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Zika Virus The Illinois Department of Public Health is reporting 16 cases of Zika virus disease statewide. **Please note that all numbers are provisional and may be subject to change**

Alabama Residents Tested for Zika Virus as of May 2, 2016 Number Tested PositiveNumber of SubmissionsNumber with Results Pending3 60 8

Zika virus may cause more forms of brain damage to unborn babies3:36amShare Source: Just months out from the Rio Olympics, scientists in Brazil say the Zika virus could be more dangerous than originally thought. Lara, who was born with microcephaly, is examined by a neurologist at the Pedro I hospital in Campina Grande, Paraiba state, Brazil. Source: Associated Press While the virus has been linked to birth defects, researchers now believe it may result in other damaging neurological conditions. Rates of the virus spreading in Brazil have slowed due to better education about the disease, while a vaccine is still being developed, BBC News reported. It is estimated about one per cent of women who have had Zika during pregnancy will have a child with microcephaly, where babies are born with abnormally small heads. However, doctors in Brazil told BBC News as many as 20 per cent of Zika-affected pregnancies will lead to some form of brain damage for the baby. A study in the New England Journal of Medicine also reported 29 per cent of scans showed abnormalities with babies in the wombs of women infected with the virus. It is estimated about 1.5 million people have been infected with Zika in Brazil. https://www.tvnz.co.nz/one-news/world/zika-virus-may-cause-more-forms-brain-damage-unborn-babies

Zika is MORE dangerous than we thought: Experts say virus could affect up to a FIFTH of infected pregnant women's babiesZika virus is linked with microcephaly and Guillain-Barre syndromePreviously thought it could affect 1% of infected pregnant women's babiesExperts think it could be behind more damaging neurological conditions World Health Organisation says it could spread to Europe in summer For more of the latest on the Zika virus visit www.dailymail.co.uk/zikavirusBy KATE PICKLES and MADLEN DAVIES FOR MAILONLINE PUBLISHED: 05:51 EST, 2 May 2016 | UPDATED: 06:16 EST, 2 May 2016 5 View comments The Zika virus could be more dangerous in pregnant women than first feared, Brazilian scientists have warned. Experts are now linking it to several neurological conditions - in addition to microcephaly, where babies are born with abnormally small heads. Dr Renato Sa, an obstetrician and foetal medicine specialist, said he believes babies in up to a fifth of pregnant women with the virus could be affected. ‘The expectation is that a woman who has had Zika has a one per cent chance of having a baby with microcephaly,' he told the BBC. +4Experts now say that Zika could affect babies in 20 per cent of pregnancies where the mother has the virus 'But if we consider a range of other possible neurological conditions, that figure rises to about 20 per cent.’ The virus has long been linked to babies being born with microcephaly - a disease characterised by unusually small heads and developmental problems. It has also been linked to Guillain-Barré syndrome - a nerve disorder that causes temporary muscle paralysis. Previous estimates have suggested one per cent of women who have had Zika during pregnancy will have a child with microcephaly. RELATED ARTICLESPrevious1NextUK GM mosquitoes could beat Zika: Mutants that will help...Puerto Rico Zika cases now include 65 pregnant women, 1...Bride is left with one leg DOUBLE the size of the other...'How dare YOU Jeremy Hunt!':Grieving mother launches...SHARE THIS ARTICLEShareBut a study in the New England Journal of Medicine, said 29 per cent of scans showed abnormalities in babies in the womb, including growth restrictions, in women infected with Zika. It comes after experts Europe should brace itself for the arrival of the Zika because mosquitoes carrying the virus will flock to the continent as summer arrives. Despite a decline in cases in Brazil, there is the potential for a 'marked increase' in Zika infections as the virus spreads to new parts of the world, according to the United Nations' health agency. Until now Zika has been largely contained to Latin America and the Caribbean - but as summer arrives in the northern hemisphere the mosquitoes that carry the disease will travel to Europe. Marie-Paule Kieny, the World Health Organisation's assistant director general, said: 'As seasonal temperatures begin to rise in Europe, two species of Aedes mosquito which we know transmit the virus will begin to circulate. 'The mosquito knows no borders.' There is also a risk men infected with Zika could pass the disease on to women via sex, and the world 'could see a marked increase in the number of people with Zika and related complications,' Ms Kieny said. The virus is known to be transmitted by Aedes aegypti mosquitoes found in the tropics. But the second Zika-transmitting mosquito, Aedes albopictus, has been found in European countries in the summer – including France, Spain, Italy, Greece and Croatia. Scientists at the University of Oxford produced map charting the potential spread of the Zika virus across the world - but they did not predict it would spread to Europe +4 A Zika-transmitting mosquito, Aedes albopictus, has been found in European countries in the summer – including France, Spain, Italy, Greece and Croatia. The virus has been linked to other However, Aedes albopictus mosquito is less prone to causing outbreaks than its cousin Aeses aegypti, according to new research by the Pasteur Institute. A virus can also be introduced to a new region when a local mosquito picks it up from an infected human - someone coming back from a holiday in South America, for example. If it lives long enough, the mosquito then infects people who it bites, starting a vicious cycle. In Brazil, the country hardest hit by the outbreak, officials are investigating more than 2,500 cases of suspected microcephaly. But Ms Kiely said infections are 'clearly on the decline'. She made the comments at a Zika conference in Paris, in which 600 disease experts from 43 nations are meeting to analyse data on the outbreak. Despite a flurry of research, very little is known about the virus, including how long it can hide out in the human body and the degree of risk of sexual transmission. It is also not known exactly which diseases and disorders it may cause or all the mosquito types capable of transmitting it. As seasonal temperatures begin to rise in Europe, two species of Aedes mosquito which we know transmit the virus will begin to circulate. The mosquito knows no bordersMarie-Paule Kieny, the World Health Organisation's assistant director general Professor David Heymann, of the London School of Hygiene and Tropical Medicine said: 'It's not what we know but what we don't know that is concerning. 'We can't make recommendations for prevention if we don't understand the full potential of a virus or bacteria.' As there is no vaccine or treatment for the virus, Ms Kieny described it as a 'global emergency' and a 'growing threat'. Developing new tools for quickly diagnosing infections - particularly in pregnant women whose babies risk severe disability - is an 'urgent priority', she added. Scientists in the United States, France, Brazil, India and Austria are working on 23 vaccine-development projects, she said. But it could take years to create, so the feasibility of an 'emergency-use' vaccine is being examined. Until then, the first line of defence remains controlling mosquitoes and preventing people being bitten, experts said. And women in regions where there is an outbreak are advised to put off becoming pregnant. +4There have been an estimate two million cases of Zika across 40 countries, with 1.5 million infections in Brazil Duane Gubler of the Duke-NUS Medical School in Singapore, said Zika 'surprised' the world, just as Ebola before it, despite both viruses having been known about for decades. 'I think we should take this as a wakeup call and start developing our surveillance systems so we can monitor these viruses a little more effectively,' he told the conference. Ms Kieny said particular vigilance was required in Africa, where the virus was first discovered in Uganda in 1947. A Zika outbreak began in Brazil in early 2015, followed nine months later by an surge of infants born with microcephaly, and an increase in Guillain-Barre cases. Brazil reported some 1.5 million infections out of an estimated global total of two million in more than 40 countries. In eight nations, there have been reports of person-to-person transmission via sex. WHAT YOU NEED TO KNOW ABOUT ZIKA WHAT IS ZIKA? The Zika (ZEE'-ka) virus was first discovered in monkey in Uganda in 1947 - its name comes from the Zika forest where it was first discovered. It is native mainly to tropical Africa, with outbreaks in Southeast Asia and the Pacific Islands. It appeared in Brazil in 2014 and has since been reported in many Latin American countries and Caribbean islands. HOW IS IT SPREAD? It is typically transmitted through bites from the same kind of mosquitoes - Aedes aegypti - that can spread other tropical diseases, like dengue fever, chikungunya and yellow fever. It is not known to spread from person to person. Though rare, scientists have found Zika can be transmitted sexually. The World Health Organisation recently warned the mode of transmission is 'more common than previously assumed'. And, the Centers for Disease Control and Prevention recently issued first-time guidance, saying couples trying to conceive should abstain or wear condoms for six months if the male has confirmed or suspected Zika. +4 Zika is typically transmitted through bites from the same kind of mosquitoes - Aedes aegypti - that can spread other tropical diseases, like dengue fever, chikungunya and yellow fever Additionally, the CDC said couples should abstain or wear condoms for eight weeks if the female has confirmed or suspected Zika, or if the male traveled to a country with a Zika outbreak but has no symptoms. During the current outbreak, the first case of sexually transmitted Zika was reported in Texas, at the beginning of February. The patient became infected after sexual contact with a partner diagnosed with the virus after travelling to an affected region. Now, health officials in the US are investigating more than a dozen possible cases of Zika in people thought to be infected during sex. There are also reported cases in France and Canada. Prior to this outbreak, scientists reported examples of sexual transmission of Zika in 2008. A researcher from Colorado, who caught the virus overseas, is thought to have infected his wife, on returning home. And records show the virus was found in the semen of a man in Tahiti. So far, each case of sexual transmission of Zika involves transmission from an infected man to his partner. There is no current evidence that women can pass on the virus through sexual contact. The World Health Organization says Zika is rapidly spreading in the Americas because it is new to the region, people aren't immune to it, and the Aedes aegypti mosquito that carries it is just about everywhere - including along the southern United States. Canada and Chile are the only places without this mosquito. Scientists revealed a molecular map of the Zika virus, which could help scientists develop new treatments for the disease ARE THERE SYMPTOMS? The majority of people infected with Zika virus will not experience symptoms. Those that do, usually develop mild symptoms - fever, rash, joint pain, and red eyes - which usually last no more than a week. There is no specific treatment for the virus and there is currently no vaccine to protect against infection, though several are in the developmental stages. WHY IS IT A CONCERN NOW? In Brazil, there has been mounting evidence linking Zika infection in pregnant women to a rare birth defect called microcephaly, in which a newborn's head is smaller than normal and the brain may not have developed properly. Brazilian health officials last October noticed a spike in cases of microcephaly in tandem with the Zika outbreak. The country said it has confirmed more than 860 cases of microcephaly - and that it considers them to be related to Zika infections in the mother. Brazil is also investigating more than 4,200 additional suspected cases of microcephaly. However, Brazilian health officials said they had ruled out 1,471 suspected cases in the week ending March 19. Now Zika has been conclusively proven to cause microcephaly. The WHO also stated that researchers are now convinced that Zika is responsible for increased reports of a nerve condition called Guillain-Barre that can cause paralysis. A team of Purdue University scientists recently revealed a molecular map of the Zika virus, which shows important structural features that may help scientists craft the first treatments to tackle the disease. The map details vital differences on a key protein that may explain why Zika attacks nerve cells - while other viruses in the same family, such as dengue, Yellow Fever and West Nile, do not. CAN THE SPREAD BE STOPPED? Individuals can protect themselves from mosquito bites by using insect repellents, and wearing long sleeves and long pants - especially during daylight, when the mosquitoes tend to be most active, health officials say. Eliminating breeding spots and controlling mosquito populations can help prevent the spread of the virus. Read more: http://www.dailymail.co.uk/health/article-3569236/Zika-dangerous-thought-Experts-say-virus-affect-FIFTH-infected-pregnant-women-s-babies.html#ixzz47VHhC9wI Follow us: @MailOnline on Twitter | DailyMail on Facebook

Zika Virus Birth Defects May Be 'Tip of the Iceberg', Experts Sayby MAGGIE FOX SHAREShareTweetShareEmailPrintCommentThe explosion of cases of birth defects caused by Zika virus may be the "tip of the iceberg," experts said Sunday. Many cases have probably been missed because babies looked normal when they were born. But hidden birth defects are almost certain to turn up as the babies grow, they told a meeting of pediatricians Sunday in Baltimore. PlayFacebookTwitterGoogle PlusEmbed First Zika-Related Death in U.S. Reported in Puerto Rico 2:36"The microcephaly and other birth defects we have been seeing could be the tip of the iceberg," Dr. Sonja Rasmussen of the U.S. Centers for Disease Control and Prevention said at the annual meeting of the Pediatric Academic Societies. "The true burden of congenital disease with Zika virus is probably underestimated," said Dr. Marco Safadi of the Santa Casa Medical School in Sao Paulo, Brazil, who's been treating and studying cases. Safadi described a case he just saw recently. The baby looked OK when he was born in January, even though his mother had suffered some of the classic symptoms of Zika infection at the end of her second trimester of pregnancy: fever and a rash. Related: WHO Warns Women on Travel to Zika Zones But his head was just on the borderline of being normal, with a circumference of 12.7 inches. The cutoff for microcephaly, the small head that's the hallmark of Zika brain damage, is 12.9 inches. A neurologist measures a child's head at Mestre Vitalino Hospital in Caruaru, Brazil, in December. Felipe Dana / APMRI and CT scans done when he was 2 months old showed that the baby had brain damage — areas of hardened brain tissue called calcifications, which happen when the cells die, and areas of the brain filled with fluid, a condition called ventriculomegaly. "THE MICROCEPHALY AND OTHER BIRTH DEFECTS WE HAVE BEEN SEEING COULD BE THE TIP OF THE ICEBERG."The baby tested positive for Zika in his blood, urine and saliva. It was an unusual case, because the child was born in Sao Paulo, where Zika is not common. The father had been in northeastern Brazil a few weeks before the mother developed symptoms. "We think that probably a sexual transmission occurred," Safadi said. It's not yet clear what the consequences will be for the child. Newborns with microcephaly often act just like other newborns, perhaps a bit fussier. But the disabilities will appear as the growing children miss important milestones. They'll have learning deficiencies, vision problems and hearing problems, and many will also have physical disabilities. There is no cure. "We really don't know what will happen with these kids long-term," Rasmussen said. Some of the cases are obvious and devastating, from very severe microcephaly,in which the head is abnormally small because of brain damage, to a horrific condition called fetal brain disruption sequence, when the overwhelming damage to the brain causes the baby's soft skull to collapse and take on a ridged appearance. Related: How Can Zika Kill You? Brazil has confirmed 2,844 cases of Zika in pregnant women. Rasmussen said researchers have gone back to an outbreak in French Polynesia in 2013 and 2014 and estimated that 1 percent of pregnant women who became infected in the first trimester of pregnancy had children with microcephaly. Safadi said that would add up to many cases in Brazil, where 2.8 million children are born every year. PlayFacebookTwitterGoogle PlusEmbed FDA approves first commercial Zika test 0:17But there is some good news coming out of the early observations of the yearlong epidemic in Brazil. Children are rarely infected with Zika. Safadi said clinics in Brazil are seeing just what French Polynesia saw in its 2013-14 outbreak: Patients have an average age of 42. Children and teens rarely get infected, and the researchers don't understand why not. "We were screening for it and going out and even going out and looking for it, and we did not find any children with Zika infection," said Dr. Karin Nielsen, a professor of pediatrics at UCLA who is working with Brazilian colleagues at the Oswaldo Cruz Foundation in Rio de Janeiro. But it does infect the fetus, and 54 miscarriages or newborn deaths have been caused by Zika, Safadi said. The researchers have found that a paralyzing condition called Guillain-Barre syndrome is rare, hitting far fewer than 1 percent of patients: just 0.24 per 1,000. And Zika seems to cause a milder version of the condition, still putting patients into the hospital for 10 days or so, but not for as long as seen with other infections, Safadi said. Zika rarely kills, but a man in Puerto Rico died last week from a hemorrhage caused by a rare immune reaction to the viral infection. It also causes a range of rare neurological disorders. "WE THINK THAT BY AUGUST THERE WILL BE LITTLE ZIKA CIRCULATING IN BRAZIL."And the researchers have another cheering prediction. The epidemic appears to be on the wane in Rio, at least for now, they said. By the time the Summer Olympics Games get under way in August, the peak of winter in Brazil, the risk of Zika and other mosquito-borne infections should be low, they said. It supports what Brazilian Olympics officials have been saying. The Aedes aegyptimosquito that carries Zika is far more of a problem in the warmer, wetter summer months. August is usually sunny in Rio, with an average high temperature of 78 degrees. Nielsen said her colleagues are already beginning to have trouble finding women infected with Zika to study. "Zika is virtually disappearing from Rio," Nielsen said. "We think that by August there will be little Zika circulating in Brazil." Safadi said, "That is exactly my perception." But that won't mean it's gone. Safadi thinks Zika may stay around for years, citing a study just published that showed monkeys have been infected with Zika in Brazil. That means they can act as a reservoir, as they do with yellow fever. Even if a vaccine is developed and people get vaccinated, or if enough of the population gets infected to confer widespread immunity, the monkeys will be there for the mosquitoes to bite and carry the infection to people in the future. That will makes Zika a problem for years to come. "We are trying to get rid of the Aedes, but I have to say we are failing in controlling this vector," Safadi said. http://www.nbcnews.com/storyline/zika-virus-outbreak/zika-virus-birth-defects-may-be-tip-iceberg-experts-say-n565631

New warnings on Zika linked neuropathologies presented at the annual meeting of the Pediatric Academic Societies in Baltimore. https://www.pas-meeting.org/press-room

Bahia 12 Seq Map Update https://www.google.com/maps/d/u/1/edit?mid=1XSxKe6FIecV8f33cQwyc7uylxeU&hl=en

Sequences producing significant alignments:Select:AllNone Selected:0 AlignmentsDownloadGenBankGraphicsDistance 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|KX101067.1|Zika virus isolate Bahia12, partial genome1041923753%0.0100%KX101067.1Select seq gb|KX101064.1|Zika virus isolate Bahia11, partial genome1041746742%0.093%KX101064.1Select seq gb|KX101061.1|Zika virus isolate Bahia03, partial genome1038747043%0.093%KX101061.1Select seq gb|KX087101.1|Zika virus strain ZIKV/Homo sapiens/PRI/PRVABC59/2015, complete genome1036912153%0.093%KX087101.1Select seq gb|KU509998.3|Zika virus strain Haiti/1225/2014, complete genome1036916453%0.093%KU509998.3Select seq gb|KU870645.1|Zika virus isolate FB-GWUH-2016, complete genome1036912753%0.093%KU870645.1Select seq gb|KU926310.1|Zika virus isolate Rio-S1, complete genome1036913453%0.093%KU926310.1Select seq gb|KU926309.1|Zika virus isolate Rio-U1, complete genome1036914553%0.093%KU926309.1Select seq gb|KU729218.1|Zika virus isolate BeH828305 polyprotein gene, complete cds1036915953%0.093%KU729218.1Select seq gb|KX117076.1|Zika virus isolate Zhejiang04, complete genome1032913253%0.092%KX117076.1Select seq gb|KU820899.2|Zika virus isolate ZJ03, complete genome1032912753%0.092%KU820899.2Select seq gb|KU527068.1|Zika virus strain Natal RGN, complete genome1032911953%0.092%KU527068.1Select seq gb|KU820897.1|Zika virus isolate FLR polyprotein gene, complete cds1029913053%0.092%KU820897.1Select seq gb|KX101066.1|Zika virus isolate Bahia01, partial genome1027646440%0.092%KX101066.1Select seq gb|KX051563.1|Zika virus isolate Haiti/1/2016, complete genome1023913953%0.092%KX051563.1Select seq gb|KU963796.1|Zika virus isolate SZ-WIV01 polyprotein gene, complete cds1023912353%0.092%KU963796.1Select seq gb|KU497555.1|Zika virus isolate Brazil-ZKV2015, complete genome1023913453%0.092%KU497555.1Select seq gb|KU365778.1|Zika virus strain BeH819015 polyprotein gene, complete cds1020910753%0.092%KU365778.1Select seq gb|KU681081.3|Zika virus isolate Zika virus/H.sapiens-tc/THA/2014/SV0127- 14, complete genome1014895553%0.092%KU681081.3Select seq gb|KU681082.3|Zika virus isolate Zika virus/H.sapiens-tc/PHL/2012/CPC-0740, complete genome1005869253%0.092%KU681082.3Select seq gb|KU955593.1|Zika virus isolate Zika virus/H.sapiens-tc/KHM/2010/FSS13025, complete genome1000880953%0.091%KU955593.1Select seq gb|KU940228.1|Zika virus isolate Bahia07, partial genome937913252%0.092%KU940228.1Select seq gb|KU940227.1|Zika virus isolate Bahia08, partial genome937863549%0.092%KU940227.1Select seq gb|KU940224.1|Zika virus isolate Bahia09, partial genome937912752%0.092%KU940224.1Select seq gb|KX101060.1|Zika virus isolate Bahia02, partial genome931670738%0.092%KX101060.1Select seq gb|KU321639.1|Zika virus strain ZikaSPH2015, complete genome931905352%0.092%KU321639.1Select seq gb|KU729217.2|Zika virus isolate BeH823339 polyprotein gene, complete cds930903552%0.092%KU729217.2Select seq gb|KU707826.1|Zika virus isolate SSABR1, complete genome930904752%0.092%KU707826.1Select seq gb|KX087102.1|Zika virus strain ZIKV/Homo sapiens/COL/FLR/2015, complete genome928902952%0.092%KX087102.1Select seq gb|KU501215.1|Zika virus strain PRVABC59, complete genome928901352%0.092%KU501215.1Select seq gb|KU991811.1|Zika virus isolate Brazil/2016/INMI1 polyprotein gene, complete cds926905452%0.092%KU991811.1Select seq gb|KU922960.1|Zika virus isolate MEX/InDRE/Sm/2016, complete genome926901752%0.092%KU922960.1Select seq gb|KU922923.1|Zika virus isolate MEX/InDRE/Lm/2016, complete genome926901752%0.092%KU922923.1Select seq gb|KU647676.1|Zika virus strain MRS_OPY_Martinique_PaRi_2015 polyprotein gene, complete cds926902952%0.092%KU647676.1Select seq gb|KJ776791.1|Zika virus strain H/PF/2013 polyprotein gene, complete cds926906352%0.092%KJ776791.1Select seq gb|KU744693.1|Zika virus isolate VE_Ganxian, complete genome922893752%0.092%KU744693.1Select seq gb|KU365780.1|Zika virus strain BeH815744 polyprotein gene, complete cds922902952%0.092%KU365780.1Select seq gb|KU365779.1|Zika virus strain BeH819966 polyprotein gene, complete cds922904052%0.092%KU365779.1Select seq gb|KU365777.1|Zika virus strain BeH818995 polyprotein gene, complete cds922902952%0.092%KU365777.1Select seq gb|KX101063.1|Zika virus isolate Bahia05, partial genome884580532%0.094%KX101063.1Select seq gb|KU955595.1|Zika virus isolate Zika virus/A.taylori-tc/SEN/1984/41671-DAK, complete genome883654253%0.088%KU955595.1Select seq gb|KU955592.1|Zika virus isolate Zika virus/A.taylori-tc/SEN/1984/41662-DAK, complete genome883654653%0.088%KU955592.1Select seq dbj|LC002520.1|Zika virus genomic RNA, complete genome, strain: MR766-NIID883656653%0.088%LC002520.1Select seq gb|KU955594.1|Zika virus isolate Zika virus/M.mulatta-tc/UGA/1947/MR-766, complete genome879656653%0.087%KU955594.1Select seq gb|KU955591.1|Zika virus isolate Zika virus/A.africanus-tc/SEN/1984/41525-DAK, complete genome879653053%0.087%KU955591.1Select seq gb|KU720415.1|Zika virus strain MR 766 polyprotein gene, complete cds879656653%0.087%KU720415.1Select seq gb|AY632535.2|Zika virus strain MR 766, complete genome875653253%0.087%AY632535.2Select seq gb|KU501217.1|Zika virus strain 8375 polyprotein gene, complete cds872851550%0.090%KU501217.1Select seq gb|KU501216.1|Zika virus strain 103344 polyprotein gene, complete cds872851050%0.090%KU501216.1Select seq gb|KU312314.1|Zika virus isolate Z1106031 polyprotein gene, partial cds872191312%0.090%KU312314.1Select seq gb|KU312312.1|Zika virus isolate Z1106033 polyprotein gene, complete cds872860550%0.090%KU312312.1Select seq gb|KX056898.1|Zika virus isolate Zika virus/GZ02/2016 polyprotein gene, complete cds866846850%0.090%KX056898.1Select seq gb|KU955590.1|Zika virus isolate Z16019 polyprotein gene, complete cds866891952%0.090%KU955590.1Select seq gb|KU853013.1|Zika virus isolate Dominican Republic/2016/PD2, complete genome866893552%0.090%KU853013.1Select seq gb|KU853012.1|Zika virus isolate Dominican Republic/2016/PD1, complete genome866893452%0.090%KU853012.1Select seq gb|KU312313.1|Zika virus isolate Z1106032 polyprotein gene, partial cds866190412%0.090%KU312313.1Select seq gb|KU955589.1|Zika virus isolate Z16006 polyprotein gene, complete cds863895052%0.089%KU955589.1Select seq gb|KU866423.1|Zika virus isolate Zika virus/SZ01/2016 polyprotein gene, complete cds863844750%0.089%KU866423.1Select seq gb|KU820898.1|Zika virus isolate GZ01 polyprotein gene, complete cds863847250%0.089%KU820898.1Select seq gb|KU740184.2|Zika virus isolate GD01 polyprotein gene, complete cds863889052%0.089%KU740184.2Select seq gb|KU761564.1|Zika virus isolate GDZ16001 polyprotein gene, complete cds863860450%0.089%KU761564.1Select seq gb|KU686218.1|Zika virus isolate MEX/InDRE/14/2015 polyprotein gene, partial cds8638635%0.089%KU686218.1Select seq gb|KF268949.1|Zika virus isolate ARB15076 polyprotein gene, complete cds847657753%0.086%KF268949.1Select seq gb|KF268950.1|Zika virus isolate ARB7701 polyprotein gene, complete cds838662353%0.086%KF268950.1Select seq gb|KF268948.1|Zika virus isolate ARB13565 polyprotein gene, complete cds838663153%0.086%KF268948.1Select seq gb|JN860885.1|Zika virus isolate FSS13025 polyprotein gene, partial cds836818250%0.088%JN860885.1Select seq gb|EU545988.1|Zika virus polyprotein gene, complete cds818810650%0.088%EU545988.1Select seq gb|KU646827.1|Zika virus isolate Si323 polyprotein gene, partial cds803172910%0.091%KU646827.1Select seq gb|KU758878.1|Zika virus polyprotein gene, partial cds8018015%0.088%KU758878.1Select seq gb|KU646828.1|Zika virus isolate Si322 polyprotein gene, partial cds800172610%0.091%KU646828.1Select seq gb|KF993678.1|Zika virus strain PLCal_ZV from Canada polyprotein gene, partial cds789818049%0.099%KF993678.1Select seq gb|KU963573.1|Zika virus isolate ZIKV/Macaca mulatta/UGA/MR-766_SM150-V8/1947 polyprotein (GP1) gene, complete cds787647452%0.086%KU963573.1Select seq gb|KT200609.1|Zika virus isolate BR/949/15 NS5 gene, partial cds7809835%0.099%KT200609.1Select seq gb|HQ234499.1|Zika virus isolate P6-740 polyprotein gene, partial cds764753649%0.086%HQ234499.1Select seq gb|KU312315.1|Zika virus isolate Z1106027 polyprotein gene, partial cds76010426%0.091%KU312315.1Select seq gb|KX101062.1|Zika virus isolate Bahia04, partial genome713541731%0.097%KX101062.1

LOCUS KX101067 10566 bp RNA linear VRL 26-APR-2016 DEFINITION Zika virus isolate Bahia12, partial genome. ACCESSION KX101067 VERSION KX101067.1 GI:1022831303 KEYWORDS . SOURCE Zika virus ORGANISM Zika virus Viruses; ssRNA viruses; ssRNA positive-strand viruses, no DNA stage; Flaviviridae; Flavivirus. REFERENCE 1 (bases 1 to 10566) AUTHORS Naccache,S.N., Somasekar,S., Sardi,S.I., Bandeira,A.C., Campos,G.S. and Chiu,C.Y. TITLE Direct Submission JOURNAL Submitted (22-APR-2016) Laboratory Medicine, University of California, San Francisco, 185 Berry Street, #0134, San Francisco, CA 94107, USA COMMENT ##Assembly-Data-START## Assembly Method :: SURP+ v. 1.0 2016; Geneious v. 6.1.8 Sequencing Technology :: Illumina ##Assembly-Data-END## FEATURES Location/Qualifiers source 1..10566 /organism="Zika virus" /mol_type="genomic RNA" /isolate="Bahia12" /isolation_source="serum" /host="Homo sapiens" /db_xref="taxon:64320" /country="Brazil" /collection_date="May-2015" CDS <1..10209 /codon_start=1 /product="polyprotein" /protein_id="ANA85194.1" /db_xref="GI:1022831304" /translation="ARVSPFGGLKRLPAGLLLGHGPIRMVLAILAFLRFTAIKPSLGL INRWGSVGKKEAMEIIKXXXXXXXXXLRIINARKEKKRRGADTSVGIVGLLLTTAMAA EVTRRGSAYYMYLDRNDAGEAISFPTTLGMNKCYIXXXXXXXXXXXXXSYECPMLDEG VEPDDVDCWCNTTSTWVVYGTCHHKKGEARRSRRAVTLPSHSXXXXXXXXXXXXXXXX XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXHETDENRAKVEITPNSPRAEATLG GXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXAQMAVDMQTLTPV GRLITANPVITESTXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXQILIGTL LMWLGLNTKNGSISLMCLALGGVXXXXXXXXXXXXXXXXXFSKKETRCGTGVFVYNDV EAWRDRYKYHPDSPRRLAAAVKQAWEDGICGISSVSRMENIMWRSVEGELNAILEENG VQLTVVVGSVKNPMWRGPQRLPVPVNELPHGWKAWGKSYFVRAAKTNNSFVVDGDTLK XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXECDPAVIGTAVKGKEAVHSDLG YWIESEKNDTWRLKRAHLIEMKTCEWPKSHTLWTDGIXXXXXXXXXXXXXXXXXXXXX XXXXXXXXXPWHSEELEIRFEECPGTKXXXXXXXXXXXXXXXXXXXXXXXXXXWCCRE CTMPPLSFRAKDGCWYGMEXXXXXXXESNLVRSMVTAGSTDHMDHFSLGVLVILLMVQ EGLKKRMTTKXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXATFAEMNTGGDVAHLAL IAAFKVRPALLVSFIFRANWTXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXAWL AIRAMVVPRTDNITLAILAALTPLARGTLLVAWRAGLATCGXXXXXXXXXXXXXXXXX XXXXXXXXXXXXXXXXXXVVGLLLLTRSGKRSWPPSEVLTAVGLICALAGGFAKADIE MAGPMAAVGLLIVSYVVSGKSXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX LVEDDGPPMREIILKVVLMTICGMNPIAIPFAAGAWXXXXXXXXXXXXXXXXXXXXXX XXXXXXXXXXXXXXXXXXXXXXXXVGVMQEGVFHTMWHVTKGSALRSGEGRLDPYWGD VKQDLVSYCGPWKLDAAWDGHSEVQLLAVPXXXXXXXXXXXXXXXXXKGGDIGAVALD YPAGTSGSPILDKCGRVIGLYGNGVVIKXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX XXXXXXXXXXXXXXXXXXPEIVREAIKTRLRTVILAPTRVVAAEMEEALRGXXXXXXT TAVNVTHSGTEIVDLMCHATFTSRLLQPIRVPNYNLYIXXXXXXXXXXXXXXXXXXXX RVEMGEAAAIFMTATPPGTRDAFPDSNSPIMDTEVEVPERAWSSGFDWVTDHSGKTVW FVPSVRNGNEIAACLTKAGXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXVLMRA ETGSRPYKAAAAQMPETLETIMLLGLLGTVSLGIFFVLMRNKGIGKMGFGMVTLGASA WLMWLSEIEPARIACVLIVVXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX XXXXXXXXXXXXXXXXXXXXGMGKGMPFYAWDFGVPLLMIGCYSQLTXXXXXXXXXXX XXXXXXXXXXXXAAAARAAQKRTAAGIMKNPVVDGIVVTDIDTMTIDPQVXXXXXXXX XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXYWNSSTATSLCNIFRGSYL AGASLIYTVTRNAGLVKRRGGGTGETLGXXXXXXXXXXXXXXXXXXXXXXXXXVCREE ARRALKDGVATGGHAVSRGSAKLRWLVERGYLQPHGKVIDLGXXXXXXXXXXXXXXXX XXXXXXXXXXXXXXXXXXXXXXXXXXXXLKSGVDVFHMAAEPCDTLLCDIGESSSSPE VEEARTLRVLSMVXXXXXXXXXXXXXXXXXXXXSTMMETLERLQRRYGGGLVRVPLSR NSTHEMYXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXNLGSGTRAVVSCAE APNMKIIGNRIERIRSEHAETWFFDENHPYRTWAYHGSYEAPTQGSASSLVNGVVRLL SKPWDVVTGVTGIAMTDTTPYGQQRVFKEKVDTRVPDPQEGTRQVMSMVSSWLWKELG KHKRPRVCTKEEFINKVRSXXXXXXXXXXXXXXXXXXXAVNDPRFWALVDKEREHHLR GECQSCVYNMMGKREKKQGEFGKAKGXXXXXXXXLGARFLEFEALGFLNEDHWMGREN SGGGVEGLGLQRLGYVLEEMSRIPGGRMYADDTAGWDTRISRFDLENEALITNQMEKG HRALAXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX XXXXXIHGKGEWMTTEDMLVVWNRVWIEENDHMEDKTPVTKWTDIPYLGKREDLWCGS LIGHRPXXXXXXXXXXXXXXXXXIIGDEEKYMDYLSTQVRYLGEEGSTPGVL" mat_peptide 1..312 /product="capsid peptide" mat_peptide 313..582 /product="propeptide" mat_peptide 583..807 /product="membane protein peptide" mat_peptide 808..2322 /product="envelope protein peptide" mat_peptide 2323..3408 /product="NS1 peptide" mat_peptide 3409..4062 /product="NS2A peptide" mat_peptide 4063..4494 /product="NS2B peptide" mat_peptide 4495..6303 /product="NS3 peptide" mat_peptide 6304..6744 /product="NS4A peptide" mat_peptide 6745..8250 /product="NS4B peptide" mat_peptide 8251..10206 /product="NS5 peptide" gap 608..1276 /estimated_length=669 gap 1353..1831 /estimated_length=479 gap 1914..2197 /estimated_length=284 gap 2744..2850 /estimated_length=107 gap 3675..3776 /estimated_length=102 gap 3910..4012 /estimated_length=103 gap 4199..4308 /estimated_length=110 gap 4419..4552 /estimated_length=134 gap 4917..5057 /estimated_length=141 gap 5586..6381 /estimated_length=796 gap 6631..6978 /estimated_length=348 gap 7244..7382 /estimated_length=139 gap 7741..7870 /estimated_length=130 gap 8158..8268 /estimated_length=111 gap 9196..9891 /estimated_length=696 3'UTR 10210..10566 ORIGIN 1 gcccgtgtga gcccctttgg gggcttgaag aggctgccag ccggacttct gctgggtcat 61 gggcccatca ggatggtctt ggcgattcta gcctttttga gattcacggc aatcaagcca 121 tcactgggtc tcatcaatag atggggttca gtggggaaaa aagaggctat ggaaataata 181 aagannnnnn nnnnnnnnnn nnnnnnnnng ctgagaataa tcaatgctag gaaggagaag 241 aagagacgag gcgcagatac tagtgtcgga attgttggcc tcctgctgac cacagctatg 301 gcagcggagg tcactagacg tgggagtgca tactatatgt acttggacag aaacgatgct 361 ggggaggcca tatcttttcc aaccacattg gggatgaata agtgttatat acnnnnnnnn 421 nnnnnnnnnn nnnnnnnnnn nnnnnnnnng agctatgaat gccctatgct ggatgagggg 481 gtggaaccag atgacgtcga ttgttggtgc aacacgacgt caacttgggt tgtgtacgga 541 acctgccatc acaaaaaagg tgaagcacgg agatctagaa gagctgtgac gctcccctcc 601 cattcca [gap 669 bp] Expand Ns 1277 gaca tgaaactgat gagaatagag cgaaggttga gataacgccc 1321 aattcaccaa gagccgaagc caccctgggg gg [gap 479 bp] Expand Ns 1832 cagctcaga tggcggtgga catgcaaact 1861 ctgaccccag ttgggaggtt gataaccgct aaccccgtaa tcactgaaag cac [gap 284 bp] Expand Ns 2198 cac aaattctcat tggaacgttg 2221 ctgatgtggt tgggtctgaa cacaaagaat ggatctattt cccttatgtg cttggcctta 2281 gggggagtgn nnnnnnnnnn nnnnnnnnnn nnnnnnnnnn nnnnnnnnnn nnnnnnnnac 2341 ttctcaaaga aggagacgag atgcggtaca ggggtgttcg tctataacga cgttgaagcc 2401 tggagggaca ggtacaagta ccatcctgac tccccccgta gattggcagc agcagtcaag 2461 caagcctggg aagatggtat ctgcgggatc tcctctgttt caagaatgga aaacatcatg 2521 tggagatcag tagaagggga gctcaacgca atcctggaag agaatggagt tcaactgacg 2581 gtcgttgtgg gatctgtaaa aaaccccatg tggagaggtc cacagagatt gcccgtgcct 2641 gtgaacgagc tgccccacgg ctggaaggct tgggggaaat cgtacttcgt cagagcagca 2701 aagacaaata acagctttgt cgtggatggt gacacactga agg [gap 107 bp] Expand Ns 2851 gagtgtgatc cagccgttat tggaacagct 2881 gttaagggaa aggaggctgt acacagtgat ctaggctact ggattgagag tgagaagaat 2941 gacacatgga ggctgaagag ggcccatctg atcgagatga aaacatgtga atggccaaag 3001 tcccacacat tgtggacaga tggaatagnn nnnnnnnnnn nnnnnnnnnn nnnnnnnnnn 3061 nnnnnnnnnn nnnnnnnnnn nnnnnnnnnn nnnnnnnnnn nnnnnnnnnn nnnnnnncca 3121 tggcacagtg aagagcttga aattcggttt gaggaatgcc caggcactaa ggnnnnnnnn 3181 nnnnnnnnnn nnnnnnnnnn nnnnnnnnnn nnnnnnnnnn nnnnnnnnnn nnnnnnnnnn 3241 nnnnnnnnat ggtgctgcag ggagtgcaca atgcccccac tgtcgttccg ggctaaagat 3301 ggctgttggt atggaatgga gannnnnnnn nnnnnnnnnn nagaaagcaa cttagtaagg 3361 tcaatggtga ctgcaggatc aactgatcac atggatcact tctcccttgg agtgcttgtg 3421 attctgctca tggtgcagga agggctgaag aagagaatga ccacaaagan nnnnnnnnnn 3481 nnnnnnnnnn nnnnnnnnnn nnnnnnnnnn nnnnnnnnnn nnnnnnnnnn nnnnnnnnnn 3541 nnnnnnnnnn nnnnnnnnng tgccaccttc gcggaaatga acactggagg agatgtagct 3601 catctggcgc tgatagcggc attcaaagtc agaccagcgt tgctggtatc tttcatcttc 3661 agagctaatt ggac [gap 102 bp] Expand Ns 3777 ggcc 3781 tggttggcaa tacgagcgat ggttgttcca cgcactgata acatcacctt ggcaatcttg 3841 gctgctctga caccactggc ccggggcaca ctgcttgtgg cgtggagagc aggccttgct 3901 acttgcggg [gap 103 bp] Expand Ns 4013 acgtggtg 4021 ggactgctgt tgctcacaag gagtgggaag cggagctggc cccctagcga agtactcaca 4081 gctgttggcc tgatatgcgc attggctgga gggttcgcca aggcagatat agagatggct 4141 gggcccatgg ccgcggtcgg tctgctaatt gtcagttacg tggtctcagg aaagagtg [gap 110 bp] Expand Ns 4309 ct ggtggaggat 4321 gacggtcccc ccatgagaga gatcatactc aaggtggtcc tgatgaccat ctgtggcatg 4381 aacccaatag ccataccctt tgcagctgga gcgtggta [gap 134 bp] Expand Ns 4553 gagtggga 4561 gttatgcaag agggggtctt tcacactatg tggcacgtca caaaaggatc cgcgctgaga 4621 agcggtgaag ggagacttga tccatactgg ggagatgtca agcaggatct ggtgtcatac 4681 tgtggtccat ggaagctaga tgccgcctgg gacgggcaca gcgaggtgca gctcttggcc 4741 gtgcccnnnn nnnnnnnnnn nnnnnnnnnn nnnnnnnnnn nnnnnnnnnn nnnnncaaag 4801 ggtggggaca ttggagcggt tgcgctggat tacccagcag gaacttcagg atctccaatc 4861 ctagacaagt gtgggagagt gataggactt tatggcaatg gggtcgtgat caaaaa [gap 141 bp] Expand Ns 5058 tcc tgaaatagtc cgtgaagcca taaaaacaag actccgtact 5101 gtgatcttag ctccaaccag ggttgtcgct gctgaaatgg aggaagccct tagaggnnnn 5161 nnnnnnnnnn nnnngacaac agcagtcaat gtcacccact ctggaacaga aatcgtcgac 5221 ttaatgtgcc atgccacctt cacttcacgt ctactacagc caatcagagt ccccaattat 5281 aatctgtata ttatnnnnnn nnnnnnnnnn nnnnnnnnnn nnnnnnnnnn nnnnnnnnnn 5341 nnnnnnnnnn nnagggttga gatgggcgag gcggctgcca tcttcatgac cgccacgcca 5401 ccaggaaccc gtgacgcatt tccggactcc aactcaccaa ttatggacac cgaagtggaa 5461 gtcccagaga gagcctggag ctcaggcttt gattgggtga cggatcattc tggaaaaaca 5521 gtttggtttg ttccaagcgt gaggaacggc aatgagatcg cagcttgtct gacaaaggct 5581 ggaaa [gap 796 bp] Expand Ns 6382 gtgctcatg cgggcagaga ctggaagcag gccttacaaa 6421 gccgcggcgg cccaaatgcc ggagacccta gagaccatta tgcttttggg gttgctagga 6481 acagtctcgc tgggaatctt tttcgtcttg atgaggaaca agggcatagg gaagatgggc 6541 tttggaatgg tgactcttgg ggccagcgca tggctcatgt ggctctcgga aattgagcca 6601 gccagaattg catgtgtcct cattgttgtg [gap 348 bp] Expand Ns 6979 gg tatgggcaaa gggatgccat tctacgcatg ggactttgga 7021 gtcccgctgc taatgatagg ttgctactca caattaacac nnnnnnnnnn nnnnnnnnnn 7081 nnnnnnnnnn nnnnnnnnnn nnnnnnnnnn nnnnnnnnnn nnnnnnnggc agcagctgcg 7141 cgtgctgccc agaagagaac ggcagctggc atcatgaaga accctgttgt ggatggaata 7201 gtggtgactg acattgacac aatgacaatt gacccccaag tgg [gap 139 bp] Expand Ns 7383 gtactgga actcctctac agccacttca ctgtgtaaca tttttagggg aagttacttg 7441 gctggagctt ctctaatcta cacagtaaca agaaacgctg gcttggtcaa gagacgtggg 7501 ggtggaacag gagagaccct gggagnnnnn nnnnnnnnnn nnnnnnnnnn nnnnnnnnnn 7561 nnnnnnnnnn nnnnnnnnnn nnnnnnnnnn nnnnnnnngg tgtgcagaga agaggcccgc 7621 cgcgccctca aggacggtgt ggcaacggga ggccatgctg tgtcccgagg aagtgcaaag 7681 ctgagatggt tggtggagcg gggatacctg cagccccatg gaaaggtcat tgatcttgga [gap 130 bp] Expand Ns 7871 gtcttaagag tggggtggac gtctttcata tggcggctga gccgtgtgac 7921 acgttgctgt gtgacatagg tgagtcatca tctagtcctg aagtggaaga agcacggacg 7981 ctcagagttc tctccatggt nnnnnnnnnn nnnnnnnnnn nnnnnnnnnn nnnnnnnnnn 8041 nnnnnnnnnn nnnnnnnnnn nagcactatg atggaaaccc tggagcgact gcagcgtagg 8101 tatgggggag gactggtcag agtgccactc tcccgcaact ctacacatga gatgtac [gap 111 bp] Expand Ns 8269 aa tctcggctct 8281 ggcacgcggg ctgtggtaag ctgcgctgaa gctcccaaca tgaagatcat tggtaaccgc 8341 attgaaagga tccgcagtga gcacgcggaa acgtggttct ttgacgagaa ccacccatat 8401 aggacatggg cttaccatgg aagctatgag gcccccacac aagggtcagc gtcctctcta 8461 gtaaacgggg ttgtcaggct cctgtcaaaa ccctgggatg tggtgactgg agtcacagga 8521 atagccatga ccgacaccac accgtatggt cagcaaagag ttttcaagga aaaagtggac 8581 actagggtgc cagaccccca agaaggcact cgtcaggtta tgagcatggt ctcttcctgg 8641 ttgtggaaag agctaggcaa acacaaacgg ccacgagtct gtaccaaaga agagttcatc 8701 aacaaggttc gtagcnnnnn nnnnnnnnnn nnnnnnnnnn nnnnnnnnnn nnnnnnnnnn 8761 nnnnnnnnnn nagctgtgaa cgatccaagg ttctgggctc tagtggacaa ggaaagagag 8821 caccacctga gaggagagtg ccagagttgt gtgtacaaca tgatgggaaa aagagaaaag 8881 aaacaagggg aatttggaaa ggccaagggn nnnnnnnnnn nnnnnnnnnn nnnnctaggg 8941 gctagatttc tagagttcga agcccttgga ttcttgaacg aggatcactg gatggggaga 9001 gagaactcag gaggtggtgt tgaagggctg ggattacaaa gactcggata tgtcctagaa 9061 gagatgagtc gcataccagg aggaaggatg tatgcagatg acactgctgg ctgggacacc 9121 cgcatcagca ggtttgatct ggagaatgaa gctctaatca ccaaccaaat ggagaaaggg 9181 cacagggcct tggca [gap 696 bp] Expand Ns 9892 atccatgga 9901 aagggagaat ggatgaccac tgaagacatg cttgtggtgt ggaacagagt gtggattgag 9961 gagaacgacc acatggaaga caagacccca gttacgaaat ggacagacat tccctatttg 10021 ggaaaaaggg aagacttgtg gtgtggatct ctcatagggc acagaccgnn nnnnnnnnnn 10081 nnnnnnnnnn nnnnnnnnnn nnnnnnnnnn nnnnnnngga tcataggtga tgaagaaaag 10141 tacatggact acctatccac ccaagttcgc tacttgggtg aagaagggtc tacacctgga 10201 gtgctgtaag caccagtctt aatgttgtca ggcctgctag tcagccacag cttggggaaa 10261 gctgtgcagc ctgtgacccc cccaggagaa gctgggaaac caagcctata gtcaggccga 10321 gaacgccatg gcacggaaga agccatgctg cctgtgagcc cctcagagga cactgagtca 10381 aaaaacccca cgcgcttgga ggcgcaggat gggaaaagaa ggtggcgacc ttccccaccc 10441 ttcaatctgg ggcctgaact ggagatcagc tgtggatctc cagaagaggg actagtggtt 10501 agaggagacc ccccggaaaa cgcaaaacag catattgacg ctgggaaaga ccagagactc 10561 catgag

Bahia01 Seq Map Update https://www.google.com/maps/d/u/1/edit?mid=1XSxKe6FIecV8f33cQwyc7uylxeU&hl=en

Sequences producing significant alignments:Select:AllNone Selected:0 AlignmentsDownloadGenBankGraphicsDistance 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|KX101066.1|Zika virus isolate Bahia01, partial genome31551390075%0.0100%KX101066.1Select seq gb|KU940228.1|Zika virus isolate Bahia07, partial genome31461373974%0.099%KU940228.1Select seq gb|KU940224.1|Zika virus isolate Bahia09, partial genome31391364374%0.099%KU940224.1Select seq gb|KU509998.3|Zika virus strain Haiti/1225/2014, complete genome31281378675%0.099%KU509998.3Select seq gb|KU321639.1|Zika virus strain ZikaSPH2015, complete genome31281367674%0.099%KU321639.1Select seq gb|KU729218.1|Zika virus isolate BeH828305 polyprotein gene, complete cds31221379075%0.099%KU729218.1Select seq gb|KJ776791.1|Zika virus strain H/PF/2013 polyprotein gene, complete cds31221366274%0.099%KJ776791.1Select seq gb|KU991811.1|Zika virus isolate Brazil/2016/INMI1 polyprotein gene, complete cds31191366074%0.099%KU991811.1Select seq gb|KU870645.1|Zika virus isolate FB-GWUH-2016, complete genome31191372875%0.099%KU870645.1Select seq gb|KU926309.1|Zika virus isolate Rio-U1, complete genome31191375475%0.099%KU926309.1Select seq gb|KU922960.1|Zika virus isolate MEX/InDRE/Sm/2016, complete genome31191365474%0.099%KU922960.1Select seq gb|KU922923.1|Zika virus isolate MEX/InDRE/Lm/2016, complete genome31191365474%0.099%KU922923.1Select seq gb|KU707826.1|Zika virus isolate SSABR1, complete genome31191365474%0.099%KU707826.1Select seq gb|KU646828.1|Zika virus isolate Si322 polyprotein gene, partial cds3119406121%0.099%KU646828.1Select seq gb|KU647676.1|Zika virus strain MRS_OPY_Martinique_PaRi_2015 polyprotein gene, complete cds31191366574%0.099%KU647676.1Select seq gb|KU501217.1|Zika virus strain 8375 polyprotein gene, complete cds31191309271%0.099%KU501217.1Select seq gb|KU501216.1|Zika virus strain 103344 polyprotein gene, complete cds31191309271%0.099%KU501216.1Select seq gb|KU365780.1|Zika virus strain BeH815744 polyprotein gene, complete cds31191364274%0.099%KU365780.1Select seq gb|KU365779.1|Zika virus strain BeH819966 polyprotein gene, complete cds31191364574%0.099%KU365779.1Select seq gb|KU365778.1|Zika virus strain BeH819015 polyprotein gene, complete cds31191374175%0.099%KU365778.1Select seq gb|KU365777.1|Zika virus strain BeH818995 polyprotein gene, complete cds31191363374%0.099%KU365777.1Select seq gb|KX117076.1|Zika virus isolate Zhejiang04, complete genome31131371275%0.099%KX117076.1Select seq gb|KX087102.1|Zika virus strain ZIKV/Homo sapiens/COL/FLR/2015, complete genome31131364774%0.099%KX087102.1Select seq gb|KX051563.1|Zika virus isolate Haiti/1/2016, complete genome31131375575%0.099%KX051563.1Select seq gb|KU963796.1|Zika virus isolate SZ-WIV01 polyprotein gene, complete cds31131369875%0.099%KU963796.1Select seq gb|KU955589.1|Zika virus isolate Z16006 polyprotein gene, complete cds31131353074%0.099%KU955589.1Select seq gb|KU866423.1|Zika virus isolate Zika virus/SZ01/2016 polyprotein gene, complete cds31131296471%0.099%KU866423.1Select seq gb|KU820899.2|Zika virus isolate ZJ03, complete genome31131370775%0.099%KU820899.2Select seq gb|KU820897.1|Zika virus isolate FLR polyprotein gene, complete cds31131374875%0.099%KU820897.1Select seq gb|KU646827.1|Zika virus isolate Si323 polyprotein gene, partial cds3113405021%0.099%KU646827.1Select seq gb|KU501215.1|Zika virus strain PRVABC59, complete genome31131362774%0.099%KU501215.1Select seq gb|KU729217.2|Zika virus isolate BeH823339 polyprotein gene, complete cds31121364574%0.099%KU729217.2Select seq gb|KX087101.1|Zika virus strain ZIKV/Homo sapiens/PRI/PRVABC59/2015, complete genome31101373275%0.099%KX087101.1Select seq gb|KX056898.1|Zika virus isolate Zika virus/GZ02/2016 polyprotein gene, complete cds31101307071%0.099%KX056898.1Select seq gb|KU955590.1|Zika virus isolate Z16019 polyprotein gene, complete cds31101352674%0.099%KU955590.1Select seq gb|KU820898.1|Zika virus isolate GZ01 polyprotein gene, complete cds31101307771%0.099%KU820898.1Select seq gb|KU740184.2|Zika virus isolate GD01 polyprotein gene, complete cds31101350373%0.099%KU740184.2Select seq gb|KU761564.1|Zika virus isolate GDZ16001 polyprotein gene, complete cds31101321672%0.099%KU761564.1Select seq gb|KU497555.1|Zika virus isolate Brazil-ZKV2015, complete genome31101374175%0.099%KU497555.1Select seq gb|KU853013.1|Zika virus isolate Dominican Republic/2016/PD2, complete genome31081355274%0.099%KU853013.1Select seq gb|KU853012.1|Zika virus isolate Dominican Republic/2016/PD1, complete genome31081355274%0.099%KU853012.1Select seq gb|KU527068.1|Zika virus strain Natal RGN, complete genome31041375075%0.099%KU527068.1Select seq gb|KU312312.1|Zika virus isolate Z1106033 polyprotein gene, complete cds31041320272%0.099%KU312312.1Select seq gb|KU926310.1|Zika virus isolate Rio-S1, complete genome31011372575%0.099%KU926310.1Select seq gb|KU681081.3|Zika virus isolate Zika virus/H.sapiens-tc/THA/2014/SV0127- 14, complete genome30651352175%0.099%KU681081.3Select seq gb|KU744693.1|Zika virus isolate VE_Ganxian, complete genome30501348574%0.099%KU744693.1Select seq gb|KF993678.1|Zika virus strain PLCal_ZV from Canada polyprotein gene, partial cds30381257670%0.098%KF993678.1Select seq gb|EU545988.1|Zika virus polyprotein gene, complete cds30251255471%0.098%EU545988.1Select seq gb|KU955593.1|Zika virus isolate Zika virus/H.sapiens-tc/KHM/2010/FSS13025, complete genome30201329975%0.098%KU955593.1Select seq gb|JN860885.1|Zika virus isolate FSS13025 polyprotein gene, partial cds30201266271%0.098%JN860885.1Select seq gb|KU681082.3|Zika virus isolate Zika virus/H.sapiens-tc/PHL/2012/CPC-0740, complete genome29871309775%0.098%KU681082.3Select seq gb|HQ234499.1|Zika virus isolate P6-740 polyprotein gene, partial cds27871173071%0.095%HQ234499.1Select seq gb|KU312315.1|Zika virus isolate Z1106027 polyprotein gene, partial cds2677316916%0.099%KU312315.1Select seq gb|KU312314.1|Zika virus isolate Z1106031 polyprotein gene, partial cds2677404723%0.099%KU312314.1Select seq gb|KU312313.1|Zika virus isolate Z1106032 polyprotein gene, partial cds2664401923%0.099%KU312313.1

LOCUS KX101066 10632 bp RNA linear VRL 26-APR-2016 DEFINITION Zika virus isolate Bahia01, partial genome. ACCESSION KX101066 VERSION KX101066.1 GI:1022831301 KEYWORDS . SOURCE Zika virus ORGANISM Zika virus Viruses; ssRNA viruses; ssRNA positive-strand viruses, no DNA stage; Flaviviridae; Flavivirus. REFERENCE 1 (bases 1 to 10632) AUTHORS Naccache,S.N., Theze,J., Sardi,S.I., Somasekar,S., Greninger,A.L., Bandeira,A.C., Campos,G.S., Tauro,L.B., Faria,N.R., Pybus,O.G. and Chiu,C.Y. TITLE Discovery of a persistent Zika virus lineage in Bahia, Brazil JOURNAL Unpublished REFERENCE 2 (bases 1 to 10632) AUTHORS Naccache,S.N., Somasekar,S., Sardi,S.I., Bandeira,A.C., Campos,G.S. and Chiu,C.Y. TITLE Direct Submission JOURNAL Submitted (22-APR-2016) Laboratory Medicine, University of California, San Francisco, 185 Berry Street, #0134, San Francisco, CA 94107, USA COMMENT ##Assembly-Data-START## Assembly Method :: SURP+ v. 1.0 2016; Geneious v. 6.1.8 Sequencing Technology :: Illumina ##Assembly-Data-END## FEATURES Location/Qualifiers source 1..10632 /organism="Zika virus" /mol_type="genomic RNA" /isolate="Bahia01" /isolation_source="serum" /host="Homo sapiens" /db_xref="taxon:64320" /country="Brazil" /collection_date="May-2015" 5'UTR 1..3 CDS 4..10275 /codon_start=1 /product="polyprotein" /protein_id="ANA85193.1" /db_xref="GI:1022831302" /translation="MKNPKKKSGGFRIVNMLKRGVARVSPFGGLKRLPAGLLLGHGPI RMVLAILAFLRFTAIKPSLGLINXXXXXXKKEAMEIIKKFKKDLAAMLRIINARXXXX XXXXXXXXXXXXLLLTTAMAAEVTRRGSAYYMYLDRNDAGXXXXXXXXXXMNKCYIQI MDLGHMCDATMSYECPMLDEGVEPDDVDCWCNTTXXXXXXXTCHHKKGEARRSRRAVT LPSHSTRKLQTRSQTXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX XXXXXXXXXXXXXXXXXXXXXXXXXXXXXSGGTWVDVVLEHGGCVTVMAQDKPTVDIE LVTTTVSNMAEVRSYCYEASISDMASDSRCPTQGEAYLDKQSDTQYVCKRTLVDRGWG NGCXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXEYRIMLSVHGSQHSGMIVNDTGHET DENRAKVEITPNSPRAEATLGGFGSLGLDCEPRTGLDFSDLYYLTMNNKHWLVHKEWF HDIPLPWHAGADTGTPHWNNKEALVEFKDAHAKRQTVVVLGSQEGAVHTALAGALEAE MDGAKGRLSSGHLKCRLKMDKLRLKGVSYSLCNAAFTFTKIPAETLHGTVTVEVQYAG TDGPCKVPAQMAVDMQTLTPVGRLITANPVITESTENSKMMLELDPPFGDSYIVIGVG EKKITHHWHRSGSTIGKAFEATVRGAKRMAVLGDTAWDFGSVGGALNSLGKGIHQIFG AAFKSLFGGMSWFSQILIGTLLMWLGLNTKNGSISLMCLALGGVLIFLSTAVSADVGC SVDFSKKETRCGTGVFVYNDVEAWRDRYKYHPDSPRRLAAAVKQAWEDGICGISSVSR MENIXWRSVEGELXAILEENGVQLTVVVGSVKNPMWRGPQRLPVPVNELPHGWKAWGK SYFVRAAKTNNSFVVDGDTLKECPLKHRAWNSFLVEDHGFGVFHTSVWLKVREDYSLE CDPAVIGTAVKGREAVHSDLGYWIESEKNDTWRLKRAXXXXXXXXXXXXXXXXXXXXX XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXEELEIRFEECPGTKXHVEETCGTR GPSLRSTTASGRVIEEWCCXXXXXXPLSFRAKDGCWYGMEIRPRKEPESNLVRSMVTA GSTDHMDHFSLGVLVILLMVQEGLKKRMTTKIIISTSMAVLVAMILGGFSMSDLAKLA ILMGATFAEMNTGGDVAHLALIAAFKVRPALLVSFIFRAXXXXXXXXXXXXXXXXXXX XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXLAILAALTPLARGTLLVAWRAGL ATCGGFMLLSLKGKGSVKKNLPFVMALGXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX XXXXXXXXXXXAGGFAKADIEMAGPMAAVGLLIVSYVVSGKSVDMYIERAGDITWEKD AEVTGNXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX XXXXXXXXXXXXXXXXXXKEVKKGETTDGVYRVMTRRLLGSTQVGVGVMQEGVFHTMW HVTKGSALRSGEGRLDPYWGDVKQDLVSYCGPWKLDAAWDGHSEVQLLAVPPGERARN IQTLPGIFKTKGGDIGAVALDYPAGTSGSPILDKCGRVIGLYGNGVVIKNGSYVSAIT QGRREEETPVECFEPSMLKKKQLTVLDLHPGAGKTRRVLPEIVREAIKTRLRTVILAP TRVVAAEMEEALRGLPVRYMTTAVNVTHSGTEIVDLMCHATFTSRLLQPIRVPNYNLY XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX XXXXXXXXXXXXXXXXXXXXXXVPSVRNGNEIAACLTKAGKRVIQLSRKTFETEFQKT KHQEWDFVVTTDISEMGANFKADRVXXXXXXXXXXXXXXXXXXXXXPMPVTHASAAQR RGRIGRNPNKXGDEYLYGGGCAETDEDHAHWLEARMLLDNIYLQDGLIASLYRPEADK VAAIEGEFKLRTEQRKTFVELMKRGDLPVWLAYQVASAGITYTDRRWCFDGTTNNTIM EDSVPAEVWTRHGEKRVLKPRWMDARVCSDHAALKSFKEFAAGKRGAAFGVMEALGTL PGHMTERFQEAIXXXAVLMRAETGSRPYKAAAAQMPETLETIMLLGLLGTVSLGIFFV LMRNKGIGKMGFGMVTLGASAWLMWLSEIEPARIACVLIVVFLLLVVLIXXXXXXXXX XXXXXXXXXXXXXXXXXXXXXXXXGWLERTKSDLSHLMGRREEGATIGFSMDIDLRPA SAWAIYAALTTFITPXXXHAVTTSYNNYSLMAMATQAGVLFGMGKGMPFYAWDFGVPL LMIGCYSQLTPLTLIVAIILLVAHYMYLIPGLQAAAARAAQKRTAAGIMKNPVVDGIV VTDIDTMTIDPQVEKKMGQVLLIAVAVSSAXXXXXXXXXXXXXXXXXXXXXXXXXXXX XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXKRRGGGTGETLGEKWKARLNQ MSALEFYSYKKTGITEVCREEARRALKDXXXXXXXXXXXXXXXXXXXXXXXXLQPHGK VIDLGCGRGGWSYYAATIRKVQEVXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX XXXXXXXXXXXXIGESSSSPEVEEARTLRVLSMVGDXXXXXXXXXXXXXXXXXXXXXX XXXXXXXXXXXXXXXXVPLSRNSTHEMYWVSGAKSNTIKSVSTTSQLLLGRMDGPRRP VKYEEDVNLGSGTRAVVSCAEAPNMKIIGNRIERIRSEHAETWFFDENHPYRTWAYHG SYXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXGIAMTDTTPYGQQRVFKEKVDTRVPD PQEGTRQVMSMVSSWLWKELGKHKRPRVXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXREKKQGEFGKAKGSRAIWYMWLGA RFLXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXTYQNKVVKVLRPAEKGKTVMDIISRQ DQRGSGQVVTYALNTXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXWKPSTGWDNWEEVPFCSHH FNKLHLKDGRSIVVPCRHQDELIGRARVSPGAGWSIRETACLAKSYAQMWQLLYFHRR DLRLMANAICSSVPVDWVPTGRTTWSIHGKGEWMTTEDMLVVWNRVWIEENDHMEDKT PVMKWTDIPYLGKREDLWCGSLIGHRPRTTWAENIKNTVNMVRRIIGDEEKYMDYLST QVRYLGEEGSTPGVL" mat_peptide 4..378 /product="capsid peptide" mat_peptide 379..648 /product="propeptide" mat_peptide 649..873 /product="membane protein peptide" mat_peptide 874..2388 /product="envelope protein peptide" mat_peptide 2389..3474 /product="NS1 peptide" mat_peptide 3475..4128 /product="NS2A peptide" mat_peptide 4129..4560 /product="NS2B peptide" mat_peptide 4561..6369 /product="NS3 peptide" mat_peptide 6370..6810 /product="NS4A peptide" mat_peptide 6811..8316 /product="NS4B peptide" mat_peptide 8317..10272 /product="NS5 peptide" gap 703..916 /estimated_length=214 gap 3030..3193 /estimated_length=164 gap 3732..3892 /estimated_length=161 gap 4049..4169 /estimated_length=121 gap 4330..4539 /estimated_length=210 gap 5356..5595 /estimated_length=240 gap 7360..7553 /estimated_length=194 gap 7866..7999 /estimated_length=134 gap 8074..8187 /estimated_length=114 gap 8745..8937 /estimated_length=193 gap 9020..9277 /estimated_length=258 gap 9403..9647 /estimated_length=245 3'UTR 10276..10632 ORIGIN 1 gtcatgaaaa acccaaaaaa gaaatccgga ggattccgga ttgtcaatat gctaaaacgc 61 ggagtagccc gtgtgagccc ctttgggggc ttgaagaggc tgccagccgg acttctgctg 121 ggtcatgggc ccatcaggat ggtcttggcg attctagcct ttttgagatt cacggcaatc 181 aagccatcac tgggtctcat caatagnnnn nnnnnnnnnn ngaaaaaaga ggctatggaa 241 ataataaaga agttcaagaa agatctggct gccatgctga gaataatcaa tgctaggaan 301 nnnnnnnnnn nnnnnnnnnn nnnnnnnnnn nnnnnnnnnn nnnnnctcct gctgaccaca 361 gctatggcag cggaggtcac tagacgtggg agtgcatact atatgtactt ggacagaaac 421 gatgctgggg nnnnnnnnnn nnnnnnnnnn nnnnnnnnna tgaataagtg ttatatacag 481 atcatggatc ttggacacat gtgtgatgcc accatgagct atgaatgccc tatgctggat 541 gagggggtgg aaccagatga cgtcgattgt tggtgcaaca cgacgtnnnn nnnnnnnnnn 601 nnnngaacct gccatcacaa aaaaggtgaa gcacggagat ctagaagagc tgtgacgctc 661 ccctcccatt ccactaggaa gctgcaaacg cggtcgcaaa cc [gap 214 bp] Expand Ns 917 tgtc aggtgggact tgggttgatg ttgtcttgga acatggaggt 961 tgtgtcaccg taatggcaca ggacaaaccg actgtcgaca tagagctggt tacaacaaca 1021 gtcagcaaca tggcggaggt aagatcctac tgctatgagg catcaatatc agacatggct 1081 tcggacagcc gctgcccaac acaaggtgaa gcctaccttg acaagcaatc agacactcaa 1141 tatgtctgca aaagaacgtt agtggacaga ggctggggaa atggatgtnn nnnnnnnnnn 1201 nnnnnnnnnn nnnnnnnnnn nnnnnnnnnn nnnnnnnnnn nnnnnnnnnn nnnnnnnnnn 1261 nnnnnnnnnn nnnnnnngga gtaccggata atgctgtcag ttcatggctc ccagcacagt 1321 gggatgatcg ttaatgacac aggacatgaa actgatgaga atagagcgaa ggttgagata 1381 acgcccaatt caccaagagc cgaagccacc ctggggggtt ttggaagcct aggacttgat 1441 tgtgaaccga ggacaggcct tgacttttca gatttgtatt acttgactat gaataacaag 1501 cactggttgg ttcacaagga gtggttccac gacattccat taccttggca cgctggggca 1561 gacaccggaa ctccacactg gaacaacaaa gaagcactgg tagagttcaa ggacgcacat 1621 gccaaaaggc aaactgtcgt ggttctaggg agtcaagaag gagcagttca cacggccctt 1681 gctggagctc tagaggctga gatggatggt gcaaagggaa ggctgtcctc tggccacttg 1741 aaatgtcgcc tgaaaatgga taaacttaga ttgaagggcg tgtcatactc cttgtgtaac 1801 gcagcgttca cattcaccaa gatcccggct gaaacactgc acgggacagt cacagtggag 1861 gtacagtacg cagggactga tggaccttgc aaggttccag ctcagatggc ggtggacatg 1921 caaactctga ccccagttgg gaggttgata accgctaacc ccgtaatcac tgaaagcact 1981 gagaactcta agatgatgct ggaacttgat ccaccatttg gggactccta cattgtcata 2041 ggagtcgggg agaagaagat cacccaccac tggcacagga gtggcagcac cattggaaaa 2101 gcatttgaag ccactgtgag aggtgccaag agaatggcag tcttgggaga cacagcctgg 2161 gactttggat cagttggagg cgctctcaac tcattgggca agggcatcca tcaaattttt 2221 ggagcagctt tcaaatcatt gtttggagga atgtcctggt tctcacaaat tctcattgga 2281 acgttgctga tgtggttggg tctgaacaca aagaatggat ctatttccct tatgtgcttg 2341 gccttagggg gagtgttgat cttcttatcc acagccgtct ctgctgatgt ggggtgctcg 2401 gtggacttct caaagaagga gacgagatgc ggtacagggg tgttcgtcta taacgacgtt 2461 gaagcctgga gggacaggta caagtaccat cctgactccc cccgtagatt ggcagcagca 2521 gtcaagcaag cctgggaaga tggtatctgc gggatctcct ctgtttcaag aatggaaaac 2581 atcawgtgga gatcagtaga aggggagctc aamgcaatcc tggaagagaa tggagttcaa 2641 ctgacggtcg ttgtgggatc tgtaaaaaac cccatgtgga gaggtccaca gagattgccc 2701 gtgcctgtga acgagctgcc ccacggctgg aaggcttggg ggaaatcgta cttcgtcaga 2761 gcagcaaaga caaataacag ctttgtcgtg gatggtgaca cactgaagga atgcccactc 2821 aaacatagag catggaacag ctttcttgtg gaggatcatg ggttcggggt atttcacact 2881 agtgtctggc tcaaggttag agaagattat tcattagagt gtgatccagc cgttattgga 2941 acagctgtta agggaaggga ggctgtacac agtgatctag gctactggat tgagagtgag 3001 aagaatgaca catggaggct gaagagggc [gap 164 bp] Expand Ns 3194 gtgaaga gcttgaaatt cggtttgagg aatgcccagg cactaagrtc 3241 cacgtggagg aaacatgtgg aacaagagga ccatctctga gatcaaccac tgcaagcgga 3301 agggtgatcg aggaatggtg ctgcagnnnn nnnnnnnnnn ccccactgtc gttccgggct 3361 aaagatggct gttggtatgg aatggagata aggcccagga aagaaccaga aagcaactta 3421 gtaaggtcaa tggtgactgc aggatcaact gatcacatgg atcacttctc ccttggagtg 3481 cttgtgatyc tgctcatggt gcaggaaggg ctgaagaaga gaatgaccac aaagatcatc 3541 ataagcacat caatggcagt gctggtagct atgatcctgg gaggattttc aatgagtgac 3601 ctggctaagc ttgcaatttt gatgggtgcc accttcgcgg aaatgaacac tggaggagat 3661 gtagctcatc tggcgctgat agcggcattc aaagtcagac cagcgttgct ggtatctttc 3721 atcttcagag c [gap 161 bp] Expand Ns 3893 ccttggca 3901 atcttggctg ctctgacacc actggcccgg ggcacactgc ttgtggcgtg gagagcaggc 3961 cttgctactt gcggggggtt tatgctcctc tctctgaagg gaaaaggcag tgtgaagaag 4021 aacttaccat ttgtcatggc cctgggac [gap 121 bp] Expand Ns 4170 g gctggagggt tcgccaaggc agatatagag 4201 atggctgggc ccatggccgc ggtcggtctg ctaattgtca gttacgtggt ctcaggaaag 4261 agcgtggaca tgtacattga aagagcaggt gacatcacat gggaaaaaga tgcggaagtc 4321 actggaaac [gap 210 bp] Expand Ns 4540 a aggaagtaaa aaagggggag 4561 accacagatg gagtgtacag agtaatgact cgtagactgc taggttcaac acaagttgga 4621 gtgggagtta tgcaagaggg ggtctttcac actatgtggc acgtcacaaa aggatccgcg 4681 ctgagaagcg gtgaagggag acttgatcca tactggggag atgtcaagca ggatctggtg 4741 tcatactgtg gtccatggaa gctagatgcc gcctgggacg ggcacagcga ggtgcagctc 4801 ttggccgtgc cccccggaga gagagcgagg aacatccaga ctctgcccgg aatatttaag 4861 acaaagggtg gggacattgg agcggttgcg ctggattacc cagcaggaac ttcaggatct 4921 ccaatcctag acaagtgtgg gagagtgata ggactttatg gcaatggggt cgtgatcaaa 4981 aatgggagtt atgttagtgc catcacccaa gggaggaggg aggaagagac tcctgttgag 5041 tgcttcgagc cttcgatgct gaagaagaag cagctaactg tcttagactt gcatcctgga 5101 gctgggaaaa ccaggagagt tcttcctgaa atagtccgtg aagccataaa aacaagactc 5161 cgtactgtga tcttagctcc aaccagggtt gtcgctgctg aaatggagga agcccttaga 5221 gggcttccag tgcgttatat gacaacagca gtcaatgtca cccactctgg aacagaaatc 5281 gtcgacttaa tgtgccatgc caccttcact tcacgtctac tacagccaat cagagtcccc 5341 aattataatc tgtat [gap 240 bp] Expand Ns 5596 gttcc aagcgtgagg aacggcaatg agatcgcagc ttgtctgaca 5641 aaggctggaa aacgggtcat acagctcagc agaaagactt ttgagacaga gttccagaaa 5701 acaaaacatc aagagtggga ctttgtcgtg acaactgaca tttcagagat gggcgccaac 5761 tttaaagctg accgtgtcat nnnnnnnnnn nnnnnnnnnn nnnnnnnnnn nnnnnnnnnn 5821 nnnnnnnnnn nnnnnnnnnn acccatgcct gtcacacatg ccagcgctgc ccagaggagg 5881 gggcgcatag gcaggaatcc caacaaamct ggagatgagt atctgtatgg aggtgggtgc 5941 gcagagactg acgaagacca tgcacactgg cttgaagcaa gaatgctcct tgacaatatt 6001 tacctccaag atggcctcat agcctcgctc tatcgacctg aggccgacaa agtagcagcc 6061 attgagggag agttcaagct taggacggag caaaggaaga cctttgtgga actcatgaaa 6121 agaggagatc ttcctgtttg gctggcctat caggttgcat ctgccggaat aacctacaca 6181 gatagaagat ggtgctttga tggcacgacc aacaacacca taatggaaga cagtgtgccg 6241 gcagaggtgt ggaccagaca cggagagaaa agagtgctca aaccgaggtg gatggacgcc 6301 agagtttgtt cagatcatgc ggccctgaag tcattcaagg agtttgccgc tgggaaaaga 6361 ggggcggctt ttggagtgat ggaagccctg ggaacactgc caggacacat gacagagaga 6421 ttccaggaag ccattgannn nnncgctgtg ctcatgcggg cagagactgg aagcaggcct 6481 tacaaagccg cggcggccca aatgccggag accctagaga ccattatgct tttggggttg 6541 ctaggaacag tctcgctggg aatctttttc gtcttgatga ggaacaaggg catagggaag 6601 atgggctttg gaatggtgac tcttggggcc agcgcatggc tcatgtggct ctcggaaatt 6661 gagccagcca gaattgcatg tgtcctcatt gttgtgttcc tattgctggt ggtgctcata 6721 cnnnnnnnnn nnnnnnnnnn nnnnnnnnnn nnnnnnnnnn nnnnnnnnnn nnnnnnnnnn 6781 nnnnnnnnnn nnnnnnnnnn nnnnnnnnnn nnnnnnnncg gatggttgga gagaacaaag 6841 agtgacctaa gccatctaat gggaaggaga gaggaggggg caaccatagg attctcaatg 6901 gacattgacc tacggccagc ctcagcttgg gccatctatg ctgccttgac aactttcatt 6961 accccnnnnn nnnnncatgc agtgaccact tcatacaaca actactcctt aatggcgatg 7021 gccacgcaag ctggagtgtt gtttggtatg ggcaaaggga tgccattcta cgcatgggac 7081 tttggagtcc cgctgctaat gataggttgc tactcacaat taacacccct gaccctaata 7141 gtggccatca ttttgctcgt ggcgcactac atgtacttga tcccagggct gcaggcagca 7201 gctgcgcgtg ctgcccagaa gagaacggca gctggcatca tgaagaaccc tgttgtggat 7261 ggaatagtgg tgactgacat tgacacaatg acaattgacc cccaagtgga gaaaaagatg 7321 ggacaggtgc tactcatagc agtagccgtc tccagcgcc [gap 194 bp] Expand Ns 7554 caagaga 7561 cgtgggggtg gaacaggaga gaccctggga gagaaatgga aggcccgctt gaaccagatg 7621 tcggccctgg agttctactc ctacaaaaag acaggcatca ccgaggtgtg cagagaagag 7681 gcccgccgcg ccctcaagga cnnnnnnnnn nnnnnnnnnn nnnnnnnnnn nnnnnnnnnn 7741 nnnnnnnnnn nnnnnnnnnn nnnnnnnnnn nncctgcagc cccatggaaa ggtcattgat 7801 cttggatgtg gcagaggggg ctggagttac tacgccgcca ccatccgcaa agttcaagaa 7861 gtgaa [gap 134 bp] Expand Ns 8000 a cataggtgag tcatcatcta gtcctgaagt ggaagaagca 8041 cggacgctca gagttctctc catggtgggg gat [gap 114 bp] Expand Ns 8188 gtg ccactctccc gcaactctac acatgagatg 8221 tactgggtct ctggagcgaa aagcaacacc ataaaaagtg tgtccaccac gagccagctc 8281 ctcttggggc gcatggacgg gcctaggagg ccagtgaaat atgaggagga tgtgaatctc 8341 ggctctggca cgcgggctgt ggtaagctgc gctgaagctc ccaacatgaa gatcattggt 8401 aaccgcattg aaaggatccg cagtgagcac gcggaaacgt ggttctttga cgagaaccac 8461 ccatatagga catgggctta ccatggaagc tatgnnnnnn nnnnnnnnnn nnnnnnnnnn 8521 ncnnnnnnnn nnnnnnnnnn nnnnnnnnnn nnnnnnnnnn nnnnnnnnnn nnnnnnnnnn 8581 nnaggaatag ccatgaccga caccacaccg tatggtcagc aaagagtttt caaggaaaaa 8641 gtggacacta gggtgccaga cccccaagaa ggcactcgtc aggttatgag catggtctct 8701 tcctggttgt ggaaagagct aggcaaacac aaacggccac gagt [gap 193 bp] Expand Ns 8938 aga 8941 gaaaagaaac aaggggaatt tggaaaggcc aagggcagcc gcgccatctg gtatatgtgg 9001 ctaggggcta gatttctag [gap 258 bp] Expand Ns 9278 aca cataccaaaa caaagtggta 9301 aaggtcctta gaccagctga aaaagggaaa acagttatgg acattatttc gagacaagac 9361 caaaggggga gcggacaagt tgtcacttac gctcttaaca ca [gap 245 bp] Expand Ns 9648 gtg gaaaccctca 9661 actggatggg acaactggga agaagttccg ttttgctccc accacttcaa caagctccat 9721 ctcaaggacg ggaggtccat tgtggttccc tgccgccacc aagatgaact gattggccgg 9781 gcccgcgtct ctccaggggc gggatggagc atccgggaga ctgcttgcct agcaaaatca 9841 tatgcgcaaa tgtggcagct cctttatttc cacagaaggg acctccgact gatggccaat 9901 gccatttgtt catctgtgcc agttgactgg gttccaactg ggagaactac ctggtcaatc 9961 catggaaagg gagaatggat gaccactgaa gacatgcttg tggtgtggaa cagagtgtgg 10021 attgaggaga acgaccacat ggaagacaag accccagtta tgaaatggac agacattccc 10081 tatttgggaa aaagggaaga cttgtggtgt ggatctctca tagggcacag accgcgcacc 10141 acctgggctg agaacattaa aaacacagtc aacatggtgc gcaggatcat aggtgatgaa 10201 gaaaagtaca tggactacct atccacccaa gttcgctact tgggtgaaga agggtctaca 10261 cctggagtac tgtaagcacc aatcttaatg ttgtcaggcc tgctagtcag ccacagcttg 10321 gggaaagctg tgcagcctgt gaccccccca ggagaagctg ggaaaccaag cctatagtca 10381 ggccgagaac gccatggcac ggaagaagcc atgctgcctg tgagcccctc agaggacact 10441 gagtcaaaaa accccacgcg cttggaggcg caggatggga aaagaaggtg gcgaccttcc 10501 ccacccttca atctggggcc tgaactggag atcagctgtg gatctccaga agagggacta 10561 gtggttagag gagacccccc ggaaaacgca aaacagcata ttgacgctgg gaaagaccag 10621 agactccatg ag

Bahai15 Seq Map Update https://www.google.com/maps/d/u/1/edit?mid=1XSxKe6FIecV8f33cQwyc7uylxeU&hl=en

Select:AllNone Selected:0 AlignmentsDownloadGenBankGraphicsDistance 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|KX101065.1|Zika virus isolate Bahia15, partial genome1189836449%0.0100%KX101065.1Select seq gb|KU940228.1|Zika virus isolate Bahia07, partial genome1189826848%0.0100%KU940228.1Select seq gb|KU940224.1|Zika virus isolate Bahia09, partial genome1189826348%0.0100%KU940224.1Select seq gb|KX087102.1|Zika virus strain ZIKV/Homo sapiens/COL/FLR/2015, complete genome1184819848%0.099%KX087102.1Select seq gb|KU991811.1|Zika virus isolate Brazil/2016/INMI1 polyprotein gene, complete cds1184820548%0.099%KU991811.1Select seq gb|KU922960.1|Zika virus isolate MEX/InDRE/Sm/2016, complete genome1184818548%0.099%KU922960.1Select seq gb|KU922923.1|Zika virus isolate MEX/InDRE/Lm/2016, complete genome1184818548%0.099%KU922923.1Select seq gb|KU820897.1|Zika virus isolate FLR polyprotein gene, complete cds1184828848%0.099%KU820897.1Select seq gb|KU729218.1|Zika virus isolate BeH828305 polyprotein gene, complete cds1184829948%0.099%KU729218.1Select seq gb|KU527068.1|Zika virus strain Natal RGN, complete genome1184829048%0.099%KU527068.1Select seq gb|KU647676.1|Zika virus strain MRS_OPY_Martinique_PaRi_2015 polyprotein gene, complete cds1184819148%0.099%KU647676.1Select seq gb|KJ776791.1|Zika virus strain H/PF/2013 polyprotein gene, complete cds1184823448%0.099%KJ776791.1Select seq gb|KX087101.1|Zika virus strain ZIKV/Homo sapiens/PRI/PRVABC59/2015, complete genome1180827249%0.099%KX087101.1Select seq gb|KX051563.1|Zika virus isolate Haiti/1/2016, complete genome1180829048%0.099%KX051563.1Select seq gb|KU509998.3|Zika virus strain Haiti/1225/2014, complete genome1180831548%0.099%KU509998.3Select seq gb|KU870645.1|Zika virus isolate FB-GWUH-2016, complete genome1180825948%0.099%KU870645.1Select seq gb|KU926310.1|Zika virus isolate Rio-S1, complete genome1180829549%0.099%KU926310.1Select seq gb|KU926309.1|Zika virus isolate Rio-U1, complete genome1180829349%0.099%KU926309.1Select seq gb|KU729217.2|Zika virus isolate BeH823339 polyprotein gene, complete cds1180820348%0.099%KU729217.2Select seq gb|KU497555.1|Zika virus isolate Brazil-ZKV2015, complete genome1180828449%0.099%KU497555.1Select seq gb|KU707826.1|Zika virus isolate SSABR1, complete genome1180819848%0.099%KU707826.1Select seq gb|KU501217.1|Zika virus strain 8375 polyprotein gene, complete cds1180778246%0.099%KU501217.1Select seq gb|KU501216.1|Zika virus strain 103344 polyprotein gene, complete cds1180778246%0.099%KU501216.1Select seq gb|KU501215.1|Zika virus strain PRVABC59, complete genome1180818348%0.099%KU501215.1Select seq gb|KU365779.1|Zika virus strain BeH819966 polyprotein gene, complete cds1180819848%0.099%KU365779.1Select seq gb|KU365778.1|Zika virus strain BeH819015 polyprotein gene, complete cds1180827049%0.099%KU365778.1Select seq gb|KU321639.1|Zika virus strain ZikaSPH2015, complete genome1180821948%0.099%KU321639.1Select seq gb|KX117076.1|Zika virus isolate Zhejiang04, complete genome1175828849%0.099%KX117076.1Select seq gb|KU963796.1|Zika virus isolate SZ-WIV01 polyprotein gene, complete cds1175828449%0.099%KU963796.1Select seq gb|KU955589.1|Zika virus isolate Z16006 polyprotein gene, complete cds1175811748%0.099%KU955589.1Select seq gb|KU866423.1|Zika virus isolate Zika virus/SZ01/2016 polyprotein gene, complete cds1175776246%0.099%KU866423.1Select seq gb|KU820898.1|Zika virus isolate GZ01 polyprotein gene, complete cds1175774446%0.099%KU820898.1Select seq gb|KU740184.2|Zika virus isolate GD01 polyprotein gene, complete cds1175806147%0.099%KU740184.2Select seq gb|KU820899.2|Zika virus isolate ZJ03, complete genome1175828449%0.099%KU820899.2Select seq gb|KU761564.1|Zika virus isolate GDZ16001 polyprotein gene, complete cds1175774946%0.099%KU761564.1Select seq gb|KX056898.1|Zika virus isolate Zika virus/GZ02/2016 polyprotein gene, complete cds1171775346%0.099%KX056898.1Select seq gb|KU955590.1|Zika virus isolate Z16019 polyprotein gene, complete cds1171808848%0.099%KU955590.1Select seq gb|KU365780.1|Zika virus strain BeH815744 polyprotein gene, complete cds1171819248%0.099%KU365780.1Select seq gb|KU365777.1|Zika virus strain BeH818995 polyprotein gene, complete cds1171818948%0.099%KU365777.1Select seq gb|KU312312.1|Zika virus isolate Z1106033 polyprotein gene, complete cds1171777646%0.099%KU312312.1Select seq gb|KU853013.1|Zika virus isolate Dominican Republic/2016/PD2, complete genome1166810448%0.099%KU853013.1Select seq gb|KU853012.1|Zika virus isolate Dominican Republic/2016/PD1, complete genome1166810448%0.099%KU853012.1Select seq gb|KU744693.1|Zika virus isolate VE_Ganxian, complete genome1157811148%0.099%KU744693.1Select seq gb|KF993678.1|Zika virus strain PLCal_ZV from Canada polyprotein gene, partial cds1153756046%0.099%KF993678.1Select seq gb|KU955593.1|Zika virus isolate Zika virus/H.sapiens-tc/KHM/2010/FSS13025, complete genome1148803448%0.099%KU955593.1Select seq gb|KU681081.3|Zika virus isolate Zika virus/H.sapiens-tc/THA/2014/SV0127- 14, complete genome1148816249%0.099%KU681081.3Select seq gb|JN860885.1|Zika virus isolate FSS13025 polyprotein gene, partial cds1148753546%0.099%JN860885.1Select seq gb|EU545988.1|Zika virus polyprotein gene, complete cds1130744646%0.098%EU545988.1Select seq gb|KU681082.3|Zika virus isolate Zika virus/H.sapiens-tc/PHL/2012/CPC-0740, complete genome1103787349%0.097%KU681082.3Select seq gb|HQ234499.1|Zika virus isolate P6-740 polyprotein gene, partial cds1045693646%0.095%HQ234499.1

LOCUS KX101065 10348 bp RNA linear VRL 26-APR-2016 DEFINITION Zika virus isolate Bahia15, partial genome. ACCESSION KX101065 VERSION KX101065.1 GI:1022831299 KEYWORDS . SOURCE Zika virus ORGANISM Zika virus Viruses; ssRNA viruses; ssRNA positive-strand viruses, no DNA stage; Flaviviridae; Flavivirus. REFERENCE 1 (bases 1 to 10348) AUTHORS Naccache,S.N., Theze,J., Sardi,S.I., Somasekar,S., Greninger,A.L., Bandeira,A.C., Campos,G.S., Tauro,L.B., Faria,N.R., Pybus,O.G. and Chiu,C.Y. TITLE Discovery of a persistent Zika virus lineage in Bahia, Brazil JOURNAL Unpublished REFERENCE 2 (bases 1 to 10348) AUTHORS Naccache,S.N., Somasekar,S., Sardi,S.I., Bandeira,A.C., Campos,G.S. and Chiu,C.Y. TITLE Direct Submission JOURNAL Submitted (22-APR-2016) Laboratory Medicine, University of California, San Francisco, 185 Berry Street, #0134, San Francisco, CA 94107, USA COMMENT ##Assembly-Data-START## Assembly Method :: SURP+ v. 1.0 2016; Geneious v. 6.1.8 Sequencing Technology :: Illumina ##Assembly-Data-END## FEATURES Location/Qualifiers source 1..10348 /organism="Zika virus" /mol_type="genomic RNA" /isolate="Bahia15" /isolation_source="serum" /host="Homo sapiens" /db_xref="taxon:64320" /country="Brazil" /collection_date="Jan-2016" CDS 1..>9872 /codon_start=1 /product="polyprotein" /protein_id="ANA85192.1" /db_xref="GI:1022831300" /translation="MRIINARKEKKRRGADTSVGIVGLLLTTAMAAEVTRRGXXXXXX XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXTMSYECPMLDEGVEPDDVDCWCNT TSTWVVYGTCHHKKGEARRSRRAVTLPSHSXXXXXXXXXXXXXXXXXXXXXXXXXXXX XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXLKCRLKMDKLRLKGVSYSLCN AAFTFTKIPAETLHGTVTVEVQYXXXXXXXXXXAQMAVDMQTLTPVGRLITANPVITE STXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXQILIGTLLMWLGLNTKNGS ISLMCLALGGVXXXXXXXXXXXXGCSVDFSKKETRXGTGVFVYNDVEAWRDRYKYHPD SPRRLAXXXXXXXXXXXXXXXXXXXXXXXXXXXVEGELNAILEENGVQLTVVVGSVKN PMWRGPQRLPVPVNELPHGWKAWGKSYFVRAAKTNNSFVVDGDTLKXXXXXXXXXXXX XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXPWH SEELEIRFEECPGTKXXXXXXXXXXXXXXXXXXXXXXXXXXWCCRECTMPPLSFRAKD GCWYGMEXXXXXXXXXXXXXXXXXXXXXXXXDHFSLGVLVILLMVQEGLKKRMTTKXX XXXXXXXXXXXXXXXXXXXXXXXXXXXXXATFAEMNTGGDVAHLALIAAFKVRPAXXX XXXXXXXXXXXXSMLLALASCLLQTAISALEGDLMVLINGFALAWLAIRAMVVPRTDN ITLAILAALTXXXXXXXLVAWRAGLATCGGFMLLSLKGKGSVKKNLPFVXXXXXXXXX XXXXXXVVGLLLLTRSGKRSWPPSEVLTAVGLICALAGGFAKADIEMAGPMAAVGLLI VSYVVSGKSVDMYIERAGDITWEKXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXMREI ILKVVLMTICGMNPIAIPFAAGAWXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXRV MTRRLLGSTQVGVGVMQEGVFHTMWHVTKGSALRSGEGRLDPYWGDVKQDLVSYCGPW KLDAAWDGHSEVQLLAVPPGXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX XXXXXXPEIVREAIKTRLRTVILAPTRVVAAEMEEALRGLPVRYMTTAVNVTHSGTEI VDLMCHATFTSRLLQPIRVPNYNLYIMDEAHFTDPSSIAARGYISTRVEMGEAAAIFM TATPPGTRDAFPDSNSPIMDTEVEVPERAWSSGFDWVTDHSGKTVWFVPSVRNGNEIA ACLTKAGKRVIQLSRKTFETEFQKTKHQEWDFVVTTDISEMGANFKADRVIXXXXXXX XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXLYGGGCAETDEDHAHWLE ARMLLDNIYLQDGLIASLYRPEADKVAAIEGXXXXXXXXXXXXXXXXXXXXXXXXXXX XXXXXXXXXXDRRWCFDGTTNNTIMEDSVPAEVWTRHGEKRVLKPRWMDARVCSDHAA LKSFKEXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX XXXXXXXXXXXXXXXXXXXXXXXXXXXXNKGIGKMGFGMVTLGASAWLMWLSEIEPAR IACVLIVVFLLLVVLIPEPEKQRSPQDXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXTFITPAVQHAVTTSYNNYSLMAM ATQAGVLFGMGKGMPFYAWDFGVPLLMIGCYSQLTXXXXXXXXXXXXXXXXXXXXXXX XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXIYTVTRN AGLVKRRGGGTGETLGEKWKXXXXXXXXXXXXXXXXXXXXXVCREEARRALKDGVATG GHAVSRGSAKLRWLVERGYLQPHGKVIDLGCGRGGWSYYAATIRKVQEVKGXXXXXXX XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXPLSRNSTHEMYWVSGA KSNTIKSVSTTSQLLLGRMDGPRRPVKYEEDXXXXXXXXXXXXXXXXXXMKIIGNRIE RIRSEHAETWFFDENHPYXXXXXXXXXXXXXXXXXXXXXXXXVRLLSKPWDVVTGVTG IAMTDTTPYGQQRVFXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX XXXXXXXXXXXXXXXXXXXXXXTAVEAVNDPRFWALVDKEREHHLRGECQSCVYNMMG KREKKQGEFGKAKGXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX LGYVLEEMSRIPGGRMYADDTAGWDTRISRFDLENEALITNQMEKGHRALALAIXXXX XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX XXXXXXXXXXXXXXXXXXLLYFHRRDLRLMANAICSSVPVDWVPTGRTTXXIHGKGEW MTTEDMLVVWNRVWIEENDHMEDKTPVTKWTDIPYLGKREDLWCGSLIGHRPRTTWA" mat_peptide 1..102 /product="capsid peptide" mat_peptide 103..372 /product="propeptide" mat_peptide 373..597 /product="membane protein peptide" mat_peptide 598..2112 /product="envelope protein peptide" mat_peptide 2113..3198 /product="NS1 peptide" mat_peptide 3199..3852 /product="NS2A peptide" mat_peptide 3853..4284 /product="NS2B peptide" mat_peptide 4285..6093 /product="NS3 peptide" mat_peptide 6094..6534 /product="NS4A peptide" mat_peptide 6535..8040 /product="NS4B peptide" mat_peptide 8041..9872 /product="NS5 peptide" gap 117..234 /estimated_length=118 gap 398..1460 /estimated_length=1063 gap 1704..1987 /estimated_length=284 gap 2534..2907 /estimated_length=374 gap 4544..4847 /estimated_length=304 gap 5507..5646 /estimated_length=140 gap 5793..5904 /estimated_length=112 gap 6067..6305 /estimated_length=239 gap 6478..6675 /estimated_length=198 gap 6851..7244 /estimated_length=394 gap 7594..7914 /estimated_length=321 gap 8357..8548 /estimated_length=192 gap 8701..8832 /estimated_length=132 gap 8997..9582 /estimated_length=586 gap 9873..10067 /estimated_length=195 3'UTR <10068..10348 ORIGIN 1 ctgagaataa tcaatgctag gaaggagaag aagagacgag gcgcagatac tagtgtcgga 61 attgttggcc tcctgctgac cacagctatg gcagcggagg tcactagacg tgggag [gap 118 bp] Expand Ns 235 accatg 241 agctatgaat gccctatgct ggatgagggg gtggaaccag atgacgtcga ttgttggtgc 301 aacacgacgt caacttgggt tgtgtacgga acctgccatc acaaaaaagg tgaagcacgg 361 agatctagaa gagctgtgac gctcccctcc cattcca [gap 1063 bp] Expand Ns 1461 cttgaaatgt cgcctgaaaa tggataaact tagattgaag 1501 ggcgtgtcat actccttgtg taacgcagcg ttcacattca ccaagatccc ggctgaaaca 1561 ctgcacggga cagtcacagt ggaggtacag tacnnnnnnn nnnnnnnnnn nnnnnnnnnn 1621 ncagctcaga tggcggtgga catgcaaact ctgaccccag ttgggaggtt gataaccgct 1681 aaccccgtaa tcactgaaag cac [gap 284 bp] Expand Ns 1988 cac aaattctcat tggaacgttg ctgatgtggt tgggtctgaa cacaaagaat 2041 ggatctattt cccttatgtg cttggcctta gggggagtgn nnnnnnnnnn nnnnnnnnnn 2101 nnnnnnnnnn nnnnggggtg ctcggtggac ttctcaaaga aggagacgag atgmggtaca 2161 ggggtgttcg tctataacga cgttgaagcc tggagggaca ggtacaagta ccatcctgac 2221 tccccccgta gattggcagn nnnnnnnnnn nnnnnnnnnn nnnnnnnnnn nnnnnnnnnn 2281 nnnnnnnnnn nnnnnnnnnn nnnnnnnnnn nnnnnnnnng tagaagggga gctcaacgca 2341 atcctggaag agaatggagt tcaactgacg gtcgttgtgg gatctgtaaa aaaccccatg 2401 tggagaggtc cacagagatt gcccgtgcct gtgaacgagc tgccccacgg ctggaaggct 2461 tgggggaaat cgtacttcgt cagagcagca aagacaaata acagctttgt cgtggatggt 2521 gacacactga agg [gap 374 bp] Expand Ns 2908 cca tggcacagtg aagagcttga aattcggttt 2941 gaggaatgcc caggcactaa ggnnnnnnnn nnnnnnnnnn nnnnnnnnnn nnnnnnnnnn 3001 nnnnnnnnnn nnnnnnnnnn nnnnnnnnnn nnnnnnnnat ggtgctgcag ggagtgcaca 3061 atgcccccac tgtcgttccg ggctaaagat ggctgttggt atggaatgga gannnnnnnn 3121 nnnnnnnnnn nnnnnnnnnn nnnnnnnnnn nnnnnnnnnn nnnnnnnnnn nnnnnnnnnn 3181 nnngatcact tctcccttgg agtgcttgtg attctgctca tggtgcagga agggctgaag 3241 aagagaatga ccacaaagan nnnnnnnnnn nnnnnnnnnn nnnnnnnnnn nnnnnnnnnn 3301 nnnnnnnnnn nnnnnnnnnn nnnnnnnnnn nnnnnnnnnn nnnnnnnnng tgccaccttc 3361 gcggaaatga acactggagg agatgtagct catctggcgc tgatagcggc attcaaagtc 3421 agaccagcgt nnnnnnnnnn nnnnnnnnnn nnnnnnnnnn nnnnnnnnnn nnaaagcatg 3481 ctgctggcct tggcctcgtg tcttttgcaa actgcgatct ccgccttgga aggcgacctg 3541 atggttctca tcaatggttt tgctttggcc tggttggcaa tacgagcgat ggttgttcca 3601 cgcactgata acatcacctt ggcaatcttg gctgctctga cacnnnnnnn nnnnnnnnnn 3661 nngcttgtgg cgtggagagc aggccttgct acttgcgggg ggtttatgct cctctctctg 3721 aagggaaaag gcagtgtgaa gaagaactta ccatttgtcn nnnnnnnnnn nnnnnnnnnn 3781 nnnnnnnnnn nnnnnnnnnn nnacgtggtg ggactgctgt tgctcacaag gagtgggaag 3841 cggagctggc cccctagcga agtactcaca gctgttggcc tgatatgcgc attggctgga 3901 gggttcgcca aggcagatat agagatggct gggcccatgg ccgcggtcgg tctgctaatt 3961 gtcagttacg tggtctcagg aaagagtgtg gacatgtaca ttgaaagagc aggtgacatc 4021 acatgggaaa aagannnnnn nnnnnnnnnn nnnnnnnnnn nnnnnnnnnn nnnnnnnnnn 4081 nnnnnnnnnn nnnnnnnnnn nnnnnnnnnn nnnnnnnnnn ccatgagaga gatcatactc 4141 aaggtggtcc tgatgaccat ctgtggcatg aacccaatag ccataccctt tgcagctgga 4201 gcgtggtann nnnnnnnnnn nnnnnnnnnn nnnnnnnnnn nnnnnnnnnn nnnnnnnnnn 4261 nnnnnnnnnn nnnnnnnnnn nnnnnnnnnn nnnnnnnnnn acagagtaat gactcgtaga 4321 ctgctaggtt caacacaagt tggagtggga gttatgcaag agggggtctt tcacactatg 4381 tggcacgtca caaaaggatc cgcgctgaga agcggtgaag ggagacttga tccatactgg 4441 ggagatgtca agcaggatct ggtgtcatac tgtggtccat ggaagctaga tgccgcctgg 4501 gacgggcaca gcgaggtgca gctcttggcc gtgccccccg gag [gap 304 bp] Expand Ns 4848 tcc tgaaatagtc 4861 cgtgaagcca taaaaacaag actccgtact gtgatcttag ctccaaccag ggttgtcgct 4921 gctgaaatgg aggaagccct tagagggctt ccagtgcgtt atatgacaac agcagtcaat 4981 gtcacccact ctggaacaga aatcgtcgac ttaatgtgcc atgccacctt cacttcacgt 5041 ctactacagc caatcagagt ccccaattat aatctgtata ttatggatga ggcccacttc 5101 acagatccct caagtatagc agcaagagga tacatttcaa caagggttga gatgggcgag 5161 gcggctgcca tcttcatgac cgccacgcca ccaggaaccc gtgacgcatt tccggactcc 5221 aactcaccaa ttatggacac cgaagtggaa gtcccagaga gagcctggag ctcaggcttt 5281 gattgggtga cggatcattc tggaaaaaca gtttggtttg ttccaagcgt gaggaacggc 5341 aatgagatcg cagcttgtct gacaaaggct ggaaaacggg tcatacagct cagcagaaag 5401 acttttgaga cagagttcca gaaaacaaaa catcaagagt gggactttgt cgtgacaact 5461 gacatttcag agatgggcgc caactttaaa gctgaccgtg tcatag [gap 140 bp] Expand Ns 5647 ctgt atggaggtgg gtgcgcagag actgacgaag accatgcaca ctggcttgaa 5701 gcaagaatgc tccttgacaa tatttacctc caagatggcc tcatagcctc gctctatcga 5761 cctgaggccg acaaagtagc agccattgag gg [gap 112 bp] Expand Ns 5905 gataga agatggtgct ttgatggcac gaccaacaac 5941 accataatgg aagacagtgt gccggcagag gtgtggacca gacacggaga gaaaagagtg 6001 ctcaaaccga ggtggatgga tgccagagtt tgttcagatc atgcggccct gaagtcattc 6061 aaggag [gap 239 bp] Expand Ns 6306 gaaca agggcatagg gaagatgggc tttggaatgg tgactcttgg ggccagcgca 6361 tggctcatgt ggctctcgga aattgagcca gccagaattg catgtgtcct cattgttgtg 6421 ttcctattgc tggtggtgct catacctgag ccagaaaagc aaagatctcc ccaggac [gap 198 bp] Expand Ns 6676 acttt cattacccca gccgtccaac atgcagtgac cacttcatac 6721 aacaactact ccttaatggc gatggccacg caagctggag tgttgtttgg tatgggcaaa 6781 gggatgccat tctacgcatg ggactttgga gtcccgctgc taatgatagg ttgctactca 6841 caattaacac [gap 394 bp] Expand Ns 7245 aatcta cacagtaaca 7261 agaaacgctg gcttggtcaa gagacgtggg ggtggaacag gagagaccct gggagagaaa 7321 tggaaggnnn nnnnnnnnnn nnnnnnnnnn nnnnnnnnnn nnnnnnnnnn nnnnnnnnnn 7381 nnnnnnnngg tgtgcagaga agaggcccgc cgcgccctca aggacggtgt ggcaacggga 7441 ggccatgctg tgtcccgagg aagtgcaaag ctgagatggt tggtggagcg gggatacctg 7501 cagccccatg gaaaggtcat tgatcttgga tgtggcagag ggggctggag ttactacgcc 7561 gccaccatcc gcaaagttca agaagtgaaa gga [gap 321 bp] Expand Ns 7915 ccactc 7921 tcccgcaact ctacacatga gatgtactgg gtctctggag cgaaaagcaa caccataaaa 7981 agtgtgtcca ccacgagcca gctcctcttg gggcgcatgg acgggcctag gaggccagtg 8041 aaatatgagg aggatgnnnn nnnnnnnnnn nnnnnnnnnn nnnnnnnnnn nnnnnnnnnn 8101 nnnnnnnnca tgaagatcat tggtaaccgc attgaaagga tccgcagtga gcacgcggaa 8161 acgtggttct ttgacgagaa ccacccatat agnnnnnnnn nnnnnnnnnn nnnnnnnnnn 8221 nnnnnnnnnn nnnnnnnnnn nnnnnnnnnn nnnnnnnnnn ntgtcaggct cctgtcaaaa 8281 ccctgggatg tggtgactgg agtcacagga atagccatga ccgacaccac accgtatggt 8341 cagcaaagag ttttca [gap 192 bp] Expand Ns 8549 ag actgcagtgg aagctgtgaa cgatccaagg 8581 ttctgggctc tagtggacaa ggaaagagag caccacctga gaggagagtg ccagagttgt 8641 gtgtacaaca tgatgggaaa aagagaaaag aaacaagggg aatttggaaa ggccaagggc [gap 132 bp] Expand Ns 8833 ctcggata tgtcctagaa gagatgagtc gcataccagg aggaaggatg 8881 tatgcagatg acactgctgg ctgggacacc cgcatcagca ggtttgatct ggagaatgaa 8941 gctctaatca ccaaccaaat ggagaaaggg cacagggcct tggcattggc cataat [gap 586 bp] Expand Ns 9583 ctccttta tttccacaga 9601 agggacctcc gactgatggc caatgccatt tgctcatctg tgccagttga ctgggttcca 9661 actgggagaa ctacctnnnn natccatgga aagggagaat ggatgaccac tgaagacatg 9721 cttgtggtgt ggaacagagt gtggattgag gagaacgacc acatggaaga caagacccca 9781 gttacgaaat ggacagacat tccctatttg ggaaaaaggg aagacttgtg gtgtggatct 9841 ctcatagggc acagaccgcg caccacctgg gc [gap 195 bp] Expand Ns 10068 ccc cccaggagaa 10081 gctgggaaac caagcctata gtcaggccga gaacgccatg gcacggaaga agccatgctg 10141 cctgtgagcc cctcagagga cactgagtca aaaaacccca cgcgcttgga ggcgcaggat 10201 gggaaaagaa ggtggcgacc ttccccaccc ttcaatctgg ggcctgaact ggagatcagc 10261 tgtggatctc cagaagaggg actagtggtt agaggagacc ccccggaaaa cgcaaaacag 10321 catattgacg ctgggaaaga ccagagac

Bahia11 Sequence map update https://www.google.com/maps/d/u/1/edit?mid=1XSxKe6FIecV8f33cQwyc7uylxeU&hl=en

Sequences producing significant alignments:Select:AllNone Selected:0 AlignmentsDownloadGenBankGraphicsDistance 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|KX101064.1|Zika virus isolate Bahia11, partial genome22861170066%0.0100%KX101064.1Select seq gb|KU940228.1|Zika virus isolate Bahia07, partial genome22861156866%0.092%KU940228.1Select seq gb|KU940227.1|Zika virus isolate Bahia08, partial genome22801119162%0.094%KU940227.1Select seq gb|KU940224.1|Zika virus isolate Bahia09, partial genome22801141965%0.092%KU940224.1Select seq gb|KU729218.1|Zika virus isolate BeH828305 polyprotein gene, complete cds22801157766%0.092%KU729218.1Select seq gb|KU509998.3|Zika virus strain Haiti/1225/2014, complete genome22771157466%0.092%KU509998.3Select seq gb|KU926310.1|Zika virus isolate Rio-S1, complete genome22771155466%0.092%KU926310.1Select seq gb|KU707826.1|Zika virus isolate SSABR1, complete genome22771141766%0.092%KU707826.1Select seq gb|KU365780.1|Zika virus strain BeH815744 polyprotein gene, complete cds22771142266%0.092%KU365780.1Select seq gb|KU365779.1|Zika virus strain BeH819966 polyprotein gene, complete cds22771143566%0.092%KU365779.1Select seq gb|KU365777.1|Zika virus strain BeH818995 polyprotein gene, complete cds22771142266%0.092%KU365777.1Select seq gb|KU321639.1|Zika virus strain ZikaSPH2015, complete genome22771146266%0.092%KU321639.1Select seq gb|KX051563.1|Zika virus isolate Haiti/1/2016, complete genome22711155066%0.092%KX051563.1Select seq gb|KU853013.1|Zika virus isolate Dominican Republic/2016/PD2, complete genome22711136665%0.092%KU853013.1Select seq gb|KU729217.2|Zika virus isolate BeH823339 polyprotein gene, complete cds22711141366%0.092%KU729217.2Select seq gb|KU527068.1|Zika virus strain Natal RGN, complete genome22711156766%0.092%KU527068.1Select seq gb|KU312312.1|Zika virus isolate Z1106033 polyprotein gene, complete cds22711089663%0.092%KU312312.1Select seq gb|KJ776791.1|Zika virus strain H/PF/2013 polyprotein gene, complete cds22711133465%0.092%KJ776791.1Select seq gb|KU853012.1|Zika virus isolate Dominican Republic/2016/PD1, complete genome22691136365%0.092%KU853012.1Select seq gb|KX087101.1|Zika virus strain ZIKV/Homo sapiens/PRI/PRVABC59/2015, complete genome22681149466%0.092%KX087101.1Select seq gb|KU991811.1|Zika virus isolate Brazil/2016/INMI1 polyprotein gene, complete cds22681142066%0.092%KU991811.1Select seq gb|KU497555.1|Zika virus isolate Brazil-ZKV2015, complete genome22681154166%0.092%KU497555.1Select seq gb|KU501217.1|Zika virus strain 8375 polyprotein gene, complete cds22681079562%0.092%KU501217.1Select seq gb|KU501216.1|Zika virus strain 103344 polyprotein gene, complete cds22681079562%0.092%KU501216.1Select seq gb|KU501215.1|Zika virus strain PRVABC59, complete genome22681145366%0.092%KU501215.1Select seq gb|KX117076.1|Zika virus isolate Zhejiang04, complete genome22621153066%0.092%KX117076.1Select seq gb|KU955590.1|Zika virus isolate Z16019 polyprotein gene, complete cds22621119265%0.092%KU955590.1Select seq gb|KU870645.1|Zika virus isolate FB-GWUH-2016, complete genome22621152966%0.092%KU870645.1Select seq gb|KU926309.1|Zika virus isolate Rio-U1, complete genome22621156366%0.092%KU926309.1Select seq gb|KU365778.1|Zika virus strain BeH819015 polyprotein gene, complete cds22621151466%0.092%KU365778.1Select seq gb|KX056898.1|Zika virus isolate Zika virus/GZ02/2016 polyprotein gene, complete cds22591074162%0.092%KX056898.1Select seq gb|KU963796.1|Zika virus isolate SZ-WIV01 polyprotein gene, complete cds22591144066%0.092%KU963796.1Select seq gb|KU955589.1|Zika virus isolate Z16006 polyprotein gene, complete cds22591121265%0.092%KU955589.1Select seq gb|KU866423.1|Zika virus isolate Zika virus/SZ01/2016 polyprotein gene, complete cds22591067162%0.092%KU866423.1Select seq gb|KU820898.1|Zika virus isolate GZ01 polyprotein gene, complete cds22591075262%0.092%KU820898.1Select seq gb|KU740184.2|Zika virus isolate GD01 polyprotein gene, complete cds22591124065%0.092%KU740184.2Select seq gb|KU820899.2|Zika virus isolate ZJ03, complete genome22591152066%0.092%KU820899.2Select seq gb|KU761564.1|Zika virus isolate GDZ16001 polyprotein gene, complete cds22591088963%0.092%KU761564.1Select seq gb|KU744693.1|Zika virus isolate VE_Ganxian, complete genome22591133866%0.092%KU744693.1Select seq gb|KX087102.1|Zika virus strain ZIKV/Homo sapiens/COL/FLR/2015, complete genome22531143166%0.092%KX087102.1Select seq gb|KU922960.1|Zika virus isolate MEX/InDRE/Sm/2016, complete genome22531130965%0.092%KU922960.1Select seq gb|KU922923.1|Zika virus isolate MEX/InDRE/Lm/2016, complete genome22531130465%0.092%KU922923.1Select seq gb|KU820897.1|Zika virus isolate FLR polyprotein gene, complete cds22531154566%0.092%KU820897.1Select seq gb|KU647676.1|Zika virus strain MRS_OPY_Martinique_PaRi_2015 polyprotein gene, complete cds22531131865%0.092%KU647676.1Select seq gb|KU681081.3|Zika virus isolate Zika virus/H.sapiens-tc/THA/2014/SV0127- 14, complete genome22231134366%0.091%KU681081.3Select seq gb|KF993678.1|Zika virus strain PLCal_ZV from Canada polyprotein gene, partial cds22081047262%0.091%KF993678.1Select seq gb|KU955593.1|Zika virus isolate Zika virus/H.sapiens-tc/KHM/2010/FSS13025, complete genome21861114866%0.091%KU955593.1Select seq gb|JN860885.1|Zika virus isolate FSS13025 polyprotein gene, partial cds21861037562%0.091%JN860885.1Select seq gb|KU681082.3|Zika virus isolate Zika virus/H.sapiens-tc/PHL/2012/CPC-0740, complete genome21631099766%0.090%KU681082.3Select seq gb|EU545988.1|Zika virus polyprotein gene, complete cds21361027962%0.090%EU545988.1Select seq gb|HQ234499.1|Zika virus isolate P6-740 polyprotein gene, partial cds2048957362%0.089%HQ234499.1Select seq gb|KX101061.1|Zika virus isolate Bahia03, partial genome1627901451%0.096%KX101061.1Select seq gb|KX101066.1|Zika virus isolate Bahia01, partial genome1617888949%0.096%KX101066.1

LOCUS KX101064 10735 bp RNA linear VRL 26-APR-2016 DEFINITION Zika virus isolate Bahia11, partial genome. ACCESSION KX101064 VERSION KX101064.1 GI:1022831297 KEYWORDS . SOURCE Zika virus ORGANISM Zika virus Viruses; ssRNA viruses; ssRNA positive-strand viruses, no DNA stage; Flaviviridae; Flavivirus. REFERENCE 1 (bases 1 to 10735) AUTHORS Naccache,S.N., Theze,J., Sardi,S.I., Somasekar,S., Greninger,A.L., Bandeira,A.C., Campos,G.S., Tauro,L.B., Faria,N.R., Pybus,O.G. and Chiu,C.Y. TITLE Discovery of a persistent Zika virus lineage in Bahia, Brazil JOURNAL Unpublished REFERENCE 2 (bases 1 to 10735) AUTHORS Naccache,S.N., Somasekar,S., Sardi,S.I., Bandeira,A.C., Campos,G.S. and Chiu,C.Y. TITLE Direct Submission JOURNAL Submitted (22-APR-2016) Laboratory Medicine, University of California, San Francisco, 185 Berry Street, #0134, San Francisco, CA 94107, USA COMMENT ##Assembly-Data-START## Assembly Method :: SURP+ v. 1.0 2016; Geneious v. 6.1.8 Sequencing Technology :: Illumina ##Assembly-Data-END## FEATURES Location/Qualifiers source 1..10735 /organism="Zika virus" /mol_type="genomic RNA" /isolate="Bahia11" /isolation_source="serum" /host="Homo sapiens" /db_xref="taxon:64320" /country="Brazil" /collection_date="Apr-2015" 5'UTR 1..>79 gap 80..378 /estimated_length=299 CDS <379..10378 /codon_start=2 /product="polyprotein" /protein_id="ANA85191.1" /db_xref="GI:1022831298" /translation="LRIINARKEKKRRGADTSVGIVGLLLTTAMAAEVTRRGSAYYMY LDRNDAGEAISFPTTLGMNKCYIXXXXXXXXXXXTMSYECPMLDEGVEPDDVDCWCNT TSTWVVYGTCHHKKGEARRSRRAVTLPSHSXXXXXXXXXXXXXXXXXXXXXXXXXXXX XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXILLIAPAYSIRCIGVSNRDFVEGMSGGT WVDXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX XXXXXXXXXXXXXXXXXVNDTGHETDENRAKVEITXXXXXXXXXXXXXXXXXXXXXXX XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXLKCRLKMDKLRLKGVSYSLCN AAFTFTKIPAETLHGTVTVEVQYAGTDGPCKVPAQMAVDMQTLTPVGRLITANPVITE STENSKMMLELDPPFGDSYIXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXQILIGTLLMWLGLNTKNGS VSLMCLALGGVLIFLSTAVSADVGCSVDFSKKETRCGTGVFVYNDVEAWRDRYKYHPD SPRRLAAAVKQAWEDGICGISSVSRMENIMWRSVEGELNAILEENGVQLTVVVGSVKN PMWRGPQRLPVPVNELPHGWKAWGKSYFVRAAKTNNSFVVDGDTLKXXXXXXXXXXXX XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXAVKGKEAVHSDLGYWIESEKNDTWR LKRAHLIEMKTCEWPKSHTLWTXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXWCCRECTMPPLSFRAKD GCWYGMEXXXXKEPESNLVRSMVTAGSTDHMDHFSLGVLVILLMVQEGLKKRMTTKII ISTSMAVLVAMILGGFSMSDLAKLAILMGATFAEMNTGGDVAHLALIAAFKVRPALLV SFIFRANWTXXXSMLLALASCLLQTAISALEGDLMVLINGFALAWLAIRAMVVPRTDN ITLAILAALTPLARGTLLVAWRAGLATCGGFMLLSLKGKGSVKKNLPFVXXXXXXXXX XXXXXXVVGLLLLTRSGKRSWPPSEVLTAVGLICALAGGFAKADIEMAGPMAAVGLLI VSYVVSGKSVDMYIERAGDITWEKDAEVTGNSPRLDVALDESGDFSXXXXXXXPMREI ILKVVLMTICGMNPIAIPFAAGAWXXXXXXXXXXXXXXDVPAPKEVKKGETTDGVYRV MTRRLLGSTQVGVGVMQEGVFHTMWHVTKGSALRSGEGRLDPYWGDVKQDLVSYCGPW KLDAAWDGHSEVQLLAVPPGXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX XXXXXXXXXVREAIKTRLRTVILAPTRVVAAEMEEALRGLPVRYMTTAVNVTHSGTEI VDLMCHATFTSRLLQPIRVPNYNXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX XXXXXXGKRVIQLSRKTFETEFQKTKHQEWDXXXXXXXXXXXXXXXXXXXXXXXXXXX XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXLYGGGCAETDEDHAHWLE ARMLLDNIYLQDGLIASLYRPEADKVAAIEGXXXXXXXXXXXXXXXXXXXXXXXXXXX XXXXXXXXXXDRRWCFDGTTNNTIMEDSVPAEVWTRHGEKRVLKPRWMDARVCSDHAA LKSFKEFAAGKRGAAFGVMEALGTXXXXXXXXXXXXXXXXXVLMRAETGSRPYKAAAA QMPETLETIMLLGLLGTVSLGIFFVLMRNKGIGKMGFGMVTLGASAWLMWLSEIEPAR IACVLIVVFLLLVVLIPEPEKQRSPQDNQMAIIIMVAVGLLGLITAXXXXXXXXXXXX XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXTFITPAVQHAVTTSYNNYSLMAM ATQAGVLFGMGKGMPFYAWDFGVPLLMIGCYSQLTPLTLIVAIILLVAHYMYLXXXXX AAAARAAQKRTAAGIMKNPVVDGIVVTDIDTMTIDPQVEKKMGQVLLIAXXXXXXXXX XXXXXXGEAGALITAATSTLWEGSPNKYWNSSXXXXXXXXXXXXXXXXXXXIYTVTRN AGLVKRRGGGTGETLGEKWKARLNXXXXXXXXXXXXXXXXXVCREEARRALKDGVATG GHAVSRGSAKLRWLVERGYLQPHGKVIDLGCGRGGWSYYAATIRKVQEVKGXXXXXXX XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX XXXXXXXXXXXXXXXXXXXXXXTMMETLERLQRRYGGGLVRVPLSRNSTHEMYWVSGA KSNTIKSVSTTSQLLLGRMDGPRRPVKYEEDVNLGSGXXXXXXXXXXXXXXXXXXXXX XXXXXXXXXXXXXXXXXXXTWAYHGSYEAPTQGSASSLVNGVVRLLSKPWDVVTGVTG IAMTDTTPYGQQRVFXXKVDTRVPDPQEGTRQVMSMVSSWLWKELGKHKRPRVCTKEE FINKVRSNAALGAIFEEEKEWKTAVEAVNDPRFWALVDKEREHHLRGECQSCVYNMMG KREKKQGEFGKAKGSRAIWYMWLGARFLEFEALGFLNEDHWMGRENSGGGVEGLGLQR LGYVLEEMSRIPGGRMYADDTAGWDTRISRFDLENEALITNQMEKGHRALALAIIKYT YQNKVVKVLRPAEKGKTVMDIISRQDXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXGKV RKDTQEWKPSTGWDNWEEVPFCSHHFNXXXXXXXXXXXXXXRHQDELIGRARVSPGAG WSIRETACLAKSYAQMWQLLYFHRRDLRLMANAICSSVPVDWVPTGRTTWSIHGKGEW MTTEDMLVVWNRVWIEENDHMEDKTPVTKWTDIPYLGKREDLWCGSLIGHRPRTTWAE NIKNTVNMVRRIIGDEEKYMDYLSTQVRYLGEEGSTPGVL" mat_peptide 380..481 /product="capsid peptide" mat_peptide 482..751 /product="propeptide" mat_peptide 752..976 /product="membane protein peptide" mat_peptide 977..2491 /product="envelope protein peptide" mat_peptide 2492..3577 /product="NS1 peptide" mat_peptide 3578..4231 /product="NS2A peptide" mat_peptide 4232..4663 /product="NS2B peptide" mat_peptide 4664..6472 /product="NS3 peptide" mat_peptide 6473..6913 /product="NS4A peptide" mat_peptide 6914..8419 /product="NS4B peptide" mat_peptide 8420..10375 /product="NS5 peptide" gap 777..947 /estimated_length=171 gap 1044..1430 /estimated_length=387 gap 1486..1839 /estimated_length=354 gap 2139..2366 /estimated_length=228 gap 2913..3046 /estimated_length=134 gap 3188..3417 /estimated_length=230 gap 4923..5234 /estimated_length=312 gap 5454..5749 /estimated_length=296 gap 5825..6025 /estimated_length=201 gap 6172..6283 /estimated_length=112 gap 6915..7054 /estimated_length=140 gap 7973..8231 /estimated_length=259 gap 8454..8570 /estimated_length=117 gap 9465..9722 /estimated_length=258 3'UTR 10379..10735 ORIGIN 1 gttgttgatc tgtgtgaatc agactgcgac agttcgagtt tgaagcgaaa gctagcaaca 61 gtatcaacag gttttattt [gap 299 bp] Expand Ns 379 gc tgagaataat caatgctagg aaggagaaga agagacgagg 421 cgcagatact agtgtcggaa ttgttggcct cctgctgacc acagctatgg cagcggaggt 481 cactagacgt gggagtgcat actatatgta cttggacaga aacgatgctg gggaggccat 541 atcttttcca accacattgg ggatgaataa gtgttatata cnnnnnnnnn nnnnnnnnnn 601 nnnnnnnnnn nncaccatga gctatgaatg ccctatgctg gatgaggggg tggaaccaga 661 tgacgtcgat tgttggtgca acacgacgtc aacttgggtt gtgtacggaa cctgccatca 721 caaaaaaggt gaagcacgga gatctagaag agctgtgacg ctcccctccc attcca [gap 171 bp] Expand Ns 948 tga tactgctgat 961 tgccccggca tacagcatca ggtgcatagg agtcagcaat agggactttg tggaaggtat 1021 gtcaggtggg acttgggttg atg [gap 387 bp] Expand Ns 1431 tcgttaatga 1441 cacaggacat gaaactgatg agaatagagc gaaggttgag ataac [gap 354 bp] Expand Ns 1840 c ttgaaatgtc gcctgaaaat 1861 ggataaactt agattgaagg gcgtgtcata ctccttgtgt aacgcagcgt tcacattcac 1921 caagatcccg gctgaaacac tgcacgggac agtcacagtg gaggtacagt acgcagggac 1981 tgatggacct tgcaaggttc cagctcagat ggcggtggac atgcaaactc tgaccccagt 2041 tgggaggttg ataaccgcta accccgtaat cactgaaagc actgagaact ctaagatgat 2101 gctggaactt gatccaccat ttggggactc ctacattg [gap 228 bp] Expand Ns 2367 caca aattctcatt ggaacgttgc tgatgtggtt 2401 gggtctgaac acaaagaatg gatctgtttc ccttatgtgc ttggccttag ggggagtgtt 2461 gatcttctta tccacagccg tctctgctga tgtggggtgc tcggtggact tctcaaagaa 2521 ggagacgaga tgcggtacag gggtgttcgt ctataacgac gttgaagcct ggagggacag 2581 gtacaagtac catcctgact ccccccgtag attggcagca gcagtcaagc aagcctggga 2641 agatggtatc tgcgggatct cctctgtttc aagaatggaa aacatcatgt ggagatcagt 2701 agaaggggag ctcaacgcaa tcctggaaga gaatggagtt caactgacgg tcgttgtggg 2761 atctgtaaaa aaccccatgt ggagaggtcc acagagattg cccgtgcctg tgaacgagct 2821 gccccacggc tggaaggctt gggggaaatc gtacttcgtc agagcagcaa agacaaataa 2881 cagctttgtc gtggatggtg acacactgaa gg [gap 134 bp] Expand Ns 3047 gctg ttaagggaaa 3061 ggaggctgta cacagtgatc taggctactg gattgagagt gagaagaatg acacatggag 3121 gctgaagagg gcccatctga tcgagatgaa aacatgtgaa tggccaaagt cccacacatt 3181 gtggaca [gap 230 bp] Expand Ns 3418 atg 3421 gtgctgcagg gagtgcacaa tgcccccact gtcgttccgg gctaaagatg gctgttggta 3481 tggaatggag annnnnnnnn ggaaagaacc agaaagcaac ttagtaaggt caatggtgac 3541 tgcaggatca actgatcaca tggatcactt ctcccttgga gtgcttgtga ttctgctcat 3601 ggtgcaggaa gggctgaaga agagaatgac cacaaagatc atcataagca catcaatggc 3661 agtgctggta gctatgatcc tgggaggatt ttcaatgagt gacctggcta agcttgcaat 3721 tttgatgggt gccaccttcg cggaaatgaa cactggagga gatgtagctc atctggcgct 3781 gatagcggca ttcaaagtca gaccagcgtt gctggtatct ttcatcttca gagctaattg 3841 gacnnnnnnn naaagcatgc tgctggcctt ggcctcgtgt cttttgcaaa ctgcgatctc 3901 cgccttggaa ggcgacctga tggttctcat caatggtttt gctttggcct ggttggcaat 3961 acgagcgatg gttgttccac gcactgataa catcaccttg gcaatcttgg ctgctctgac 4021 accactggcc cggggcacac tgcttgtggc gtggagagca ggccttgcta cttgcggggg 4081 gtttatgctc ctctctctga agggaaaagg cagtgtgaag aagaacttac catttgtcnn 4141 nnnnnnnnnn nnnnnnnnnn nnnnnnnnnn nnnnnnnnnn nacgtggtgg gactgctgtt 4201 gctcacaagg agtgggaagc ggagctggcc ccctagcgaa gtactcacag ctgttggcct 4261 gatatgcgca ttggctggag ggttcgccaa ggcagatata gagatggctg ggcccatggc 4321 cgcggtcggt ctgctaattg tcagttacgt ggtctcagga aagagtgtgg acatgtacat 4381 tgaaagagca ggtgacatca catgggaaaa agatgcggaa gtcactggaa acagtccccg 4441 gctcgatgtg gcgctagatg agagtggtga tttctccnnn nnnnnnnnnn nnnnnnnccc 4501 catgagagag atcatactca aggtggtcct gatgaccatc tgtggcatga acccaatagc 4561 catacccttt gcagctggag cgtggtannn nnnnnnnnnn nnnnnnnnnn nnnnnnnnnn 4621 nnnnnnggat gtgcctgctc ccaaggaagt aaaaaagggg gagaccacag atggagtgta 4681 cagagtaatg actcgtagac tgctaggttc aacacaagtt ggagtgggag ttatgcaaga 4741 gggggtcttt cacactatgt ggcacgtcac aaaaggatcc gcgctgagaa gcggtgaagg 4801 gagacttgat ccatactggg gagatgtcaa gcaggatctg gtgtcatact gtggtccatg 4861 gaagctagat gccgcctggg acgggcacag cgaggtgcag ctcttggccg tgccccccgg 4921 ag [gap 312 bp] Expand Ns 5235 tagtcc gtgaagccat aaaaacaaga ctccgtactg tgatcttagc 5281 tccaaccagg gttgtcgctg ctgaaatgga ggaagccctt agagggcttc cagtgcgtta 5341 tatgacaaca gcagtcaatg tcacccactc tggaacagaa atcgtcgact taatgtgcca 5401 tgccaccttc acttcacgtc tactacagcc aatcagagtc cccaattata atc [gap 296 bp] Expand Ns 5750 g gaaaacgggt 5761 catacagctc agcagaaaga cttttgagac agagttccag aaaacaaaac atcaagagtg 5821 ggac [gap 201 bp] Expand Ns 6026 ctgta tggaggtggg tgcgcagaga ctgacgaaga 6061 ccatgcacac tggcttgaag caagaatgct ccttgacaat atttacctcc aagatggcct 6121 catagcctcg ctctatcgac ctgaggccga caaagtagca gccattgagg g [gap 112 bp] Expand Ns 6284 gatagaa gatggtgctt 6301 tgatggcacg accaacaaca ccataatgga agacagtgtg ccggcagagg tgtggaccag 6361 acacggagag aaaagagtgc tcaaaccgag gtggatggat gccagagttt gttcagatca 6421 tgcggccctg aagtcattca aggagtttgc cgctgggaaa agaggagcgg cttttggagt 6481 gatggaagcc ctgggaacac nnnnnnnnnn nnnnnnnnnn nnnnnnnnnn nnnnnnnnnn 6541 nnnnnnnnnn gtgctcatgc gggcagagac tggaagcagg ccttacaaag ccgcggcggc 6601 ccaaatgccg gagaccctag agaccattat gcttttgggg ttgctaggaa cagtctcgct 6661 gggaatcttt ttcgtcttga tgaggaacaa gggcataggg aagatgggct ttggaatggt 6721 gactcttggg gccagcgcat ggctcatgtg gctctcggaa attgagccag ccagaattgc 6781 atgtgtcctc attgttgtgt tcctattgct ggtggtgctc atacctgagc cagaaaagca 6841 aagatctccc caggacaacc aaatggcaat catcatcatg gtagcagtag gtcttctggg 6901 cttgattacc gcca [gap 140 bp] Expand Ns 7055 actttc attaccccag ccgtccaaca 7081 tgcagtgacc acttcataca acaactactc cttaatggcg atggccacgc aagctggagt 7141 gttgtttggt atgggcaaag ggatgccatt ctacgcatgg gactttggag tcccgctgct 7201 aatgataggt tgctactcac aattaacacc cctgacccta atagtggcca tcattttgct 7261 cgtggcgcac tacatgtact tgnnnnnnnn nnnnnnggca gcagctgcgc gtgctgccca 7321 gaagagaacg gcagctggca tcatgaagaa ccctgttgtg gatggaatag tggtgactga 7381 cattgacaca atgacaattg acccccaagt ggagaaaaag atgggacagg tgctactcat 7441 agcnnnnnnn nnnnnnnnnn nnnnnnnnnn nnnnnnnnnn nnnnnnnnng gggaggctgg 7501 ggctctgatc acagccgcaa cttccacttt gtgggaaggc tctccgaaca agtactggaa 7561 ctcctcnnnn nnnnnnnnnn nnnnnnnnnn nnnnnnnnnn nnnnnnnnnn nnnnnnnnnn 7621 nnnaatctac acagtaacaa gaaacgctgg cttggtcaag agacgtgggg gtggaacagg 7681 agagaccctg ggagagaaat ggaaggcccg cttgaaccnn nnnnnnnnnn nnnnnnnnnn 7741 nnnnnnnnnn nnnnnnnnnn nnnnnnnggt gtgcagagaa gaggcccgcc gcgccctcaa 7801 ggacggtgtg gcaacgggag gccatgctgt gtcccgagga agtgcaaagc tgagatggtt 7861 ggtggagcgg ggatacctgc agccccatgg aaaggtcatt gatcttggat gtggcagagg 7921 gggctggagt tactacgccg ccaccatccg caaagttcaa gaagtgaaag ga [gap 259 bp] Expand Ns 8232 gcactatga tggaaaccct ggagcgactg cagcgtaggt atgggggagg 8281 actggtcaga gtgccactct cccgcaactc tacacatgag atgtactggg tctctggagc 8341 gaaaagcaac accataaaaa gtgtgtccac cacgagccag ctcctcttgg ggcgcatgga 8401 cgggcctagg aggccagtga aatatgagga ggatgtgaat ctcggctctg gca [gap 117 bp] Expand Ns 8571 ggacatgggc 8581 ttaccatgga agctatgagg cccccacaca agggtcagcg tcctctctag taaacggggt 8641 tgtcaggctc ctgtcaaaac cctgggatgt ggtgactgga gtcacaggaa tagccatgac 8701 cgacaccaca ccgtatggtc agcaaagagt tttcannnnn aaagtggaca ctagggtgcc 8761 agacccccaa gaaggcactc gtcaggttat gagcatggtc tcttcctggt tgtggaaaga 8821 gctaggcaaa cacaaacggc cacgagtctg taccaaagaa gagttcatca acaaggttcg 8881 tagcaatgca gcattagggg caatatttga agaggaaaaa gagtggaaga ctgcagtgga 8941 agctgtgaac gatccaaggt tctgggctct agtggacaag gaaagagagc accacctgag 9001 aggagagtgc cagagttgtg tgtacaacat gatgggaaaa agagaaaaga aacaagggga 9061 atttggaaag gccaagggca gccgcgccat ctggtatatg tggctagggg ctagatttct 9121 agagttcgaa gcccttggat tcttgaacga ggatcactgg atggggagag agaactcagg 9181 aggtggtgtt gaagggctgg gattacaaag actcggatat gtcctagaag agatgagtcg 9241 cataccagga ggaaggatgt atgcagatga cactgctggc tgggacaccc gcatcagcag 9301 gtttgatctg gagaatgaag ctctaatcac caaccaaatg gagaaagggc acagggcctt 9361 ggcattggcc ataatcaagt acacatacca aaacaaagtg gtaaaggtcc ttagaccagc 9421 tgaaaaaggg aaaacagtta tggacattat ttcgagacaa gacc [gap 258 bp] Expand Ns 9723 tgggaaaa gttaggaagg acacacaaga gtggaaaccc tcaactggat gggacaactg 9781 ggaagaagtt ccgttttgct cccaccactt caacaannnn nnnnnnnnnn nnnnnnnnnn 9841 nnnnnnnnnn nnnngccgcc accaagatga actgattggc cgggcccgcg tatctccagg 9901 ggcgggatgg agcatccggg agactgcttg cctagcaaaa tcatatgcgc aaatgtggca 9961 gctcctttat ttccacagaa gggacctccg actgatggcc aatgccattt gctcatctgt 10021 gccagttgac tgggttccaa ctgggagaac tacctggtca atccatggaa agggagaatg 10081 gatgaccact gaagacatgc ttgtggtgtg gaacagagtg tggattgagg agaacgacca 10141 catggaagac aagaccccag ttacgaaatg gacagacatt ccctatttgg gaaaaaggga 10201 agacttgtgg tgtggatctc tcatagggca cagaccgcgc accacctggg ctgagaacat 10261 taaaaacaca gtcaacatgg tgcgcaggat cataggtgat gaagaaaagt acatggacta 10321 cctatccacc caagttcgct acttgggtga agaagggtct acacctggag tgctgtaagc 10381 accagtctta atgttgtcag gcctgctagt cagccacagc ttggggaaag ctgtgcagcc 10441 tgtgaccccc ccaggagaag ctgggaaacc aagcctatag tcaggccgag aacgccatgg 10501 cacggaagaa gccatgctgc ctgtgagccc ctcagaggac actgagtcaa aaaaccccac 10561 gcgcttggag gcgcaggatg ggaaaagaag gtggcgacct tccccaccct tcaatctggg 10621 gcctgaactg gagatcagct gtggatctcc agaagaggga ctagtggtta gaggagaccc 10681 cccggaaaac gcaaaacagc atattgacgc tgggaaagac cagagactcc atgag

Bahia05 Seq MapUpdate https://www.google.com/maps/d/u/1/edit?mid=1XSxKe6FIecV8f33cQwyc7uylxeU&hl=en

Sequences producing significant alignments:Select:AllNone Selected:0 AlignmentsDownloadGenBankGraphicsDistance 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|KX101063.1|Zika virus isolate Bahia05, partial genome1195802444%0.0100%KX101063.1Select seq gb|KU940228.1|Zika virus isolate Bahia07, partial genome1189796844%0.099%KU940228.1Select seq gb|KX087101.1|Zika virus strain ZIKV/Homo sapiens/PRI/PRVABC59/2015, complete genome1186792744%0.099%KX087101.1Select seq gb|KU940224.1|Zika virus isolate Bahia09, partial genome1186796544%0.099%KU940224.1Select seq gb|KU926310.1|Zika virus isolate Rio-S1, complete genome1186795244%0.099%KU926310.1Select seq gb|KU729218.1|Zika virus isolate BeH828305 polyprotein gene, complete cds1186796544%0.099%KU729218.1Select seq gb|KU707826.1|Zika virus isolate SSABR1, complete genome1186790244%0.099%KU707826.1Select seq gb|KU527068.1|Zika virus strain Natal RGN, complete genome1186795044%0.099%KU527068.1Select seq gb|KU501217.1|Zika virus strain 8375 polyprotein gene, complete cds1186742941%0.099%KU501217.1Select seq gb|KU501216.1|Zika virus strain 103344 polyprotein gene, complete cds1186742541%0.099%KU501216.1Select seq gb|KU501215.1|Zika virus strain PRVABC59, complete genome1186788444%0.099%KU501215.1Select seq gb|KU365780.1|Zika virus strain BeH815744 polyprotein gene, complete cds1186788944%0.099%KU365780.1Select seq gb|KU365779.1|Zika virus strain BeH819966 polyprotein gene, complete cds1186789444%0.099%KU365779.1Select seq gb|KU365777.1|Zika virus strain BeH818995 polyprotein gene, complete cds1186788544%0.099%KU365777.1Select seq gb|KU312312.1|Zika virus isolate Z1106033 polyprotein gene, complete cds1186746942%0.099%KU312312.1Select seq gb|KJ776791.1|Zika virus strain H/PF/2013 polyprotein gene, complete cds1186792344%0.099%KJ776791.1Select seq gb|KX117076.1|Zika virus isolate Zhejiang04, complete genome1180793044%0.099%KX117076.1Select seq gb|KX051563.1|Zika virus isolate Haiti/1/2016, complete genome1180794544%0.099%KX051563.1Select seq gb|KU509998.3|Zika virus strain Haiti/1225/2014, complete genome1180796644%0.099%KU509998.3Select seq gb|KU963796.1|Zika virus isolate SZ-WIV01 polyprotein gene, complete cds1180793044%0.099%KU963796.1Select seq gb|KU991811.1|Zika virus isolate Brazil/2016/INMI1 polyprotein gene, complete cds1180791144%0.099%KU991811.1Select seq gb|KU955589.1|Zika virus isolate Z16006 polyprotein gene, complete cds1180781044%0.099%KU955589.1Select seq gb|KU870645.1|Zika virus isolate FB-GWUH-2016, complete genome1180791244%0.099%KU870645.1Select seq gb|KU866423.1|Zika virus isolate Zika virus/SZ01/2016 polyprotein gene, complete cds1180739341%0.099%KU866423.1Select seq gb|KU853013.1|Zika virus isolate Dominican Republic/2016/PD2, complete genome1180779944%0.099%KU853013.1Select seq gb|KU853012.1|Zika virus isolate Dominican Republic/2016/PD1, complete genome1180779744%0.099%KU853012.1Select seq gb|KU820899.2|Zika virus isolate ZJ03, complete genome1180793044%0.099%KU820899.2Select seq gb|KU729217.2|Zika virus isolate BeH823339 polyprotein gene, complete cds1180790944%0.099%KU729217.2Select seq gb|KU744693.1|Zika virus isolate VE_Ganxian, complete genome1180780144%0.099%KU744693.1Select seq gb|KU321639.1|Zika virus strain ZikaSPH2015, complete genome1180792144%0.099%KU321639.1Select seq gb|KX087102.1|Zika virus strain ZIKV/Homo sapiens/COL/FLR/2015, complete genome1177790344%0.099%KX087102.1Select seq gb|KU926309.1|Zika virus isolate Rio-U1, complete genome1177795644%0.099%KU926309.1Select seq gb|KU820898.1|Zika virus isolate GZ01 polyprotein gene, complete cds1177740741%0.099%KU820898.1Select seq gb|KU740184.2|Zika virus isolate GD01 polyprotein gene, complete cds1177775544%0.099%KU740184.2Select seq gb|KU820897.1|Zika virus isolate FLR polyprotein gene, complete cds1177794844%0.099%KU820897.1Select seq gb|KU761564.1|Zika virus isolate GDZ16001 polyprotein gene, complete cds1177746942%0.099%KU761564.1Select seq gb|KU740199.1|Zika virus isolate VE_Ganxian2016 polyprotein gene, partial cds1177197411%0.099%KU740199.1Select seq gb|KU497555.1|Zika virus isolate Brazil-ZKV2015, complete genome1177795644%0.099%KU497555.1Select seq gb|KU365778.1|Zika virus strain BeH819015 polyprotein gene, complete cds1177790944%0.099%KU365778.1Select seq gb|KX056898.1|Zika virus isolate Zika virus/GZ02/2016 polyprotein gene, complete cds1171740241%0.099%KX056898.1Select seq gb|KU955590.1|Zika virus isolate Z16019 polyprotein gene, complete cds1171778444%0.099%KU955590.1Select seq gb|KU922960.1|Zika virus isolate MEX/InDRE/Sm/2016, complete genome1171789344%0.099%KU922960.1Select seq gb|KU922923.1|Zika virus isolate MEX/InDRE/Lm/2016, complete genome1171789344%0.099%KU922923.1Select seq gb|KU647676.1|Zika virus strain MRS_OPY_Martinique_PaRi_2015 polyprotein gene, complete cds1171789644%0.099%KU647676.1Select seq gb|KU681081.3|Zika virus isolate Zika virus/H.sapiens-tc/THA/2014/SV0127- 14, complete genome1153782444%0.099%KU681081.3Select seq gb|KF993678.1|Zika virus strain PLCal_ZV from Canada polyprotein gene, partial cds1135723641%0.098%KF993678.1Select seq gb|JN860885.1|Zika virus isolate FSS13025 polyprotein gene, partial cds1133718641%0.098%JN860885.1Select seq gb|KU955593.1|Zika virus isolate Zika virus/H.sapiens-tc/KHM/2010/FSS13025, complete genome1131768544%0.098%KU955593.1Select seq gb|KU940227.1|Zika virus isolate Bahia08, partial genome1130774343%0.097%KU940227.1Select seq gb|KU681082.3|Zika virus isolate Zika virus/H.sapiens-tc/PHL/2012/CPC-0740, complete genome1117753244%0.097%KU681082.3Select seq gb|EU545988.1|Zika virus polyprotein gene, complete cds1090712841%0.097%EU545988.1Select seq gb|HQ234499.1|Zika virus isolate P6-740 polyprotein gene, partial cds1072661841%0.096%HQ234499.1

LOCUS KX101063 10440 bp RNA linear VRL 26-APR-2016 DEFINITION Zika virus isolate Bahia05, partial genome. ACCESSION KX101063 VERSION KX101063.1 GI:1022831295 KEYWORDS . SOURCE Zika virus ORGANISM Zika virus Viruses; ssRNA viruses; ssRNA positive-strand viruses, no DNA stage; Flaviviridae; Flavivirus. REFERENCE 1 (bases 1 to 10440) AUTHORS Naccache,S.N., Theze,J., Sardi,S.I., Somasekar,S., Greninger,A.L., Bandeira,A.C., Campos,G.S., Tauro,L.B., Faria,N.R., Pybus,O.G. and Chiu,C.Y. TITLE Discovery of a persistent Zika virus lineage in Bahia, Brazil JOURNAL Unpublished REFERENCE 2 (bases 1 to 10440) AUTHORS Naccache,S.N., Somasekar,S., Sardi,S.I., Bandeira,A.C., Campos,G.S. and Chiu,C.Y. TITLE Direct Submission JOURNAL Submitted (22-APR-2016) Laboratory Medicine, University of California, San Francisco, 185 Berry Street, #0134, San Francisco, CA 94107, USA COMMENT ##Assembly-Data-START## Assembly Method :: SURP+ v. 1.0 2016; Geneious v. 6.1.8 Sequencing Technology :: Illumina ##Assembly-Data-END## FEATURES Location/Qualifiers source 1..10440 /organism="Zika virus" /mol_type="genomic RNA" /isolate="Bahia05" /isolation_source="serum" /host="Homo sapiens" /db_xref="taxon:64320" /country="Brazil" /collection_date="Dec-2015" CDS <1..>10103 /codon_start=1 /product="polyprotein" /protein_id="ANA85190.1" /db_xref="GI:1022831296" /translation="FLRFTAIKPSLGLINRWGSVGKKEAMEIIKXXXXXXXXXXXXXX XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX XXXXXXXXXXXXXXXTMSYECPMLDEGVEPDDVDCWCNTTSTWVVYGTCHHKKGEARR SXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX XXXXXXXXXXXXXXXXXXLKCRLKMDKLRLKGVSYSLCNAAFTFTKIPAETLHGTVTV EVQYXXXXXXXXXXAQMAVDMQTLTPVGRLITAXXXXXXXXXXXXXXXXXXXXXXXXX XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX XXXXXXXXXXXXXXXXXXXXQILIGTLLMWLGLNTKNGSISLMCLALGGVXXXXXXXX XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXRGPQRLPVPVNELPHG WKAWGKSYFVRAAKTNNSFVVDGDTLKXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXPWHSEELEIRFEECPGTKXXXX XXXXXXXXXXXXXXXXXXXXXXWCCRECTMPPLSFRAKDGCWYGMEXXXXKEPESNLV RSMVTAGSTDHMDHFSLGVLVILLMVQEGLKKRMTTKIIISTSMAVLVXXXXXXXXXX XXXXXXXXXXATFAEMNTGGDVAHLALIAAFKVRPALLVSFIFRANWTXXXXXXXXXX XXXXXXXXXXXXXXXXXLINGFALAWLAIRAMVVPRTDNITLAILAALTPLARGTLLM AWRAGLATCGGFMLLSLKGKGSVKKNLPFVMALGLTAVRLVDPINVVGLLLLTRSGKR SWPPSEVLTAVGLICALAGGFAKADIEMAGPMAAVGLLIVSYVVSGKSVDMYIERAGD ITWEKDAEVTGNSPRLDVALDESGDFSLVEDDGPPMREIILKVVLMTICGMNPIAIPF AAGAWXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXVGVMQEG VFHTMWHVTKGSALRSGEGRLDPYWGDVKQDLVSYCGPWKLDAAWDGHSEVQLXXXXX XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX XXXXXXXXXXXXXXXXXXXXXXMLKKKQLTVLDLHPGAGKTXXXXXXXVREAIKTRLR TVILAPTRVVAAEMEEALRGLPVRYMTTAVNVTHSGTEIVDLMCHATFTSRLLQPIRV PNYNLYIXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX XXXXXXXXXXXXXXXXXXXXXXXXXVWFVPSVRNGNEIAACLTKAGXXXXXXXXXXXX XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX XXXXXXXXXXXXXXXXXXXXXXXXXXXXXTDEDHAHWLEARMLLDNIYLQDGLIASLY RPEADKVAAIEGXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXGITYTDRRWCFDGT TNNTIMEDSVPAEVWTRHGEKRVLKPRWMDARVCSDXXXXXXXXXXXXXXXXXXXXXX XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX XXXXXXXXXNKGIGKMGFGMVTLGASAWLMWLSEIEPARIACVLIVVFLLLVVLIPEP EKQRSPQDXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX XXXXXXXXXXXXXXXXTFITPAVQHAVTTSYNNYSLMAMATQAGVLFGMGKGMPFYAW DFGVPLLMIGCYSQLTPLTLIXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXGEAGALITAATST LWEGSPNKYWNSSTATSLCNIFRGSYLAGASLIYTVTRNAGLVKRRGGGTGETLGEKW KXXXXXXXXXXXXXXXXXXXXXVCREEARRALKDGVATGGHAVSRGSAKLRWLVERGY LQPHGKVIDLGCGRGGWSYYAATIRKVQEVKGXXXXXXXXXXXXXXXXXXXXXXXXXX XXXXXXXXXXXXXXXXCDIGESSSSPEVEEARTLRVXXXXXXXXXXXXXXXXXXXXXX XXXXXXXXXXXXXXXXXXXXXXXPLSRNSTHEMYWVSGAKSNTIKSVSTXXXXXXXXX XXXXXXXXXXXXXXXXXXXXXVVSCAEAPNMKIIGNRIERIRSEHAETWFFDENHPYR TXXXXXSYEAPTQGSASSLVNGVVRLLSKPWDVVTGVTGIAMTDTTPYGXXXXXXXXX XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX XXXXXXXAVNDPRFWALVDKEREHHLRGECQSCVYNMMGKREKKQGEFGKAKGXXXXX XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXRMYAD DTAGWDTRISXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXTQEWKPSTGWDNWEEV PFCSHHFNKLHLKDGRSIVXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXIHGKGEWMTTEDMLVVWNRVWIEEND HMEDKTPVTKWTDIPYLGKREDLWCGSLIGHRPRTTWAXXXXXXXXXXXXIIGDEEKY MDYLSTQVRYLGEEGSTP" mat_peptide 1..219 /product="capsid peptide" mat_peptide 220..489 /product="propeptide" mat_peptide 490..714 /product="membane protein peptide" mat_peptide 715..2229 /product="envelope protein peptide" mat_peptide 2230..3315 /product="NS1 peptide" mat_peptide 3316..3969 /product="NS2A peptide" mat_peptide 3970..4401 /product="NS2B peptide" mat_peptide 4402..6210 /product="NS3 peptide" mat_peptide 6211..6651 /product="NS4A peptide" mat_peptide 6652..8157 /product="NS4B peptide" mat_peptide 8158..10103 /product="NS5 peptide" gap 93..351 /estimated_length=259 gap 486..1577 /estimated_length=1092 gap 1798..2104 /estimated_length=307 gap 2197..2518 /estimated_length=322 gap 2651..3024 /estimated_length=374 gap 4326..4459 /estimated_length=134 gap 4642..4894 /estimated_length=253 gap 5202..5426 /estimated_length=225 gap 5493..5785 /estimated_length=293 gap 6157..6422 /estimated_length=266 gap 6595..6792 /estimated_length=198 gap 6983..7227 /estimated_length=245 gap 7711..7835 /estimated_length=125 gap 7896..8031 /estimated_length=136 gap 8458..8679 /estimated_length=222 gap 8817..8991 /estimated_length=175 gap 9039..9478 /estimated_length=440 gap 9585..9798 /estimated_length=214 3'UTR <10131..10440 ORIGIN 1 tttttgagat tcacggcaat caagccatca ctgggtctca tcaatagatg gggttcagtg 61 gggaaaaaag aggctatgga aataataaag aa [gap 259 bp] Expand Ns 352 accatgagc 361 tatgaatgcc ctatgctgga tgagggggtg gaaccagatg acgtcgattg ttggtgcaac 421 acgacgtcaa cttgggttgt gtacggaacc tgccatcaca aaaaaggtga agcacggaga 481 tctag [gap 1092 bp] Expand Ns 1578 ctt gaaatgtcgc ctgaaaatgg ataaacttag attgaagggc 1621 gtgtcatact ccttgtgtaa cgcagcgttc acattcacca agatcccggc tgaaacactg 1681 cacgggacag tcacagtgga ggtacagtac nnnnnnnnnn nnnnnnnnnn nnnnnnnnca 1741 gctcagatgg cggtggacat gcaaactctg accccagttg ggaggttgat aaccgct [gap 307 bp] Expand Ns 2105 cacaaa ttctcattgg aacgttgctg atgtggttgg gtctgaacac aaagaatgga 2161 tctatttccc ttatgtgctt ggccttaggg ggagtg [gap 322 bp] Expand Ns 2519 gg 2521 agaggtccac agagattgcc cgtgcctgtg aacgagctgc cccacggctg gaaggcttgg 2581 gggaaatcgt acttcgtcag agcagcaaag acaaataaca gctttgtcgt ggatggtgac 2641 acactgaagg [gap 374 bp] Expand Ns 3025 ccatgg cacagtgaag agcttgaaat tcggtttgag 3061 gaatgcccag gcactaaggn nnnnnnnnnn nnnnnnnnnn nnnnnnnnnn nnnnnnnnnn 3121 nnnnnnnnnn nnnnnnnnnn nnnnnnnnnn nnnnnatggt gctgcaggga gtgcacaatg 3181 cccccactgt cgttccgggc taaagatggc tgttggtatg gaatggagan nnnnnnnngg 3241 aaagaaccag aaagcaactt agtaaggtca atggtgactg caggatcaac tgatcacatg 3301 gatcacttct cccttggagt gcttgtgatt ctgctcatgg tgcaggaagg gctgaagaag 3361 agaatgacca caaagatcat cataagcaca tcaatggcag tgctggtann nnnnnnnnnn 3421 nnnnnnnnnn nnnnnnnnnn nnnnnnnnnn nnnnnnnnnn nnnnnngtgc caccttcgcg 3481 gaaatgaaca ctggaggaga tgtagctcat ctggcgctga tagcggcatt caaagtcaga 3541 ccagcgttgc tggtatcttt catcttcaga gctaattgga cnnnnnnnnn nnnnnnnnnn 3601 nnnnnnnnnn nnnnnnnnnn nnnnnnnnnn nnnnnnnnnn nnnnnnnnnn nnnnnnnnnn 3661 nnnctcatca atggttttgc tttggcctgg ttggcaatac gagcgatggt tgttccacgc 3721 actgataaca tcaccttggc aatcttggct gctctgacac cactggcccg gggcacactg 3781 cttatggcgt ggagagcagg ccttgctact tgcggggggt ttatgctcct ctctctgaag 3841 ggaaaaggca gtgtgaagaa gaacttacca tttgtcatgg ccctgggact aaccgctgtg 3901 aggctggtcg accccatcaa cgtggtggga ctgctgttgc tcacaaggag tgggaagcgg 3961 agctggcccc ctagcgaagt actcacagct gttggcctga tatgcgcatt ggctggaggg 4021 ttcgccaagg cagatataga gatggctggg cccatggccg cggtcggtct gctaattgtc 4081 agttacgtgg tctcaggaaa gagtgtggac atgtacattg aaagagcagg tgacatcaca 4141 tgggaaaaag atgcggaagt cactggaaac agtccccggc tcgatgtggc gctagatgag 4201 agtggtgatt tctccctggt ggaggatgac ggtcccccca tgagagagat catactcaag 4261 gtggtcctga tgaccatctg tggcatgaac ccaatagcca taccctttgc agctggagcg 4321 tggta [gap 134 bp] Expand Ns 4460 g agtgggagtt atgcaagagg gggtctttca cactatgtgg 4501 cacgtcacaa aaggatccgc gctgagaagc ggtgaaggga gacttgatcc atactgggga 4561 gatgtcaagc aggatctggt gtcatactgt ggtccatgga agctagatgc cgcctgggac 4621 gggcacagcg aggtgcagct c [gap 253 bp] Expand Ns 4895 cgatgc tgaagaagaa gcagctaact 4921 gtcttagact tgcatcctgg agctgggaaa accnnnnnnn nnnnnnnnnn nntagtccgt 4981 gaagccataa aaacaagact ccgtactgtg atcttagctc caaccagggt tgtcgctgct 5041 gaaatggagg aagcccttag agggcttcca gtgcgttata tgacaacagc agtcaatgtc 5101 acccactctg gaacagaaat cgtcgactta atgtgccatg ccaccttcac ttcacgtcta 5161 ctacagccaa tcagagtccc caattataat ctgtatatta t [gap 225 bp] Expand Ns 5427 agtt tggtttgttc caagcgtgag gaacggcaat 5461 gagatcgcag cttgtctgac aaaggctgga aa [gap 293 bp] Expand Ns 5786 agact gacgaagacc atgcacactg gcttgaagca 5821 agaatgctcc ttgacaatat ttacctccaa gatggcctca tagcctcgct ctatcgacct 5881 gaggccgaca aagtagcagc cattgagggn nnnnnnnnnn nnnnnnnnnn nnnnnnnnnn 5941 nnnnnnnnnn nnnnnnnnnn nnnnnnnnnn nnnnnnnnnn nnnnnnnnnn nnnnnnnnnn 6001 nnnnnnggaa taacctacac agatagaaga tggtgctttg atggcacgac caacaacacc 6061 ataatggaag acagtgtgcc ggcagaggtg tggaccagac acggagagaa aagagtgctc 6121 aaaccgaggt ggatggatgc cagagtttgt tcagat [gap 266 bp] Expand Ns 6423 gaacaagg gcatagggaa gatgggcttt ggaatggtga ctcttggggc cagcgcatgg 6481 ctcatgtggc tctcggaaat tgagccagcc agaattgcat gtgtcctcat tgttgtgttc 6541 ctattgctgg tggtgctcat acctgagcca gaaaagcaaa gatctcccca ggac [gap 198 bp] Expand Ns 6793 actttcat taccccagcc gtccaacatg cagtgaccac ttcatacaac 6841 aactactcct taatggcgat ggccacgcaa gctggagtgt tgtttggtat gggcaaaggg 6901 atgccattct acgcatggga ctttggagtc ccgctgctaa tgataggttg ctactcacaa 6961 ttaacacccc tgaccctaat ag [gap 245 bp] Expand Ns 7228 ggg gaggctgggg ctctgatcac agccgcaact 7261 tccactttgt gggaaggctc tccgaacaag tactggaact cctctacagc cacttcactg 7321 tgtaacattt ttaggggaag ttacttggct ggagcttctc taatctacac agtaacaaga 7381 aacgctggct tggtcaagag acgtgggggt ggaacaggag agaccctggg agagaaatgg 7441 aaggnnnnnn nnnnnnnnnn nnnnnnnnnn nnnnnnnnnn nnnnnnnnnn nnnnnnnnnn 7501 nnnnnggtgt gcagagaaga ggcccgccgc gccctcaagg acggtgtggc aacgggaggc 7561 catgctgtgt cccgaggaag tgcaaagctg agatggttgg tggagcgggg atacctgcag 7621 ccccatggaa aggtcattga tcttggatgt ggcagagggg gctggagtta ctacgccgcc 7681 accatccgca aagttcaaga agtgaaagga [gap 125 bp] Expand Ns 7836 gtgtg acataggtga gtcatcatct 7861 agtcctgaag tggaagaagc acggacgctc agagt [gap 136 bp] Expand Ns 8032 ccactctcc 8041 cgcaactcta cacatgagat gtactgggtc tctggagcga aaagcaacac cataaaaagt 8101 gtgtccaccn nnnnnnnnnn nnnnnnnnnn nnnnnnnnnn nnnnnnnnnn nnnnnnnnnn 8161 nnnnnnnnnn nnnnnnnnnn nnnnnnnnnn nnnnnnnnng tggtaagctg cgctgaagct 8221 cccaacatga agatcattgg taaccgcatt gaaaggatcc gcagtgagca cgcggaaacg 8281 tggttctttg acgagaacca cccatatagg acnnnnnnnn nnnnnngaag ctatgaggcc 8341 cccacacaag ggtcagcgtc ctctctagta aacggggttg tcaggctcct gtcaaaaccc 8401 tgggatgtgg tgactggagt cacaggaata gccatgaccg acaccacacc gtatggt [gap 222 bp] Expand Ns 8680 g ctgtgaacga tccaaggttc 8701 tgggctctag tggacaagga aagagagcac cacctgagag gagagtgcca gagttgtgtg 8761 tacaacatga tgggaaaaag agaaaagaaa caaggggaat ttggaaaggc caaggg [gap 175 bp] Expand Ns 8992 aggatgtat 9001 gcagatgaca ctgctggctg ggacacccgc atcagcag [gap 440 bp] Expand Ns 9479 ac 9481 acacaagagt ggaaaccctc aactggatgg gacaactggg aagaagttcc gttttgctcc 9541 caccacttca acaagctcca tctcaaggac gggaggtcca ttgt [gap 214 bp] Expand Ns 9799 at ccatggaaag ggagaatgga tgaccactga agacatgctt 9841 gtggtgtgga acagagtgtg gattgaggag aacgaccaca tggaagacaa gaccccagtt 9901 acgaaatgga cagacattcc ctatttggga aaaagggaag acttgtggtg tggatctctc 9961 atagggcaca gaccgcgcac cacctgggcn nnnnnnnnnn nnnnnnnnnn nnnnnnnnnn 10021 nnnnggatca taggtgatga agaaaagtac atggactacc tatccaccca agttcgctac 10081 ttgggtgaag aagggtctac accnnnnnnn nnnnnnnnnn nnnnnnnnnn gttgtcaggc 10141 ctgctagtca gccacagctt ggggaaagct gtgcagcctg tgaccccccc aggagaagct 10201 gggaaaccaa gcctatagtc aggccgagaa cgccatggca cggaagaagc catgctgcct 10261 gtgagcccct cagaggacac tgagtcaaaa aaccccacgc gcttggaggc gcaggatggg 10321 aaaagaaggt ggcgaccttc cccacccttc aatctggggc ctgaactgga gatcagctgt 10381 ggatctccag aagagggact agtggttaga ggagaccccc cggaaaacgc aaaacagcat

Bahia04 Sequence Map Update https://www.google.com/maps/d/u/1/edit?mid=1XSxKe6FIecV8f33cQwyc7uylxeU&hl=en

Sequences producing significant alignments:Select:AllNone Selected:0 AlignmentsDownloadGenBankGraphicsDistance 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|KX101062.1|Zika virus isolate Bahia04, partial genome1063785944%0.0100%KX101062.1Select seq gb|KU940228.1|Zika virus isolate Bahia07, partial genome1063780344%0.098%KU940228.1Select seq gb|KU940224.1|Zika virus isolate Bahia09, partial genome1063780344%0.098%KU940224.1Select seq gb|KX051563.1|Zika virus isolate Haiti/1/2016, complete genome1054775944%0.097%KX051563.1Select seq gb|KU509998.3|Zika virus strain Haiti/1225/2014, complete genome1054777944%0.097%KU509998.3Select seq gb|KU926310.1|Zika virus isolate Rio-S1, complete genome1054773244%0.097%KU926310.1Select seq gb|KU853013.1|Zika virus isolate Dominican Republic/2016/PD2, complete genome1054762444%0.097%KU853013.1Select seq gb|KU853012.1|Zika virus isolate Dominican Republic/2016/PD1, complete genome1054761944%0.097%KU853012.1Select seq gb|KU527068.1|Zika virus strain Natal RGN, complete genome1054775244%0.097%KU527068.1Select seq gb|KU647676.1|Zika virus strain MRS_OPY_Martinique_PaRi_2015 polyprotein gene, complete cds1054768744%0.097%KU647676.1Select seq gb|KU501217.1|Zika virus strain 8375 polyprotein gene, complete cds1054734141%0.097%KU501217.1Select seq gb|KU501216.1|Zika virus strain 103344 polyprotein gene, complete cds1054734141%0.097%KU501216.1Select seq gb|KU312312.1|Zika virus isolate Z1106033 polyprotein gene, complete cds1054735041%0.097%KU312312.1Select seq gb|KJ776791.1|Zika virus strain H/PF/2013 polyprotein gene, complete cds1054772944%0.097%KJ776791.1Select seq gb|KX117076.1|Zika virus isolate Zhejiang04, complete genome1049773844%0.097%KX117076.1Select seq gb|KX087102.1|Zika virus strain ZIKV/Homo sapiens/COL/FLR/2015, complete genome1049768444%0.097%KX087102.1Select seq gb|KX056898.1|Zika virus isolate Zika virus/GZ02/2016 polyprotein gene, complete cds1049730741%0.097%KX056898.1Select seq gb|KU963796.1|Zika virus isolate SZ-WIV01 polyprotein gene, complete cds1049773244%0.097%KU963796.1Select seq gb|KU991811.1|Zika virus isolate Brazil/2016/INMI1 polyprotein gene, complete cds1049772544%0.097%KU991811.1Select seq gb|KU955590.1|Zika virus isolate Z16019 polyprotein gene, complete cds1049759944%0.097%KU955590.1Select seq gb|KU870645.1|Zika virus isolate FB-GWUH-2016, complete genome1049773244%0.097%KU870645.1Select seq gb|KU926309.1|Zika virus isolate Rio-U1, complete genome1049774344%0.097%KU926309.1Select seq gb|KU922960.1|Zika virus isolate MEX/InDRE/Sm/2016, complete genome1049768244%0.097%KU922960.1Select seq gb|KU922923.1|Zika virus isolate MEX/InDRE/Lm/2016, complete genome1049768244%0.097%KU922923.1Select seq gb|KU866423.1|Zika virus isolate Zika virus/SZ01/2016 polyprotein gene, complete cds1049724741%0.097%KU866423.1Select seq gb|KU820898.1|Zika virus isolate GZ01 polyprotein gene, complete cds1049731041%0.097%KU820898.1Select seq gb|KU740184.2|Zika virus isolate GD01 polyprotein gene, complete cds1049757443%0.097%KU740184.2Select seq gb|KU820899.2|Zika virus isolate ZJ03, complete genome1049772744%0.097%KU820899.2Select seq gb|KU820897.1|Zika virus isolate FLR polyprotein gene, complete cds1049772944%0.097%KU820897.1Select seq gb|KU729218.1|Zika virus isolate BeH828305 polyprotein gene, complete cds1049776344%0.097%KU729218.1Select seq gb|KU761564.1|Zika virus isolate GDZ16001 polyprotein gene, complete cds1049737341%0.097%KU761564.1Select seq gb|KU707826.1|Zika virus isolate SSABR1, complete genome1049772144%0.097%KU707826.1Select seq gb|KU365780.1|Zika virus strain BeH815744 polyprotein gene, complete cds1049770544%0.097%KU365780.1Select seq gb|KU365779.1|Zika virus strain BeH819966 polyprotein gene, complete cds1049771444%0.097%KU365779.1Select seq gb|KU365778.1|Zika virus strain BeH819015 polyprotein gene, complete cds1049772744%0.097%KU365778.1Select seq gb|KU365777.1|Zika virus strain BeH818995 polyprotein gene, complete cds1049770544%0.097%KU365777.1Select seq gb|KU321639.1|Zika virus strain ZikaSPH2015, complete genome1049772344%0.097%KU321639.1Select seq gb|KX087101.1|Zika virus strain ZIKV/Homo sapiens/PRI/PRVABC59/2015, complete genome1045774944%0.097%KX087101.1Select seq gb|KU955589.1|Zika virus isolate Z16006 polyprotein gene, complete cds1045761344%0.097%KU955589.1Select seq gb|KU729217.2|Zika virus isolate BeH823339 polyprotein gene, complete cds1045769844%0.097%KU729217.2Select seq gb|KU501215.1|Zika virus strain PRVABC59, complete genome1045770044%0.097%KU501215.1Select seq gb|KU497555.1|Zika virus isolate Brazil-ZKV2015, complete genome1040773444%0.097%KU497555.1Select seq gb|KU681081.3|Zika virus isolate Zika virus/H.sapiens-tc/THA/2014/SV0127- 14, complete genome1036761544%0.097%KU681081.3Select seq gb|KF993678.1|Zika virus strain PLCal_ZV from Canada polyprotein gene, partial cds1036713441%0.097%KF993678.1Select seq gb|KX101060.1|Zika virus isolate Bahia02, partial genome1032621534%0.096%KX101060.1Select seq gb|KU955593.1|Zika virus isolate Zika virus/H.sapiens-tc/KHM/2010/FSS13025, complete genome1031747444%0.097%KU955593.1Select seq gb|JN860885.1|Zika virus isolate FSS13025 polyprotein gene, partial cds1031706941%0.097%JN860885.1Select seq gb|EU545988.1|Zika virus polyprotein gene, complete cds1031702041%0.097%EU545988.1Select seq gb|KU681082.3|Zika virus isolate Zika virus/H.sapiens-tc/PHL/2012/CPC-0740, complete genome1012734344%0.096%KU681082.3Select seq gb|KU744693.1|Zika virus isolate VE_Ganxian, complete genome1012763944%0.096%KU744693.1Select seq gb|KT200609.1|Zika virus isolate BR/949/15 NS5 gene, partial cds9809805%0.096%KT200609.1Select seq gb|KU940227.1|Zika virus isolate Bahia08, partial genome940748842%0.092%KU940227.1Select seq gb|HQ234499.1|Zika virus isolate P6-740 polyprotein gene, partial cds904653141%0.092%HQ234499.1Select seq gb|KX101064.1|Zika virus isolate Bahia11, partial genome886710842%0.092%KX101064.1Select seq gb|KX101061.1|Zika virus isolate Bahia03, partial genome886615836%0.092%KX101061.1Select seq gb|KX101066.1|Zika virus isolate Bahia01, partial genome872608635%0.092%KX101066.1Select seq gb|KU740199.1|Zika virus isolate VE_Ganxian2016 polyprotein gene, partial cds82012697%0.096%KU740199.1

LOCUS KX101062 10323 bp RNA linear VRL 26-APR-2016 DEFINITION Zika virus isolate Bahia04, partial genome. ACCESSION KX101062 VERSION KX101062.1 GI:1022831293 KEYWORDS . SOURCE Zika virus ORGANISM Zika virus Viruses; ssRNA viruses; ssRNA positive-strand viruses, no DNA stage; Flaviviridae; Flavivirus. REFERENCE 1 (bases 1 to 10323) AUTHORS Naccache,S.N., Theze,J., Sardi,S.I., Somasekar,S., Greninger,A.L., Bandeira,A.C., Campos,G.S., Tauro,L.B., Faria,N.R., Pybus,O.G. and Chiu,C.Y. TITLE Discovery of a persistent Zika virus lineage in Bahia, Brazil JOURNAL Unpublished REFERENCE 2 (bases 1 to 10323) AUTHORS Naccache,S.N., Somasekar,S., Sardi,S.I., Bandeira,A.C., Campos,G.S. and Chiu,C.Y. TITLE Direct Submission JOURNAL Submitted (22-APR-2016) Laboratory Medicine, University of California, San Francisco, 185 Berry Street, #0134, San Francisco, CA 94107, USA COMMENT ##Assembly-Data-START## Assembly Method :: SURP+ v. 1.0 2016; Geneious v. 6.1.8 Sequencing Technology :: Illumina ##Assembly-Data-END## FEATURES Location/Qualifiers source 1..10323 /organism="Zika virus" /mol_type="genomic RNA" /isolate="Bahia04" /isolation_source="serum" /host="Homo sapiens" /db_xref="taxon:64320" /country="Brazil" /collection_date="Jun-2015" CDS 1..9999 /codon_start=1 /product="polyprotein" /protein_id="ANA85189.1" /db_xref="GI:1022831294" /translation="MRIINARKEKKRRGADTSVGIVGLLLTTAMAAEVTRRGXXXXXX XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXTMSYECPMLDEGVEPDDVDCWCNT TSTWVVYGTCHHKKGEARRSRRAVTLPSHSNXXXXXXXXXXXXXXXXXXXXXXXXXXX XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXIQPENL EYRIMLSVHGSQHSGXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXAQMAVDMQTLTPVGRLITANPVITE STXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXSQILIGTLLMWLGLNTKNGS ISLMCLALGGVXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXEGELNAILEENGVQLTVVVGSVKN PMWRGPQRLPVPVNELPHGWKAWGKSYFVRAAKTNNSFVVDGDTLKXXXXXXXXXXXX XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXNDTWR LKRAHLIEMKTCEWPKSHTLWTXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXWCCRECTMPPLSFRAKD GCWYGMEXXXXKEPESNLVRSMVTAGLTDHMDHFSLGVLVILLMVQEGLKKRMTTKII ISTSMAVLVAMILGGFSMSDLAKLAILMGATFAEMNTGGDVAHLALIAAFKVRPALLV SFIFRANWTXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXAWLAIRAMVVPRTDN ITLAILAALTXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXALAGGFAKADIXMAGPMAAVGLLI VSYVVSGKSVDMYIERAGDITWEKDAEVTGNSPRLDVALDESGDFSXXXXXXXPMREI ILKVVLMTICGMNPIAIPFAAGAWYVYVKTGKRSGALWDVPAPKEVKKGETTDGVYRV MTRRLLGSTQVGVGVMQEGVFHTMWXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX XXXXXXXXXXXXXXXXXXXTVILAPTRVVAAEMEEALRGLPVRYMTTAVNVTHSGTEI VDLMCHATFTSRLLQPIRVPNYNXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX XXXXXXGKRVIQLSRKTFETEFQKTKHQEWDXXXXXXXXXXXXXXXXXXXXXXXXXXX XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXTDEDHAHWLE ARMLLDNIYLQDGLIASLYRPEADKVAAIEGXXXXXXXXXXXXXXXXXXXXXXXXXXX XXXXXXXXXXDRRWCFDGTTNNTIMEDSVPAEVWTRHGEKRVLKPRWMDARVCSDXXX XXXXXXXXXXXXXXALGVMEALGTLPGHMTERFQEAIDNLAVLMRAETGSRPYKAAAA QMPETLETIMLLGLLGTVSLGIFFVLMRNKGIGKMGFGMVTLGASAWLMWLSEIEPAR IACVLIVXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXTFITPAVQHAVTTSYNNYSLMAM ATQAGVLFGMGKGMPFYAWDFGVPLLMIGCYSQLTPLTLIXXXXXXXXXXXXXXXXXX XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX XXXXXXGEAGALITAATSTLWEGSPNKYWNSSXXXXXXXXXXXXXXXXXXXXXXXXXX XXXXXXXXGGTGETLGEKWKARLNQMSALEFYSYKKSGITEVCREEARRALKDGVATG GHAVSRGSAKLRWLVERGYLQPHGKVIDLGCGRGXXXXXXXXXXXXXXXXXXXXXXXX XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX XXXXXXXXXXXXXXXXXXXXXXTMMETLERLQRRYGGGLVRVPLSRNSTHEMYXXXXX XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXVVSCAEAPNMKIIGNRIE RIRSEHAETWFFDENHPYRTXXXXXSYEAPTQGSASSLVNGVVRLLSKPWDVVTGVTG IAMTDTTPYGQQRVFKEKVDTRVPDPQEGTRQVMSMVSSWLWKELGKHKRPRVCTKEE FINKVRSNAALGAIFEEEKEWKTAVEAVNDPRFWALVDKEREHHLRGECQSCVYNMMG KREKKQGEFGKAKGXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX XXXXXXXXXXXXXXXXXXLLYFHRRDLRLMANAICSSVPVDWVPTGRTTXXXXXXXXX XXXXXXXXXXXXXWIEENDHMEDKTPVTKWTDIPYLGKREDLWCGSLIGHRPRTTWAE NIKNTVNMVRRIIGDEEKYMDYLSTQVRYLGEEGSTPGVL" mat_peptide 1..102 /product="capsid peptide" mat_peptide 103..372 /product="propeptide" mat_peptide 373..597 /product="membane protein peptide" mat_peptide 598..2112 /product="envelope protein peptide" mat_peptide 2113..3198 /product="NS1 peptide" mat_peptide 3199..3852 /product="NS2A peptide" mat_peptide 3853..4284 /product="NS2B peptide" mat_peptide 4285..6093 /product="NS3 peptide" mat_peptide 6094..6534 /product="NS4A peptide" mat_peptide 6535..8040 /product="NS4B peptide" mat_peptide 8041..9996 /product="NS5 peptide" gap 117..234 /estimated_length=118 gap 401..983 /estimated_length=583 gap 1048..1621 /estimated_length=574 gap 1704..1986 /estimated_length=283 gap 2080..2320 /estimated_length=241 gap 2534..2726 /estimated_length=193 gap 2809..3038 /estimated_length=230 gap 3465..3566 /estimated_length=102 gap 3644..3886 /estimated_length=243 gap 4385..4885 /estimated_length=501 gap 5075..5370 /estimated_length=296 gap 5446..5668 /estimated_length=223 gap 5793..5904 /estimated_length=112 gap 6417..6675 /estimated_length=259 gap 6866..7110 /estimated_length=245 gap 7188..7290 /estimated_length=103 gap 7543..7852 /estimated_length=310 gap 7948..8082 /estimated_length=135 gap 8700..9582 /estimated_length=883 3'UTR 10000..10323 ORIGIN 1 ctgagaataa tcaatgctag gaaggagaag aagagacgag gcgcagatac tagtgtcgga 61 attgttggcc tcctgctgac cacagctatg gcagcggagg tcactagacg tgggag [gap 118 bp] Expand Ns 235 accatg 241 agctatgaat gccctatgct ggatgagggg gtggaaccag atgacgtcga ttgttggtgc 301 aacacgacgt caacttgggt tgtgtacgga acctgccatc acaaaaaagg tgaagcacgg 361 agatctagaa gagctgtgac gctcccctcc cattccaacc [gap 583 bp] Expand Ns 984 catccag ccagagaatc tggagtaccg gataatgctg 1021 tcagttcatg gctcccagca cagtggg [gap 574 bp] Expand Ns 1622 cagctcaga tggcggtgga catgcaaact ctgaccccag ttgggaggtt gataaccgct 1681 aaccccgtaa tcactgaaag cac [gap 283 bp] Expand Ns 1987 tcac aaattctcat tggaacgttg ctgatgtggt tgggtctgaa cacaaagaat 2041 ggatctattt cccttatgtg cttggcctta gggggagtg [gap 241 bp] Expand Ns 2321 tagaagggga gctcaacgca 2341 atcctggaag agaatggagt tcaactgacg gtcgttgtgg gatctgtaaa aaaccccatg 2401 tggagaggtc cacagagatt gcccgtgcct gtgaacgagc tgccccacgg ctggaaggct 2461 tgggggaaat cgtacttcgt cagagcagca aagacaaata acagctttgt cgtggatggt 2521 gacacactga agg [gap 193 bp] Expand Ns 2727 gaat gacacatgga ggctgaagag ggcccatctg 2761 atcgagatga aaacatgtga atggccaaag tcccacacat tgtggaca [gap 230 bp] Expand Ns 3039 at ggtgctgcag ggagtgcaca 3061 atgcccccac tgtcgttccg ggctaaagat ggctgttggt atggaatgga gannnnnnnn 3121 nggaaagaac cagaaagcaa cttagtaagg tcaatggtga ctgcaggatt aactgatcac 3181 atggatcact tctcccttgg agtgcttgtg attctgctca tggtgcagga agggctgaag 3241 aagagaatga ccacaaagat catcataagc acatcaatgg cagtgctggt agctatgatc 3301 ctgggaggat tttcaatgag tgacctggct aagcttgcaa ttttgatggg tgccaccttc 3361 gcggaaatga acactggagg agatgtagct catctggcgc tgatagcggc attcaaagtc 3421 agaccagcgt tgctggtatc tttcatcttc agagctaatt ggac [gap 102 bp] Expand Ns 3567 ggcc tggttggcaa tacgagcgat ggttgttcca 3601 cgcactgata acatcacctt ggcaatcttg gctgctctga cac [gap 243 bp] Expand Ns 3887 gcgc attggctgga 3901 gggttcgcca aggcagatat agrgatggct gggcccatgg ccgcggtcgg tctgctaatt 3961 gtcagttacg tggtctcagg aaagagtgtg gacatgtaca ttgaaagagc aggtgacatc 4021 acatgggaaa aagatgcgga agtcactgga aacagtcccc ggctcgatgt ggcgctagat 4081 gagagtggtg atttctccnn nnnnnnnnnn nnnnnnnncc ccatgagaga gatcatactc 4141 aaggtggtcc tgatgaccat ctgtggcatg aacccaatag ccataccctt tgcagctgga 4201 gcgtggtacg tatacgtgaa gactggaaaa aggagtggtg ctctatggga tgtgcctgct 4261 cccaaggaag taaaaaaggg ggagaccaca gatggagtgt acagagtaat gactcgtaga 4321 ctgctaggtt caacacaagt tggagtggga gttatgcaag agggggtctt tcacactatg 4381 tggc [gap 501 bp] Expand Ns 4886 gtact gtgatcttag ctccaaccag ggttgtcgct 4921 gctgaaatgg aggaagccct tagagggctt ccagtgcgtt atatgacaac agcagtcaat 4981 gtcacccact ctggaacaga aatcgtcgac ttaatgtgcc atgccacctt cacttcacgt 5041 ctactacagc caatcagagt ccccaattat aatc [gap 296 bp] Expand Ns 5371 ggaaaacggg tcatacagct cagcagaaag 5401 acttttgaga cagagttcca gaaaacaaaa catcaagagt gggac [gap 223 bp] Expand Ns 5669 ag actgacgaag accatgcaca ctggcttgaa 5701 gcaagaatgc tccttgacaa tatttacctc caagatggcc tcatagcctc gctctatcga 5761 cctgaggccg acaaagtagc agccattgag gg [gap 112 bp] Expand Ns 5905 gataga agatggtgct ttgatggcac gaccaacaac 5941 accataatgg aagacagtgt gccggcagag gtgtggacca gacacggaga gaaaagagtg 6001 ctcaaaccga ggtggatgga tgccagagtt tgttcagatn nnnnnnnnnn nnnnnnnnnn 6061 nnnnnnnnnn nnnnnnnnnn nnnnnnnnng gctcttggag tgatggaagc cctgggaaca 6121 ctgccaggac acatgacaga gagattccag gaagccattg acaacctcgc tgtgctcatg 6181 cgggcagaga ctggaagcag gccttacaaa gccgcggcgg cccaaatgcc ggagacccta 6241 gagaccatta tgcttttggg gttgctagga acagtctcgc tgggaatctt tttcgtcttg 6301 atgaggaaca agggcatagg gaagatgggc tttggaatgg tgactcttgg ggccagcgca 6361 tggctcatgt ggctctcgga aattgagcca gccagaattg catgtgtcct cattgt [gap 259 bp] Expand Ns 6676 acttt cattacccca gccgtccaac atgcagtgac macttcatac 6721 aacaactact ccttaatggc gatggccacg caagctggag tgttgtttgg tatgggcaaa 6781 gggatgccat tctacgcatg ggactttgga gtcccgctgc taatgatagg ttgctactca 6841 caattaacac ccctgaccct aatag [gap 245 bp] Expand Ns 7111 ggggaggctg gggctctgat cacagccgca 7141 acttccactt tgtgggaagg ctctccgaac aagtactgga actcctc [gap 103 bp] Expand Ns 7291 ggtggaacag gagagaccct gggagagaaa 7321 tggaaggccc gcttgaacca gatgtcggcc ctggagttct actcctacaa aaagtcaggc 7381 atcaccgagg tgtgcagaga agaggcccgc cgcgccctca aggacggtgt ggcaacggga 7441 ggccatgctg tgtcccgagg aagtgcaaag ctgagatggt tggtggagcg gggatacctg 7501 cagccccatg gaaaggtcat tgatcttgga tgtggcagag gg [gap 310 bp] Expand Ns 7853 gcactatg 7861 atggaaaccc tggagcgact gcagcgtagg tatgggggag gactggtcag agtgccactc 7921 tcccgcaact ctacacatga gatgtac [gap 135 bp] Expand Ns 8083 gtggtaag ctgcgctgaa 8101 gctcccaaca tgaagatcat tggtaaccgc attgaaagga tccgcagtga gcacgcggaa 8161 acgtggttct ttgacgagaa ccacccatat aggacnnnnn nnnnnnnnng aagctatgag 8221 gcccccacac aagggtcagc gtcctctcta gtaaacgggg ttgtcaggct cctgtcaaaa 8281 ccctgggatg tggtgactgg agtcacagga atagccatga ccgacaccac accgtatggt 8341 cagcaaagag ttttcaagga aaaagtggac actagggtgc cagaccccca agaaggcact 8401 cgtcaggtta tgagcatggt ctcttcctgg ttgtggaaag agctaggcaa acacaaacgg 8461 ccacgagtct gtaccaaaga agagttcatc aacaaggttc gtagcaatgc agcactaggg 8521 gcaatatttg aagaggaaaa agagtggaag actgcagtgg aagctgtgaa cgatccaagg 8581 ttctgggctc tagtggacaa ggaaagagag caccacctga gaggagagtg ccagagttgt 8641 gtgtacaaca tgatgggaaa aagagaaaag aaacaagggg aatttggaaa ggccaaggg [gap 883 bp] Expand Ns 9583 ctccttta tttccacaga 9601 agggacctcc gactgatggc caatgccatt tgctcatctg tgccagttga ctgggttcca 9661 actgggagaa ctacctnnnn nnnnnnnnnn nnnnnnnnnn nnnnnnnnnn nnnnnnnnnn 9721 nnnnnnnnnn nnnnnnnnnn gtggattgag gagaacgacc acatggaaga caagacccca 9781 gttacgaaat ggacagacat tccctatttg ggaaaaaggg aagacttgtg gtgtggatct 9841 ctcatagggc acagaccgcg caccacctgg gctgagaaca ttaaaaacac agtcaacatg 9901 gtgcgcagga tcataggtga tgaagaaaag tacatggact acctatccac ccaagttcgc 9961 tacttgggtg aagaagggtc tacacctgga gtgctgtaag caccagnnnn nnnnnnnnnn 10021 nnnnnnnnnn nnnnnnnnnn nnnnnnnnnn nntgtgcagc ctgtgacccc cccaggagaa 10081 gctgggaaac caagcctata gtcaggccga gaacgccatg gcacggaaga agccatgctg 10141 cctgtgagcc cctcagagga cactgagtca aaaaacccca cgcgcttgga ggcgcaggat 10201 gggaaaagaa ggtggcgacc ttccccaccc ttcaatctgg ggcctgaact ggagatcagc 10261 tgtggatctc cagaagaggg actagtggtt agaggagacc ccccggaaaa cgcaaaacag 10321 cat

Bahia03 Sequence map update https://www.google.com/maps/d/u/1/edit?mid=1XSxKe6FIecV8f33cQwyc7uylxeU&hl=en