%% BioMed_Central_Bib_Style_v1.01

\begin{thebibliography}{11}
% BibTex style file: bmc-mathphys.bst (version 2.1), 2014-07-24
\ifx \bisbn   \undefined \def \bisbn  #1{ISBN #1}\fi
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\ifx \bauthor  \undefined \def \bauthor#1{#1}\fi
\ifx \batitle  \undefined \def \batitle#1{#1}\fi
\ifx \bjtitle  \undefined \def \bjtitle#1{#1}\fi
\ifx \bvolume  \undefined \def \bvolume#1{\textbf{#1}}\fi
\ifx \byear  \undefined \def \byear#1{#1}\fi
\ifx \bissue  \undefined \def \bissue#1{#1}\fi
\ifx \bfpage  \undefined \def \bfpage#1{#1}\fi
\ifx \blpage  \undefined \def \blpage #1{#1}\fi
\ifx \burl  \undefined \def \burl#1{\textsf{#1}}\fi
\ifx \doiurl  \undefined \def \doiurl#1{\textsf{#1}}\fi
\ifx \betal  \undefined \def \betal{\textit{et al.}}\fi
\ifx \binstitute  \undefined \def \binstitute#1{#1}\fi
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\csname PreBibitemsHook\endcsname

%%% 1
\bibitem{jaffe2012fastg}
\begin{botherref}
\oauthor{\bsnm{Jaffe}, \binits{D.}}, et al.:
{The FASTG Format Specification (v1.00). http}
(2012)
\end{botherref}
\endbibitem

%%% 2
\bibitem{FASTAformat}
\begin{botherref}
\oauthor{\bsnm{NCBI}}:
{Accepted input formats}
(Accessed: 2015-08-06).
\url{http://blast.ncbi.nlm.nih.gov/blastcgihelp.shtml}
\end{botherref}
\endbibitem

%%% 3
\bibitem{comm1970abbreviations}
\begin{barticle}
\bauthor{\bsnm{Comm}, \binits{I.-I.}}:
\batitle{{Abbreviations and symbols for nucleic acids, polynucleotides, and
  their constituents}}.
\bjtitle{Biochemistry}
\bvolume{9}(\bissue{20}),
\bfpage{4022}--\blpage{4027}
(\byear{1970})
\end{barticle}
\endbibitem

%%% 4
\bibitem{bioperl}
\begin{barticle}
\bauthor{\bsnm{Stajich}, \binits{J.E.}},
\bauthor{\bsnm{Block}, \binits{D.}},
\bauthor{\bsnm{Boulez}, \binits{K.}},
\bauthor{\bsnm{Brenner}, \binits{S.E.}},
\bauthor{\bsnm{Chervitz}, \binits{S.A.}},
\bauthor{\bsnm{Dagdigian}, \binits{C.}},
\bauthor{\bsnm{Fuellen}, \binits{G.}},
\bauthor{\bsnm{Gilbert}, \binits{J.G.}},
\bauthor{\bsnm{Korf}, \binits{I.}},
\bauthor{\bsnm{Lapp}, \binits{H.}},
\bauthor{\bsnm{Lehvaslaiho}, \binits{H.}},
\bauthor{\bsnm{Matsalla}, \binits{C.}},
\bauthor{\bsnm{Mungall}, \binits{C.J.}},
\bauthor{\bsnm{Osborne}, \binits{B.I.}},
\bauthor{\bsnm{Pocock}, \binits{M.R.}},
\bauthor{\bsnm{Schattner}, \binits{P.}},
\bauthor{\bsnm{Senger}, \binits{M.}},
\bauthor{\bsnm{Stein}, \binits{L.D.}},
\bauthor{\bsnm{Stupka}, \binits{E.}},
\bauthor{\bsnm{Wilkinson}, \binits{M.D.}},
\bauthor{\bsnm{Birney}, \binits{E.}}:
\batitle{{The {B}ioperl toolkit: {P}erl modules for the life sciences.}}
\bjtitle{Genome Res}
\bvolume{12}(\bissue{10}),
\bfpage{1611}--\blpage{8}
(\byear{2002})
\end{barticle}
\endbibitem

%%% 5
\bibitem{bioperl2}
\begin{barticle}
\bauthor{\bsnm{Stein}, \binits{L.D.}},
\bauthor{\bsnm{Mungall}, \binits{C.}},
\bauthor{\bsnm{Shu}, \binits{S.}},
\bauthor{\bsnm{Caudy}, \binits{M.}},
\bauthor{\bsnm{Mangone}, \binits{M.}},
\bauthor{\bsnm{Day}, \binits{A.}},
\bauthor{\bsnm{Nickerson}, \binits{E.}},
\bauthor{\bsnm{Stajich}, \binits{J.E.}},
\bauthor{\bsnm{Harris}, \binits{T.W.}},
\bauthor{\bsnm{Arva}, \binits{A.}},
\bauthor{\bsnm{Lewis}, \binits{S.}}:
\batitle{{The generic genome browser: a building block for a model organism
  system database.}}
\bjtitle{Genome Res}
\bvolume{12}(\bissue{10}),
\bfpage{1599}--\blpage{610}
(\byear{2002})
\end{barticle}
\endbibitem

%%% 6
\bibitem{bioperl3}
\begin{barticle}
\bauthor{\bsnm{Stajich}, \binits{J.E.}},
\bauthor{\bsnm{Hahn}, \binits{M.W.}}:
\batitle{{Disentangling the effects of demography and selection in human
  history.}}
\bjtitle{Molecular biology and evolution}
\bvolume{22}(\bissue{1}),
\bfpage{63}--\blpage{73}
(\byear{2005}).
doi:\doiurl{10.1093/molbev/msh252}
\end{barticle}
\endbibitem

%%% 7
\bibitem{PMID:10827456}
\begin{barticle}
\bauthor{\bsnm{Rice}, \binits{P.}},
\bauthor{\bsnm{Longden}, \binits{I.}},
\bauthor{\bsnm{Bleasby}, \binits{A.}}:
\batitle{{EMBOSS: the European Molecular Biology Open Software Suite}}.
\bjtitle{Trends in genetics : TIG}
\bvolume{16}(\bissue{6}),
\bfpage{276}--\blpage{277}
(\byear{2000}).
doi:\doiurl{10.1016/s0168-9525(00)02024-2}
\end{barticle}
\endbibitem

%%% 8
\bibitem{Li2013}
\begin{botherref}
Li, H., seqtk GitHub repository, 4feb6e81444ab6bc44139dd3a125068f81ae4ad8.
\url{https://github.com/lh3/seqtk}
\end{botherref}
\endbibitem

%%% 9
\bibitem{bolger2014trimmomatic}
\begin{botherref}
\oauthor{\bsnm{Bolger}, \binits{A.M.}},
\oauthor{\bsnm{Lohse}, \binits{M.}},
\oauthor{\bsnm{Usadel}, \binits{B.}}:
{Trimmomatic: a flexible trimmer for Illumina sequence data}.
Bioinformatics,
170
(2014)
\end{botherref}
\endbibitem

%%% 10
\bibitem{langmead2012fast}
\begin{barticle}
\bauthor{\bsnm{Langmead}, \binits{B.}},
\bauthor{\bsnm{Salzberg}, \binits{S.L.}}:
\batitle{{Fast gapped-read alignment with Bowtie 2}}.
\bjtitle{Nature methods}
\bvolume{9}(\bissue{4}),
\bfpage{357}--\blpage{359}
(\byear{2012})
\end{barticle}
\endbibitem

%%% 11
\bibitem{Lindblad_Toh_2011}
\begin{barticle}
\bauthor{\bsnm{Lindblad-Toh}, \binits{K.}},
\bauthor{\bsnm{Garber}, \binits{M.}},
\bauthor{\bsnm{Zuk}, \binits{O.}},
\bauthor{\bsnm{Lin}, \binits{M.F.}},
\bauthor{\bsnm{Parker}, \binits{B.J.}},
\bauthor{\bsnm{Washietl}, \binits{S.}},
\bauthor{\bsnm{Kheradpour}, \binits{P.}},
\bauthor{\bsnm{Ernst}, \binits{J.}},
\bauthor{\bsnm{Jordan}, \binits{G.}},
\bauthor{\bsnm{Mauceli}, \binits{E.}},
\bauthor{\bsnm{Ward}, \binits{L.D.}},
\bauthor{\bsnm{Lowe}, \binits{C.B.}},
\bauthor{\bsnm{Holloway}, \binits{A.K.}},
\bauthor{\bsnm{Clamp}, \binits{M.}},
\bauthor{\bsnm{Gnerre}, \binits{S.}},
\bauthor{\bsnm{Alföldi}, \binits{J.}},
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\bauthor{\bsnm{Chang}, \binits{J.}},
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\bauthor{\bsnm{Cuff}, \binits{J.}},
\bauthor{\bsnm{Palma}, \binits{F.D.}},
\bauthor{\bsnm{Fitzgerald}, \binits{S.}},
\bauthor{\bsnm{Flicek}, \binits{P.}},
\bauthor{\bsnm{Guttman}, \binits{M.}},
\bauthor{\bsnm{Hubisz}, \binits{M.J.}},
\bauthor{\bsnm{Jaffe}, \binits{D.B.}},
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\bauthor{\bsnm{Moltke}, \binits{I.}},
\bauthor{\bsnm{Raney}, \binits{B.J.}},
\bauthor{\bsnm{Rasmussen}, \binits{M.D.}},
\bauthor{\bsnm{Robinson}, \binits{J.}},
\bauthor{\bsnm{Stark}, \binits{A.}},
\bauthor{\bsnm{Vilella}, \binits{A.J.}},
\bauthor{\bsnm{Wen}, \binits{J.}},
\bauthor{\bsnm{Xie}, \binits{X.}},
\bauthor{\bsnm{Zody}, \binits{M.C.}},
\bauthor{\bsnm{Baldwin}, \binits{J.}},
\bauthor{\bsnm{Bloom}, \binits{T.}},
\bauthor{\bsnm{Chin}, \binits{C.W.}},
\bauthor{\bsnm{Heiman}, \binits{D.}},
\bauthor{\bsnm{Nicol}, \binits{R.}},
\bauthor{\bsnm{Nusbaum}, \binits{C.}},
\bauthor{\bsnm{Young}, \binits{S.}},
\bauthor{\bsnm{Wilkinson}, \binits{J.}},
\bauthor{\bsnm{Worley}, \binits{K.C.}},
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\bauthor{\bsnm{Muzny}, \binits{D.M.}},
\bauthor{\bsnm{Gibbs}, \binits{R.A.}},
\bauthor{\bsnm{Cree}, \binits{A.}},
\bauthor{\bsnm{Dihn}, \binits{H.H.}},
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\bauthor{\bsnm{Jhangiani}, \binits{S.}},
\bauthor{\bsnm{Joshi}, \binits{V.}},
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\endbibitem

\end{thebibliography}

\newcommand{\BMCxmlcomment}[1]{}

\BMCxmlcomment{

<refgrp>

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    <au><snm>Robinson</snm><fnm>J</fnm></au>
    <au><snm>Stark</snm><fnm>A</fnm></au>
    <au><snm>Vilella</snm><fnm>AJ</fnm></au>
    <au><snm>Wen</snm><fnm>J</fnm></au>
    <au><snm>Xie</snm><fnm>X</fnm></au>
    <au><snm>Zody</snm><fnm>MC</fnm></au>
    <au><snm>Baldwin</snm><fnm>J</fnm></au>
    <au><snm>Bloom</snm><fnm>T</fnm></au>
    <au><snm>Chin</snm><fnm>CW</fnm></au>
    <au><snm>Heiman</snm><fnm>D</fnm></au>
    <au><snm>Nicol</snm><fnm>R</fnm></au>
    <au><snm>Nusbaum</snm><fnm>C</fnm></au>
    <au><snm>Young</snm><fnm>S</fnm></au>
    <au><snm>Wilkinson</snm><fnm>J</fnm></au>
    <au><snm>Worley</snm><fnm>KC</fnm></au>
    <au><snm>Kovar</snm><fnm>CL</fnm></au>
    <au><snm>Muzny</snm><fnm>DM</fnm></au>
    <au><snm>Gibbs</snm><fnm>RA</fnm></au>
    <au><snm>Cree</snm><fnm>A</fnm></au>
    <au><snm>Dihn</snm><fnm>HH</fnm></au>
    <au><snm>Fowler</snm><fnm>G</fnm></au>
    <au><snm>Jhangiani</snm><fnm>S</fnm></au>
    <au><snm>Joshi</snm><fnm>V</fnm></au>
    <au><snm>Lee</snm><fnm>S</fnm></au>
    <au><snm>Lewis</snm><fnm>LR</fnm></au>
    <au><snm>Nazareth</snm><fnm>LV</fnm></au>
    <au><snm>Okwuonu</snm><fnm>G</fnm></au>
    <au><snm>Santibanez</snm><fnm>J</fnm></au>
    <au><snm>Warren</snm><fnm>WC</fnm></au>
    <au><snm>Mardis</snm><fnm>ER</fnm></au>
    <au><snm>Weinstock</snm><fnm>GM</fnm></au>
    <au><snm>Wilson</snm><fnm>RK</fnm></au>
    <au><snm>Delehaunty</snm><fnm>K</fnm></au>
    <au><snm>Dooling</snm><fnm>D</fnm></au>
    <au><snm>Fronik</snm><fnm>C</fnm></au>
    <au><snm>Fulton</snm><fnm>L</fnm></au>
    <au><snm>Fulton</snm><fnm>B</fnm></au>
    <au><snm>Graves</snm><fnm>T</fnm></au>
    <au><snm>Minx</snm><fnm>P</fnm></au>
    <au><snm>Sodergren</snm><fnm>E</fnm></au>
    <au><snm>Birney</snm><fnm>E</fnm></au>
    <au><snm>Margulies</snm><fnm>EH</fnm></au>
    <au><snm>Herrero</snm><fnm>J</fnm></au>
    <au><snm>Green</snm><fnm>ED</fnm></au>
    <au><snm>Haussler</snm><fnm>D</fnm></au>
    <au><snm>Siepel</snm><fnm>A</fnm></au>
    <au><snm>Goldman</snm><fnm>N</fnm></au>
    <au><snm>Pollard</snm><fnm>KS</fnm></au>
    <au><snm>Pedersen</snm><fnm>JS</fnm></au>
    <au><snm>Lander</snm><fnm>ES</fnm></au>
    <au><snm>Kellis</snm><fnm>M</fnm></au>
  </aug>
  <source>Nature</source>
  <publisher>Nature Publishing Group</publisher>
  <pubdate>2011</pubdate>
  <volume>478</volume>
  <issue>7370</issue>
  <fpage>476</fpage>
  <lpage>-482</lpage>
  <url>http://dx.doi.org/10.1038/nature10530</url>
</bibl>

</refgrp>
} % end of \BMCxmlcomment
