... Daniil Alexeyevsky <dendik@kodomo.fbb.msu.ru> . ... 1 allpy ( 1 . ... 5 -- Danya Alexeyevsky < dendik @ kodomo . fbb . ... 83 * Fixed debian / changelog . ... 104 -- Danya Alexeyevsky < dendik @ kodomo . ... 115 -- Danya Alexeyevsky < dendik @ kodomo . ... 121 -- Danya Alexeyevsky < dendik @ kodomo . ... 128 -- Danya Alexeyevsky < dendik @ kodomo . ... 139 -- Danya Alexeyevsky < dendik @ kodomo . ... 145 -- Danya Alexeyevsky < dendik @ kodomo . ... 151 -- Danya Alexeyevsky < dendik @ kodomo . ...

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• allpy: 41a167bbf150 debian/changelog
• allpy: 9c00d065c054 debian/changelog
• allpy: afed1fd8920c debian/changelog

... 2011/12/09 . ... added alignment merging . added parameter corresponding to the width of output alignment . fixed homologue searching for very long query sequences . ... Copyright 2010-2011 Yury Pekov ...

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• ConClus

... Alternative core new atoms (%) . ... An alignment of a set of structures is a set of positions , to each position some atoms from different structures correspond. ... Geometrical core of a set of structures is a subset of alignment positions those atoms are disposed similarly in all structures. ... For any two positions included into geometrical core, the distances between CA atoms of those positions in all structures may differ not more than the value of the parameter "Distance spreading". ...

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• SVETKA, a program for multiple sequence alignments analysis
• S : rm_systems

Scoring Matrices . Matrix Sequences Sequence Consisting of the first four Amino Acids in the Protein GYRB_ECOL: . ... Sequence Achieved by Substitution of the 2nd and 4th Amino Acid and Insertion between the 3d and 4th Amino Acid, in the Protein GYRB_ECOLI, to randomly chosen new amino acids: . ... Matrix Sequences Sequence Consisting of the First Nine Amino Acids of the Protein GYRB_ECOLI: . ... Sequence Consisting of 2nd, 3d, 7th, 8th and 9th Amino Acid Residues of the Protein GYRB_ECOLI: . ...

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• Множественное выравнивание.

. SVETKA, a program for Analysis of Multiple Sequence Alignments . Helps (useful info) . Analyse your alignment . Interesting . links . Our Country . loads for a long time! . Our City . Our University . Our Institute . Our seminar . Our project . Name (optional) . Alignment . Nota Bene! .aln or .fasta format required!!! . Look here for comments . Tree (optional) . Nota Bene! Special scheme format required! . Look here for comments .

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• SVETKA, a program for multiple sequence alignments analysis
• About this project
• SDP home page

... Bioinformatics Portal . GeneBee . ... Bioinformatics Portal of A.N.Belozersky Institute, . Moscow State University . Supported by the Russian Foundation for Basic Research, grant 13-07-00969-a . Original Services of GeneBee Group . Databanks screening . Sequence analysis . Screening by keywords . AliBee Multiple alignment Release 3.0 . AliGraf Graphical Alignment . AliComp Alignments Comparison . Screening by similarity Release 3.0 . ...

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• BLAST Basic Overview
• AliGraf - GeneBee Graphical Alignment Help
• TreeTop - Phylogenetic Tree prediction

Электронная библиотека Попечительского совета . ... Althaus E. - A branch-and-cut algorithm for multiple sequence alignment . ... Название: A branch-and-cut algorithm for multiple sequence alignment . Автор: Althaus E. Язык: . ... Электронная библиотека попечительского совета мехмата МГУ , 2004-2016 . ...

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• Lathrop R.H., Rogers Jr R.G., Smith T.F. - A Bayes-optimal sequence-structure
• Dubinko M. - XForms Essentials :: Электронная библиотека попечительского совета
• Brown S.M. - Bioinformatics: A Biologist's Guide to Biocomputing and the

Application of evolutionary model in the evaluation of the quality of pair wise alignment of amino acid sequences Valery Polyanovsky, V. G. Tumanyan Engelhardt Institute of Molecular Biology, Russian Academy of Sciences, Moscow, 119991 Russia ... : polyanovskyvo@mailfrom.ru, tuman@eimb.ru The purpose of the work is to develop a universal method for estimating the pairwise alignment quality depending on the evolutionary distance (degree of homology) between the ... REFERENCES 1. ...

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• http://mccmb.belozersky.msu.ru/2015/proceedings/abstracts/161.pdf
• http://mccmb.belozersky.msu.ru/2013/abstracts/abstracts/215.pdf
• http://mccmb.belozersky.msu.ru/2015/proceedings/abstracts/4.pdf

Evalign . Evalign is a computerised evaluation method for protein sequence alignment algorithm. It compares computer alignments with structural alignments of protein sequences and tells how correct your sequence alignment program is. It gives additional information on the characteristics of different alignment algorithms and shows types specific failings in alignment. ... None . ... SAL Home | Other Scientific Fields | Chemistry, Biology Related . ... SAL@KachinaTech.COM . ...

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• SAL- Other Scientific Fields - Chemistry, Biology Related - ClustalW
• SAL- Other Scientific Fields - Chemistry, Biology Related - DCSE
• SAL- Other Scientific Fields - Chemistry, Biology Related - SC_rate

Given word length and max number of mismatches . Use MEME algorithm for define conserved blocks . Apply the Dynamic programming algorithm to create chain of the blocks . Refine the chain using combined profile for chain of blocks. ... Reduce word length and number of mismatches and repeat the procedure for spacer between the blocks. ... Create helix profile and apply MEME-like iterative procedure to find sets of helices that consistent lokated reative to conserved blocks . ...

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• Input Formats
• SDPpred
• SDPsite - Algorithm Format requirements

Copyright 1999-2009 Gentoo Foundation # Distributed under the terms of the GNU General Public License v2 # $Id$ DESCRIPTION="Global and progressive multiple sequence alignment" HOMEPAGE="http://msa.cgb.ki.se/" SRC_URI="mirror://debian/pool/main/k/kalign/${PN}_${PV}.orig.tar.gz" LICENSE="GPL-2" SLOT="0" IUSE="" KEYWORDS="amd64 x86" DEPEND="" RDEPEND="" S="${WORKDIR}/${PN}" src_unpack() { unpack ${A} sed -i 's/^CFLAGS.* ...

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• http://mirror.msu.net/pub/gentoo-portage/sci-biology/mafft/mafft-7.215.ebuild
• http://mirror.msu.net/pub/gentoo-portage/app-text/binfind/binfind-0.0.3.ebuild
• http://mirror.msu.net/pub/gentoo-portage/sci-biology/kalign/kalign-2.03-r1.ebuild

... О UNИX . ... HelpOnTables . ... Table Markup . ... General table layout and HTML like options . ... Line breaks within cells . ... Bulleted lists and other complex content within cells To create a table, start & end a new line using the table marker; two 'pipe' characters " || ... top left cell || top right cell || || bottom left cell || bottom right cell || ... Just use CSS-formatted styles and it will be inlined in the generated HTML tag. <style="..."> will put that style info into cell (td) html ...

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• Index of /static/Install_and_Configure
• Index of /static/Install_and_Configure/install_and_configure_files
• HelpOnXmlPages - UNИX

... О UNИX . ... HelpOnTables . ... Table Markup . ... General table layout and HTML like options . ... Line breaks within cells . ... Bulleted lists and other complex content within cells To create a table, start & end a new line using the table marker; two 'pipe' characters " || ... top left cell || top right cell || || bottom left cell || bottom right cell || ... Just use CSS-formatted styles and it will be inlined in the generated HTML tag. <style="..."> will put that style info into cell (td) html ...

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• Specifying File Attributes
• Using RPM to Install Packages
• Index of /static/Install_and_Configure

... Plugin Installation Instructions . ... WikiRing Consultants This plugin will help you to write readable markup (TWikiMarkup, HMTL, ...) within TWiki by allowing tags and arguments to be formatted on multiple lines. ... Basically, there are two ways of glueing and recombining lines by either removing all whitespaces between two lines using %*~~ or by removing all whitespaces and separateing lines with a single space using %~~~ . ... lib/TWiki/Plugins/GluePlugin.pm . ... TWiki:Plugins/GluePlugin . ...

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• GluePlugin - TWiki - TWiki - (printable)

... HTML defines six levels of headings. ... The numbering style is controlled by the style sheet, e.g. The style sheet specifies whether headers are numbered, and which style is used to render the current sequence number, e.g. arabic, upper alpha, lower alpha, upper roman, lower roman or a numbering scheme appropriate to the current language. ... CLEAR . ... This attribute is used to set the sequence number associated with the header level of the current element to a given number, e.g. SEQNUM=10. ...

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• Paragraphs
• Ordered Lists
• Understanding HTML and SGML

... Is only visible when cellspacing is larger than 1, or cellborder is 0 , or tablerules is none , otherwise the cell borders overlap the table border. unspecified . ... Table rules, set to "none" (no rules), "groups" (rules will appear between row groups and column groups only), "rows" (rules will appear between rows only), "cols" (rules will appear between columns only), "all" (rules will appear between all rows and columns). ... unspecified . ... This topic: System > Plugins > TablePlugin > VarTABLE...

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• PageOptimizerPlugin < System < Foswiki
• VarENCODE < System < Foswiki

... Derived datatypes . Up: Point-to-Point Communication Next: Datatype constructors Previous: Null processes . ... Instead, MPI provides mechanisms to specify more general, mixed, and noncontiguous communication buffers. ... More general communication buffers are specified by replacing the basic datatypes that have been used so far with derived datatypes that are constructed from basic datatypes using the constructors described in this section. ... A sequence of basic datatypes . ... Центры . ...

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• Installing
  <tt> mpich
  </tt> for Others to Use | PARALLEL.RU -
• Installing documentation | PARALLEL.RU - Информационно-аналитический центр по
• Attributes | PARALLEL.RU - Информационно-аналитический центр по параллельным

README for XFree86 on OS/2 : Installing the packages . Previous: Checking Compatibility of Video Hardware . Next: Adding Variables to CONFIG.SYS . XFree86/OS2 assumes a directory hierarchy starting from drive:\XFree86 . ... You might encounter that some packages report duplicate files, e.g. the X server packages install corresponding README files, which are also in the Xdoc package. This is okay, the files are the same. Let unzip replace the files. ...

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• Installing the System
• Conformance: requirements and recommendations
• Главная последовательность. The Main Sequence

Изучение статистики наиболее длинной общей подпослеовательности двух случайных подпоследовательностей является одной из самых интересных и трудных задач вычислительной математической биологии. В докладе будут представлены результаты, касающиеся статистического распределения общих подпоследовательностей в упрощенном (некоррелированном) варианте модели, т.наз. модели Бернулли . ...

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• Selected publications of Chertovich, Alexander Viktorovich

... Another way to fend off and detect impostors is to use call sequence checks. Call sequence checks help you protect against intruders that somehow managed to find out the password you log into your UUCP system with. ... When the attacker call your UUCP feed and steals your mail, this will increase the feeds call sequence number by one. ... If you have enabled call sequence checks, you should check your log files regularly for error messages that hint at possible attacks. ...

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• Basic HTML data types
• Changes between HTML 3.2 and HTML 4.0
• Installing the Binaries