1
18264 18264 100% 0.0 99% KX806557.1
18264 18264 100% 0.0 99% KX766029.1
18264 18264 100% 0.0 99% KX548902.1
18264 18264 100% 0.0 99% KU922923.1
18254 18254 100% 0.0 99% KX702400.1
18254 18254 100% 0.0 99% KU820898.1
18249 18249 100% 0.0 99% KX056898.1
18249 18249 100% 0.0 99% KU955590.1
18247 18247 100% 0.0 99% KX766028.1
18245 18245 100% 0.0 99% KU740184.2
18245 18245 100% 0.0 99% KU761564.1
18231 18231 100% 0.0 99% KX117076.1
18222 18222 100% 0.0 99% KX185891.1
18222 18222 100% 0.0 99% KU963796.1
18218 18218 100% 0.0 99% KX253996.1
18218 18218 100% 0.0 99% KU955589.1
18218 18218 100% 0.0 99% KU820899.2
18215 18215 100% 0.0 99% KX266255.1
18213 18213 100% 0.0 99% KU866423.2
18200 18200 99% 0.0 99% KU940224.1
18087 18087 100% 0.0 99% KU744693.1
18074 18074 100% 0.0 99% KX827309.1
18060 18060 100% 0.0 99% KX813683.1
18015 18015 100% 0.0 99% KU681081.3
17894 17894 100% 0.0 99% KX694532.1
17699 17699 100% 0.0 98% KU955593.1
17699 17699 99% 0.0 98% JN860885.1
17661 17661 98% 0.0 99% KF993678.1
17553 17553 100% 0.0 98% EU545988.1
17407 17407 100% 0.0 98% KU681082.3
16388 16388 100% 0.0 95% KX601167.1
16379 16379 100% 0.0 95% KX694533.1
16379 16379 99% 0.0 95% HQ234499.1
16374 16374 100% 0.0 95% KX377336.1
16190 16190 88% 0.0 99% KX447518.1
Edited by niman
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ZF21_21U|XX|2016-07-19 matches

Sequences producing significant alignments:

Select:AllNone Selected:0

Sequences producing significant alignments:
Select for downloading or viewing reports Description Max score Total score Query cover E value Ident Accession
18498 18498 100% 0.0 99% KX842449.1
18493 18493 100% 0.0 99% KX838905.1
18489 18489 100% 0.0 99% KX832731.1
18480 18480 100% 0.0 99% KX838904.1
18444 18444 100% 0.0 99% KU853013.1
18442 18442 100% 0.0 99% KU853012.1
18420 18420 100% 0.0 99% KX673530.1
18411 18411 100% 0.0 99% KX838906.1
18354 18354 100% 0.0 99% KX447510.1
18348 18348 100% 0.0 99% KX280026.1
18345 18345 100% 0.0 99% KX447512.1
18345 18345 100% 0.0 99% KX369547.1
18345 18345 100% 0.0 99% KU509998.3
18339 18339 100% 0.0 99% KJ776791.2
18339 18339 100% 0.0 99% KX447509.1
18339 18339 100% 0.0 99% KU991811.1
18339 18339 100% 0.0 99% KU729217.2
18336 18336 100% 0.0 99% KX447513.1
18330 18330 100% 0.0 99% KX811222.1
18330 18330 100% 0.0 99% KX197205.1
18330 18330 100% 0.0 99% KX447515.1
18330 18330 100% 0.0 99% KX447511.1
18330 18330 100% 0.0 99% KU707826.1
18330 18330 100% 0.0 99% KU365779.1
18330 18330 100% 0.0 99% KU321639.1
18327 18327 100% 0.0 99% KX447514.1
18327 18327 100% 0.0 99% KX262887.1
18327 18327 100% 0.0 99% KX051563.1
18327 18327 100% 0.0 99% KU926309.1
18321 18321 100% 0.0 99% KX447516.1
18321 18321 100% 0.0 99% KU729218.1
18321 18321 100% 0.0 99% KU527068.1
18318 18318 100% 0.0 99% KX694534.1
18318 18318 100% 0.0 99% KX197192.1
18318 18318 100% 0.0 99% KU926310.1
18318 18318 100% 0.0 99% KU501217.1
18318 18318 100% 0.0 99% KU365780.1
18312 18312 100% 0.0 99% KU940228.1
18312 18312 100% 0.0 99% KU501216.1
18312 18312 100% 0.0 99% KU365777.1
18309 18309 100% 0.0 99% KU758877.1
18309 18309 100% 0.0 99% KX198135.1
18303 18303 100% 0.0 99% KU647676.1
18300 18300 100% 0.0 99% KX447517.1
18300 18300 100% 0.0 99% KX247646.1
18300 18300 100% 0.0 99% KX247632.1
18300 18300 100% 0.0 99% KX156776.1
18300 18300 100% 0.0 99% KU501215.1
18300 18300 100% 0.0 99% KU365778.1
18300 18300 100% 0.0 99% KU312312.1
18296 18296 99% 0.0 99% KU497555.1
18294 18294 100% 0.0 99% KX601168.1
18294 18294 100% 0.0 99% KX520666.1
18294 18294 100% 0.0 99% KX087101.2
18294 18294 100% 0.0 99% KX156774.1
18291 18291 100% 0.0 99% KX856011.1
18291 18291 100% 0.0 99% KU820897.5
18291 18291 100% 0.0 99% KX446951.1
18291 18291 100% 0.0 99% KX377337.1
18291 18291 100% 0.0 99% KU937936.1
18291 18291 100% 0.0 99% KX156775.1
18291 18291 100% 0.0 99% KX087102.1
18285 18285 100% 0.0 99% KX446950.1
18285 18285 100% 0.0 99% KU870645.1
18285 18285 100% 0.0 99% KU922960.1
18282 18282 100% 0.0 99% KX806557.1
18282 18282 100% 0.0 99% KX548902.1
18282 18282 100% 0.0 99% KU922923.1
18273 18273 100% 0.0 99% KX766029.1
18273 18273 100% 0.0 99% KX702400.1
18273 18273 100% 0.0 99% KU820898.1
18267 18267 100% 0.0 99% KX056898.1
18267 18267 100% 0.0 99% KU955590.1
18265 18265 100% 0.0 99% KX766028.1
18264 18264 100% 0.0 99% KU740184.2
18264 18264 100% 0.0 99% KU761564.1
18249 18249 100% 0.0 99% KX117076.1
18240 18240 100% 0.0 99% KX185891.1
18240 18240 100% 0.0 99% KU963796.1
18236 18236 100% 0.0 99% KX253996.1
18236 18236 100% 0.0 99% KU955589.1
18236 18236 100% 0.0 99% KU820899.2
18233 18233 100% 0.0 99% KX266255.1
18231 18231 100% 0.0 99% KU866423.2
18218 18218 99% 0.0 99% KU940224.1
18105 18105 100% 0.0 99% KU744693.1
18083 18083 100% 0.0 99% KX827309.1
18069 18069 100% 0.0 99% KX813683.1
18015 18015 100% 0.0 99% KU681081.3
17894 17894 100% 0.0 99% KX694532.1
17708 17708 100% 0.0 98% KU955593.1
17708 17708 99% 0.0 98% JN860885.1
17661 17661 98% 0.0 99% KF993678.1
17553 17553 100% 0.0 98% EU545988.1
17407 17407 100% 0.0 98% KU681082.3
16379 16379 100% 0.0 95% KX601167.1
16370 16370 100% 0.0 95% KX694533.1
16370 16370 99% 0.0 95% HQ234499.1
16365 16365 100% 0.0 95% KX377336.1
16202 16202 88% 0.0 99% KX447518.1
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ZF22_22U|XX|2016-07-16 matches

Sequences producing significant alignments:

Select:AllNone Selected:0

Sequences producing significant alignments:
Select for downloading or viewing reports Description Max score Total score Query cover E value Ident Accession
17454 18355 99% 0.0 99% KX842449.1
17445 18341 99% 0.0 99% KX838905.1
17445 18346 99% 0.0 99% KX832731.1
17436 18337 99% 0.0 99% KX838904.1
17416 18319 99% 0.0 99% KU853012.1
17414 18319 99% 0.0 99% KU853013.1
17387 18288 99% 0.0 99% KX673530.1
17373 18277 99% 0.0 99% KX838906.1
17324 18229 99% 0.0 99% KX447510.1
17319 18223 99% 0.0 99% KX280026.1
17315 18220 99% 0.0 99% KX447512.1
17315 18220 99% 0.0 99% KX369547.1
17315 18220 99% 0.0 99% KU509998.3
17315 18216 99% 0.0 99% KU991811.1
17310 18214 99% 0.0 99% KJ776791.2
17310 18214 99% 0.0 99% KX447509.1
17310 18214 99% 0.0 99% KU729217.2
17306 18207 99% 0.0 99% KX197205.1
17306 18211 99% 0.0 99% KX447513.1
17306 18207 99% 0.0 99% KU707826.1
17306 18207 99% 0.0 99% KU365779.1
17301 18205 99% 0.0 99% KX811222.1
17301 18205 99% 0.0 99% KX447515.1
17301 18205 99% 0.0 99% KX447511.1
17301 18202 99% 0.0 99% KU926309.1
17301 18205 99% 0.0 99% KU321639.1
17297 18202 99% 0.0 99% KX447514.1
17297 18202 99% 0.0 99% KX262887.1
17297 18202 99% 0.0 99% KX051563.1
17291 18196 99% 0.0 99% KX447516.1
17291 18196 99% 0.0 99% KU729218.1
17291 18196 99% 0.0 99% KU527068.1
17288 18193 99% 0.0 99% KX694534.1
17288 18189 99% 0.0 99% KX198135.1
17288 18193 99% 0.0 99% KX197192.1
17288 18189 99% 0.0 99% KU940228.1
17288 18193 99% 0.0 99% KU926310.1
17288 18193 99% 0.0 99% KU501217.1
17288 18193 99% 0.0 99% KU365780.1
17288 18189 99% 0.0 99% KU365777.1
17282 18184 99% 0.0 99% KU758877.1
17282 18187 99% 0.0 99% KU501216.1
17279 18175 99% 0.0 99% KX156776.1
17279 18180 99% 0.0 99% KU647676.1
17273 18169 99% 0.0 99% KX156774.1
17273 18171 99% 0.0 99% KU497555.1
17273 18175 99% 0.0 99% KU365778.1
17270 18175 99% 0.0 99% KX447517.1
17270 18171 99% 0.0 99% KX520666.1
17270 18175 99% 0.0 99% KX247646.1
17270 18175 99% 0.0 99% KX247632.1
17270 18166 99% 0.0 99% KX156775.1
17270 18175 99% 0.0 99% KU312312.1
17264 18166 99% 0.0 99% KU820897.5
17264 18166 99% 0.0 99% KX087102.1
17261 18166 99% 0.0 99% KX856011.1
17261 18157 99% 0.0 99% KX548902.1
17261 18166 99% 0.0 99% KX446951.1
17261 18166 99% 0.0 99% KU937936.1
17261 18162 99% 0.0 99% KU922960.1
17261 18166 99% 0.0 99% KU501215.1
17255 18160 99% 0.0 99% KX601168.1
17255 18160 99% 0.0 99% KX446950.1
17255 18160 99% 0.0 99% KX087101.2
17255 18160 99% 0.0 99% KU870645.1
17255 18157 99% 0.0 99% KU922923.1
17252 18157 99% 0.0 99% KX806557.1
17252 18157 99% 0.0 99% KX377337.1
17252 18148 99% 0.0 99% KU955590.1
17246 18148 99% 0.0 99% KX056898.1
17246 18151 99% 0.0 99% KU820898.1
17245 18146 99% 0.0 99% KX766028.1
17243 18148 99% 0.0 99% KX766029.1
17243 18148 99% 0.0 99% KX702400.1
17243 18144 99% 0.0 99% KU740184.2
17243 18144 99% 0.0 99% KU761564.1
17219 18124 99% 0.0 99% KX117076.1
17210 18115 99% 0.0 99% KX185891.1
17210 18115 99% 0.0 99% KU963796.1
17207 18112 99% 0.0 99% KX253996.1
17207 18112 99% 0.0 99% KU955589.1
17207 18112 99% 0.0 99% KU820899.2
17203 18108 99% 0.0 99% KX266255.1
17201 18106 99% 0.0 99% KU866423.2
17192 18093 98% 0.0 99% KU940224.1
17084 17980 99% 0.0 99% KU744693.1
17071 17964 99% 0.0 99% KX827309.1
17057 17949 99% 0.0 99% KX813683.1
16999 17882 99% 0.0 99% KU681081.3
16886 17763 99% 0.0 99% KX694532.1
16722 17574 99% 0.0 98% JN860885.1
16720 17576 99% 0.0 98% KU955593.1
16686 17533 98% 0.0 99% KF993678.1
16550 17419 99% 0.0 98% EU545988.1
16444 17282 99% 0.0 98% KU681082.3
16199 16199 88% 0.0 99% KX447518.1
15452 16272 99% 0.0 95% KX601167.1
15447 16265 99% 0.0 95% HQ234499.1
15443 16263 99% 0.0 95% KX694533.1
15443 16263 99% 0.0 95% KX377336.1
Edited by niman
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ZF30_30U|XX|2016-08-02 matches

Sequences producing significant alignments:

Select:AllNone Selected:0

Sequences producing significant alignments:
Select for downloading or viewing reports Description Max score Total score Query cover E value Ident Accession
18489 18489 100% 0.0 99% KX842449.1
18480 18480 100% 0.0 99% KX832731.1
18474 18474 100% 0.0 99% KX838905.1
18471 18471 100% 0.0 99% KX838904.1
18444 18444 100% 0.0 99% KU853013.1
18442 18442 100% 0.0 99% KU853012.1
18411 18411 100% 0.0 99% KX673530.1
18402 18402 100% 0.0 99% KX838906.1
18363 18363 100% 0.0 99% KX447510.1
18357 18357 100% 0.0 99% KX280026.1
18354 18354 100% 0.0 99% KX447512.1
18354 18354 100% 0.0 99% KX369547.1
18354 18354 100% 0.0 99% KU509998.3
18348 18348 100% 0.0 99% KJ776791.2
18348 18348 100% 0.0 99% KX447509.1
18348 18348 100% 0.0 99% KU991811.1
18348 18348 100% 0.0 99% KU729217.2
18345 18345 100% 0.0 99% KX447513.1
18339 18339 100% 0.0 99% KX811222.1
18339 18339 100% 0.0 99% KX197205.1
18339 18339 100% 0.0 99% KX447515.1
18339 18339 100% 0.0 99% KX447511.1
18339 18339 100% 0.0 99% KU707826.1
18339 18339 100% 0.0 99% KU365779.1
18339 18339 100% 0.0 99% KU321639.1
18336 18336 100% 0.0 99% KX447514.1
18336 18336 100% 0.0 99% KX262887.1
18336 18336 100% 0.0 99% KX051563.1
18336 18336 100% 0.0 99% KU926309.1
18330 18330 100% 0.0 99% KX447516.1
18330 18330 100% 0.0 99% KU729218.1
18330 18330 100% 0.0 99% KU527068.1
18327 18327 100% 0.0 99% KX694534.1
18327 18327 100% 0.0 99% KX197192.1
18327 18327 100% 0.0 99% KU926310.1
18327 18327 100% 0.0 99% KU501217.1
18327 18327 100% 0.0 99% KU365780.1
18321 18321 100% 0.0 99% KU940228.1
18321 18321 100% 0.0 99% KU501216.1
18321 18321 100% 0.0 99% KU365777.1
18318 18318 100% 0.0 99% KU758877.1
18318 18318 100% 0.0 99% KX198135.1
18312 18312 100% 0.0 99% KU647676.1
18309 18309 100% 0.0 99% KX447517.1
18309 18309 100% 0.0 99% KX247646.1
18309 18309 100% 0.0 99% KX247632.1
18309 18309 100% 0.0 99% KX156776.1
18309 18309 100% 0.0 99% KU365778.1
18309 18309 100% 0.0 99% KU312312.1
18305 18305 99% 0.0 99% KU497555.1
18303 18303 100% 0.0 99% KX520666.1
18303 18303 100% 0.0 99% KX156774.1
18300 18300 100% 0.0 99% KX856011.1
18300 18300 100% 0.0 99% KU820897.5
18300 18300 100% 0.0 99% KX446951.1
18300 18300 100% 0.0 99% KU937936.1
18300 18300 100% 0.0 99% KX156775.1
18300 18300 100% 0.0 99% KX087102.1
18300 18300 100% 0.0 99% KU501215.1
18294 18294 100% 0.0 99% KX601168.1
18294 18294 100% 0.0 99% KX446950.1
18294 18294 100% 0.0 99% KX087101.2
18294 18294 100% 0.0 99% KU870645.1
18294 18294 100% 0.0 99% KU922960.1
18291 18291 100% 0.0 99% KX806557.1
18291 18291 100% 0.0 99% KX548902.1
18291 18291 100% 0.0 99% KX377337.1
18291 18291 100% 0.0 99% KU922923.1
18282 18282 100% 0.0 99% KX766029.1
18282 18282 100% 0.0 99% KX702400.1
18282 18282 100% 0.0 99% KU820898.1
18276 18276 100% 0.0 99% KX056898.1
18276 18276 100% 0.0 99% KU955590.1
18274 18274 100% 0.0 99% KX766028.1
18273 18273 100% 0.0 99% KU740184.2
18273 18273 100% 0.0 99% KU761564.1
18258 18258 100% 0.0 99% KX117076.1
18249 18249 100% 0.0 99% KX185891.1
18249 18249 100% 0.0 99% KU963796.1
18245 18245 100% 0.0 99% KX253996.1
18245 18245 100% 0.0 99% KU955589.1
18245 18245 100% 0.0 99% KU820899.2
18242 18242 100% 0.0 99% KX266255.1
18240 18240 100% 0.0 99% KU866423.2
18227 18227 99% 0.0 99% KU940224.1
18114 18114 100% 0.0 99% KU744693.1
18083 18083 100% 0.0 99% KX827309.1
18069 18069 100% 0.0 99% KX813683.1
18015 18015 100% 0.0 99% KU681081.3
17894 17894 100% 0.0 99% KX694532.1
17708 17708 100% 0.0 98% KU955593.1
17708 17708 99% 0.0 98% JN860885.1
17661 17661 98% 0.0 99% KF993678.1
17553 17553 100% 0.0 98% EU545988.1
17407 17407 100% 0.0 98% KU681082.3
16379 16379 100% 0.0 95% KX601167.1
16370 16370 100% 0.0 95% KX694533.1
16370 16370 99% 0.0 95% HQ234499.1
16365 16365 100% 0.0 95% KX377336.1
16199 16199 88% 0.0 99% KX447518.1
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ZF36_36S|XX|2016-08-04 matches

Sequences producing significant alignments:

Select:AllNone Selected:0

Sequences producing significant alignments:
Select for downloading or viewing reports Description Max score Total score Query cover E value Ident Accession
15086 17263 94% 0.0 99% KX842449.1
15081 17257 94% 0.0 99% KX832731.1
15077 17254 94% 0.0 99% KX838905.1
15072 17243 94% 0.0 99% KX838904.1
15046 17220 94% 0.0 99% KU853012.1
15044 17221 94% 0.0 99% KU853013.1
15017 17189 94% 0.0 99% KX673530.1
15005 17182 94% 0.0 99% KX838906.1
14987 17160 94% 0.0 99% KX447510.1
14987 17169 94% 0.0 99% KX280026.1
14978 17151 94% 0.0 99% KX811222.1
14978 17155 94% 0.0 99% KX369547.1
14972 17149 94% 0.0 99% KX447512.1
14972 17149 94% 0.0 99% KU509998.3
14969 17146 94% 0.0 99% KX197205.1
14969 17146 94% 0.0 99% KJ776791.2
14969 17151 94% 0.0 99% KU991811.1
14969 17142 94% 0.0 99% KU321639.1
14963 17146 94% 0.0 99% KX447509.1
14963 17126 94% 0.0 99% KX198135.1
14963 17128 94% 0.0 99% KU729218.1
14960 17137 94% 0.0 99% KX447515.1
14960 17142 94% 0.0 99% KX447513.1
14954 17137 94% 0.0 99% KX447516.1
14954 17137 94% 0.0 99% KX447511.1
14954 17128 94% 0.0 99% KX197192.1
14954 17126 94% 0.0 99% KU926309.1
14954 17137 94% 0.0 99% KU729217.2
14954 17122 94% 0.0 99% KU647676.1
14951 17133 94% 0.0 99% KX447514.1
14951 17115 94% 0.0 99% KX156776.1
14951 17133 94% 0.0 99% KX051563.1
14951 17128 94% 0.0 99% KU940228.1
14951 17128 94% 0.0 99% KU707826.1
14951 17128 94% 0.0 99% KU365779.1
14945 17104 94% 0.0 99% KX156775.1
14945 17110 94% 0.0 99% KX156774.1
14942 17124 94% 0.0 99% KX262887.1
14942 17115 94% 0.0 99% KX247646.1
14942 17119 94% 0.0 99% KU926310.1
14942 17106 94% 0.0 99% KU497555.1
14942 17119 94% 0.0 99% KU527068.1
14938 17032 94% 0.0 99% KU940224.1
14936 17104 94% 0.0 99% KU820897.5
14936 17104 94% 0.0 99% KX447517.1
14936 17113 94% 0.0 99% KX520666.1
14936 17104 94% 0.0 99% KX087102.1
14936 17104 94% 0.0 99% KU922960.1
14936 17104 94% 0.0 99% KU922923.1
14936 17119 94% 0.0 99% KU365780.1
14936 17113 94% 0.0 99% KU365777.1
14933 17115 94% 0.0 99% KX694534.1
14933 17097 94% 0.0 99% KX548902.1
14933 17115 94% 0.0 99% KU501217.1
14927 17099 94% 0.0 99% KX806557.1
14927 17104 94% 0.0 99% KU758877.1
14927 17110 94% 0.0 99% KU501216.1
14927 17104 94% 0.0 99% KU365778.1
14924 17088 94% 0.0 99% KX702400.1
14924 17101 94% 0.0 99% KU312312.1
14918 17092 94% 0.0 99% KU870645.1
14915 17097 94% 0.0 99% KX247632.1
14915 17088 94% 0.0 99% KU501215.1
14909 17092 94% 0.0 99% KX856011.1
14909 17083 94% 0.0 99% KX601168.1
14909 17092 94% 0.0 99% KX446951.1
14909 17086 94% 0.0 99% KX446950.1
14909 17083 94% 0.0 99% KX087101.2
14906 17079 94% 0.0 99% KX377337.1
14906 17088 94% 0.0 99% KU937936.1
14906 17068 94% 0.0 99% KX117076.1
14906 17079 94% 0.0 99% KU820898.1
14900 17063 94% 0.0 99% KX185891.1
14900 17063 94% 0.0 99% KU963796.1
14900 17068 94% 0.0 99% KU955590.1
14900 17068 94% 0.0 99% KU740184.2
14900 17068 94% 0.0 99% KU761564.1
14898 17066 94% 0.0 99% KX766028.1
14897 17059 94% 0.0 99% KX253996.1
14897 17068 94% 0.0 99% KX056898.1
14897 17059 94% 0.0 99% KU955589.1
14897 17059 94% 0.0 99% KU820899.2
14893 17055 94% 0.0 99% KX266255.1
14891 17054 94% 0.0 99% KU866423.2
14888 17070 94% 0.0 99% KX766029.1
14770 16917 94% 0.0 98% KX827309.1
14765 16915 94% 0.0 98% KU744693.1
14756 16902 94% 0.0 98% KX813683.1
14693 16828 94% 0.0 98% KU681081.3
14630 16744 94% 0.0 98% KX694532.1
14630 16513 93% 0.0 98% KF993678.1
14496 16585 94% 0.0 98% JN860885.1
14494 16585 94% 0.0 98% KU955593.1
14412 15682 86% 0.0 99% KX447518.1
14372 16444 94% 0.0 97% EU545988.1
14278 16316 94% 0.0 97% KU681082.3
13367 15346 94% 0.0 95% KX601167.1
13364 15337 94% 0.0 95% KX694533.1
13364 15337 94% 0.0 95% KX377336.1
9714 14998 83% 0.0 98% KX447520.1
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ZF39_39U|XX|2016-08-17 matches

Sequences producing significant alignments:

Select:AllNone Selected:0

Sequences producing significant alignments:
Select for downloading or viewing reports Description Max score Total score Query cover E value Ident Accession
18465 18465 100% 0.0 99% KU853013.1
18465 18465 100% 0.0 99% KU853012.1
18429 18429 100% 0.0 99% KX842449.1
18426 18426 100% 0.0 99% KX838905.1
18420 18420 100% 0.0 99% KX838904.1
18420 18420 100% 0.0 99% KX832731.1
18417 18417 100% 0.0 99% KX673530.1
18408 18408 100% 0.0 99% KX838906.1
18357 18357 100% 0.0 99% KX447510.1
18354 18354 100% 0.0 99% KX280026.1
18348 18348 100% 0.0 99% KX447512.1
18348 18348 100% 0.0 99% KX369547.1
18348 18348 100% 0.0 99% KU509998.3
18345 18345 100% 0.0 99% KJ776791.2
18345 18345 100% 0.0 99% KX447509.1
18345 18345 100% 0.0 99% KU991811.1
18345 18345 100% 0.0 99% KU729217.2
18339 18339 100% 0.0 99% KX447513.1
18336 18336 100% 0.0 99% KX811222.1
18336 18336 100% 0.0 99% KX197205.1
18336 18336 100% 0.0 99% KX447515.1
18336 18336 100% 0.0 99% KX447511.1
18336 18336 100% 0.0 99% KU707826.1
18336 18336 100% 0.0 99% KU365779.1
18336 18336 100% 0.0 99% KU321639.1
18330 18330 100% 0.0 99% KX447514.1
18330 18330 100% 0.0 99% KX262887.1
18330 18330 100% 0.0 99% KX051563.1
18330 18330 100% 0.0 99% KU926309.1
18330 18330 100% 0.0 99% KU501217.1
18327 18327 100% 0.0 99% KX447516.1
18327 18327 100% 0.0 99% KU729218.1
18327 18327 100% 0.0 99% KU527068.1
18327 18327 100% 0.0 99% KU501216.1
18321 18321 100% 0.0 99% KX694534.1
18321 18321 100% 0.0 99% KX197192.1
18321 18321 100% 0.0 99% KU926310.1
18321 18321 100% 0.0 99% KU365780.1
18318 18318 100% 0.0 99% KU940228.1
18318 18318 100% 0.0 99% KU365777.1
18312 18312 100% 0.0 99% KU758877.1
18312 18312 100% 0.0 99% KX198135.1
18309 18309 100% 0.0 99% KU647676.1
18303 18303 100% 0.0 99% KX447517.1
18303 18303 100% 0.0 99% KX247646.1
18303 18303 100% 0.0 99% KX247632.1
18303 18303 100% 0.0 99% KX156776.1
18303 18303 100% 0.0 99% KU365778.1
18303 18303 100% 0.0 99% KU312312.1
18300 18300 100% 0.0 99% KX520666.1
18300 18300 100% 0.0 99% KX156774.1
18300 18300 99% 0.0 99% KU497555.1
18294 18294 100% 0.0 99% KX856011.1
18294 18294 100% 0.0 99% KU820897.5
18294 18294 100% 0.0 99% KX446951.1
18294 18294 100% 0.0 99% KU937936.1
18294 18294 100% 0.0 99% KX156775.1
18294 18294 100% 0.0 99% KX087102.1
18294 18294 100% 0.0 99% KU501215.1
18291 18291 100% 0.0 99% KX601168.1
18291 18291 100% 0.0 99% KX446950.1
18291 18291 100% 0.0 99% KX087101.2
18291 18291 100% 0.0 99% KU870645.1
18291 18291 100% 0.0 99% KU922960.1
18285 18285 100% 0.0 99% KX806557.1
18285 18285 100% 0.0 99% KX548902.1
18285 18285 100% 0.0 99% KX377337.1
18285 18285 100% 0.0 99% KU922923.1
18276 18276 100% 0.0 99% KX766029.1
18276 18276 100% 0.0 99% KX702400.1
18276 18276 100% 0.0 99% KU820898.1
18273 18273 100% 0.0 99% KX056898.1
18273 18273 100% 0.0 99% KU955590.1
18269 18269 100% 0.0 99% KX766028.1
18267 18267 100% 0.0 99% KU740184.2
18267 18267 100% 0.0 99% KU761564.1
18254 18254 100% 0.0 99% KX117076.1
18245 18245 100% 0.0 99% KX185891.1
18245 18245 100% 0.0 99% KU963796.1
18240 18240 100% 0.0 99% KX253996.1
18240 18240 100% 0.0 99% KU955589.1
18240 18240 100% 0.0 99% KU820899.2
18236 18236 100% 0.0 99% KX266255.1
18236 18236 100% 0.0 99% KU866423.2
18222 18222 99% 0.0 99% KU940224.1
18110 18110 100% 0.0 99% KU744693.1
18078 18078 100% 0.0 99% KX827309.1
18065 18065 100% 0.0 99% KX813683.1
18011 18011 100% 0.0 99% KU681081.3
17897 17897 100% 0.0 99% KX694532.1
17704 17704 100% 0.0 98% KU955593.1
17703 17703 99% 0.0 98% JN860885.1
17667 17667 98% 0.0 99% KF993678.1
17558 17558 100% 0.0 98% EU545988.1
17411 17411 100% 0.0 98% KU681082.3
16401 16401 100% 0.0 95% KX601167.1
16393 16393 99% 0.0 95% HQ234499.1
16392 16392 100% 0.0 95% KX694533.1
16388 16388 100% 0.0 95% KX377336.1
16199 16199 88% 0.0 99% KX447518.1
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1.

Zika virus isolate ZIKV/Homo_sapiens/USA/2016/FL021U polyprotein gene, complete cds

10,365 bp linear RNA

Accession:
 
KX922703.1
 
GI:
 
1071930510
2.

Zika virus isolate ZIKV/Homo_sapiens/USA/2016/FL030U polyprotein gene, complete cds

10,609 bp linear RNA

Accession:
 
KX922704.1
 
GI:
 
1071930512
3.

Zika virus isolate ZIKV/Homo_sapiens/USA/2016/FL032U polyprotein gene, complete cds

10,609 bp linear RNA

Accession:
 
KX922705.1
 
GI:
 
1071930514
4.

Zika virus isolate ZIKV/Homo_sapiens/USA/2016/FL038U polyprotein gene, complete cds

10,610 bp linear RNA

Accession:
 
KX922706.1
 
GI:
 
1071930516
5.

Zika virus isolate ZIKV/Homo_sapiens/USA/2016/FL039U polyprotein gene, complete cds

10,609 bp linear RNA

Accession:
 
KX922707.1
 
GI:
 
1071930518
6.

Zika virus isolate ZIKV/Aedes_aegypti/USA/2016/FL04M polyprotein gene, complete cds

10,606 bp linear RNA

Accession:
 
KX922708.1
 
GI:
 
1071930520
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updated ZF36 sequence (from serum)

ZF36_36S_2016-08-04

matches

Sequences producing significant alignments:

Select:AllNone Selected:0

Sequences producing significant alignments:
Select for downloading or viewing reports Description Max score Total score Query cover E value Ident Accession
15090 17266 94% 0.0 99% KX842449.2
15081 17257 94% 0.0 99% KX922703.1
15081 17257 94% 0.0 99% KX838905.2
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