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picornaviridae.com tree.bio.ed.ac.uk gen.cam.ac.uk bbc.co.uk oxfordjournals.org ucl.ac.uk 

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sse ▼ download sse version 1.3 * forename: * surname: * email: * affiliation: e.g. university of timbuktu * category: select from ... private individual uk university overseas (non-uk) university industrial research other program description there is an increasing need to develop bioinformatic tools to organise and analyse the rapidly growing amount of nucleotide and amino acid sequence data in organisms ranging from viruses to eukaryotes. sse provides an integrated environment where sequences can be aligned, annotated, classified and directly analysed by a number of built-in bioinformatic programs. sse incorporates a sequence editor for the creation of sequence alignments, a process assisted by integrated clustal / muscle alignment programs and automated removal of indels. sequences can be fully annotated, aligned and coding regions identified. genes can be extracted using genbank / embl annotations, gene boundaries marked and sequences classified into groups. the program provides access to analytical methods that compute diversity, nucleotide and dinucleotide composition, codon usage, recombination and rna secondary structure. methods for analysing sequence diversity include measures of divergence and evolutionary distances, identity plots to detect regions of nucleotide or amino acid homology, reconstruction of sequence changes, mono-, di- and higher order nucleotide compositional biases and codon usage. association index calculations, groupscans , bootscanning and treeorder scans perform phylogenetic analyses that reconcile group membership with tree branching orders and provide powerful methods for examining segregation of alleles and detection of recombination events. rna secondary and tertiary structures play important roles in gene expression and rna virus replication. for the latter, persistence of infection is additionally associated with pervasive rna secondary structure throughout viral genomic rna that modulates interactions with innate cell defences. sse provides several programs to scan alignments for rna secondary structure through folding energy thermodynamic calculations and phylogenetic methods (detection of co-variant changes, and structure conservation between divergent sequences). these analyses complement methods based on detection of sequence constraints, such as suppression of synonymous site variability. for each program, results can be plotted in real time during analysis through an integrated graphics package, providing publication quality graphs. results can be also directed to tabulated datafiles for import into spreadsheet or database programs for further analysis. program download sse is freely available for for research use. sse runs under the following operating systems: windows xp, vista, 7, 8 and 10 and on macs running wine or other virtualisation environments (vmware or parallels) for windows. to download sse please provide the following registration details. these details will only be used to inform you of updates to sse. upon registration our server will display (and send by email) a unique url from which sse can be downloaded. a note on previous versions sse version 1.3 is an extensive upgrade of previous versions (1.1, 1.2) of sse. the program has a large number of additional analysis options and has undergone considerable further testing and sorting out of several minor bugs and inconsistencies. if you have previously installed version 1.1 or 1.2, please ensure you have removed it using the uninstaller program before you install version 1.3. register & download * forename: * surname: * email: * affiliation: e.g. university of timbuktu * category: select from ... private individual uk university overseas (non-uk) university industrial research other licence conditions copyright © 1997-2016 peter simmonds, university of oxford. all rights reserved. the sse package is provided "as-is," without any express or implied warranty. in no event shall the author or the university be held liable for any damages arising from the use or misuse of this software. permission is granted to academic users only (“users”) to download and use the software for the sole purposes of or internal, non-commercial, non-profit educational and research. the user may not translate, reverse engineer, decompile, disassemble, modify or create derivative works based on software. the user is prohibited from re-distributing this software without permission from the author. the software must under no circumstance be re-distributed commercially or for profit. to request use for non-academic (eg. commercial) purposes or other than those listed above, please contact the author. author: peter simmonds university of oxford [email protected] published description simmonds, p. (2012). sse: a nucleotide and amino acid sequence analysis platform. bmc research notes ( epub jan.20, 2012 ). for other references from the simmonds group, please refer to pubmed . ©1999 - 2016 peter simmonds, university of oxford privacy & cookies

URL analysis for virus-evolution.org

http://www.virus-evolution.org/Downloads/Software/assets/fig_1.png
ox.ac.uk
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Whois Information

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Domain Name: VIRUS-EVOLUTION.ORG
Registry Domain ID: D127592231-LROR
Registrar WHOIS Server: whois.tucows.com
Registrar URL: http://www.tucows.com
Updated Date: 2017-06-28T11:24:41Z
Creation Date: 2006-08-21T09:30:34Z
Registry Expiry Date: 2026-08-21T09:30:34Z
Registrar Registration Expiration Date:
Registrar: Tucows Inc.
Registrar IANA ID: 69
Registrar Abuse Contact Email: [email protected]
Registrar Abuse Contact Phone: +1.4165350123
Reseller:
Domain Status: clientTransferProhibited https://icann.org/epp#clientTransferProhibited
Domain Status: clientUpdateProhibited https://icann.org/epp#clientUpdateProhibited
Registry Registrant ID: C181858605-LROR
Registrant Name: IT Services Domain Registration
Registrant Organization: University of Oxford
Registrant Street: IT Services
Registrant Street: 7-19 Banbury Road
Registrant City: Oxford
Registrant State/Province:
Registrant Postal Code: OX2 6NN
Registrant Country: GB
Registrant Phone: +44.1865273619
Registrant Phone Ext:
Registrant Fax: +44.1865273275
Registrant Fax Ext:
Registrant Email: [email protected]
Registry Admin ID: C181858606-LROR
Admin Name: IT Services Domain Registration
Admin Organization: University of Oxford
Admin Street: IT Services
Admin Street: 7-19 Banbury Road
Admin City: Oxford
Admin State/Province:
Admin Postal Code: OX2 6NN
Admin Country: GB
Admin Phone: +44.1865273619
Admin Phone Ext:
Admin Fax: +44.1865273275
Admin Fax Ext:
Admin Email: [email protected]
Registry Tech ID: C181858608-LROR
Tech Name: IT Services Hostmaster
Tech Organization: University of Oxford
Tech Street: IT Services
Tech Street: 7-19 Banbury Road
Tech City: Oxford
Tech State/Province:
Tech Postal Code: OX2 6NN
Tech Country: GB
Tech Phone: +44.1865273600
Tech Phone Ext:
Tech Fax: +44.1865273275
Tech Fax Ext:
Tech Email: [email protected]
Name Server: DNS0.OX.AC.UK
Name Server: DNS2.OX.AC.UK
DNSSEC: unsigned
URL of the ICANN Whois Inaccuracy Complaint Form: https://www.icann.org/wicf/
>>> Last update of WHOIS database: 2018-05-12T22:09:32Z <<<

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Access to Public Interest Registry WHOIS information is provided to assist persons in determining the contents of a domain name registration record in the Public Interest Registry registry database. The data in this record is provided by Public Interest Registry for informational purposes only, and Public Interest Registry does not guarantee its accuracy. This service is intended only for query-based access. You agree that you will use this data only for lawful purposes and that, under no circumstances will you use this data to: (a) allow, enable, or otherwise support the transmission by e-mail, telephone, or facsimile of mass unsolicited, commercial advertising or solicitations to entities other than the data recipient's own existing customers; or (b) enable high volume, automated, electronic processes that send queries or data to the systems of Registry Operator, a Registrar, or Afilias except as reasonably necessary to register domain names or modify existing registrations. All rights reserved. Public Interest Registry reserves the right to modify these terms at any time. By submitting this query, you agree to abide by this policy.

  REFERRER http://www.pir.org/

  REGISTRAR Public Interest Registry

SERVERS

  SERVER org.whois-servers.net

  ARGS virus-evolution.org

  PORT 43

  TYPE domain

DOMAIN

  NAME virus-evolution.org

  HANDLE D127592231-LROR

  CREATED 2006-08-21

STATUS
clientTransferProhibited https://icann.org/epp#clientTransferProhibited
clientUpdateProhibited https://icann.org/epp#clientUpdateProhibited

NSERVER

  DNS0.OX.AC.UK 129.67.1.190

  DNS2.OX.AC.UK 163.1.2.190

OWNER

  HANDLE C181858605-LROR

  NAME IT Services Domain Registration

  ORGANIZATION University of Oxford

ADDRESS

STREET
IT Services
7-19 Banbury Road

  CITY Oxford

  PCODE OX2 6NN

  COUNTRY GB

  PHONE +44.1865273619

  EMAIL [email protected]

ADMIN

  HANDLE C181858606-LROR

  NAME IT Services Domain Registration

  ORGANIZATION University of Oxford

ADDRESS

STREET
IT Services
7-19 Banbury Road

  CITY Oxford

  PCODE OX2 6NN

  COUNTRY GB

  PHONE +44.1865273619

  EMAIL [email protected]

TECH

  HANDLE C181858608-LROR

  NAME IT Services Hostmaster

  ORGANIZATION University of Oxford

ADDRESS

STREET
IT Services
7-19 Banbury Road

  CITY Oxford

  PCODE OX2 6NN

  COUNTRY GB

  PHONE +44.1865273600

  EMAIL [email protected]

  REGISTERED yes

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