\documentclass{article}
\usepackage[affil-it]{authblk}
\usepackage{graphicx}
\usepackage[space]{grffile}
\usepackage{latexsym}
\usepackage{textcomp}
\usepackage{longtable}
\usepackage{tabulary}
\usepackage{booktabs,array,multirow}
\usepackage{amsfonts,amsmath,amssymb}
\providecommand\citet{\cite}
\providecommand\citep{\cite}
\providecommand\citealt{\cite}
\usepackage{url}
\usepackage{hyperref}
\hypersetup{colorlinks=false,pdfborder={0 0 0}}
\usepackage{etoolbox}
\makeatletter
\patchcmd\@combinedblfloats{\box\@outputbox}{\unvbox\@outputbox}{}{%
  \errmessage{\noexpand\@combinedblfloats could not be patched}%
}%
\makeatother
% You can conditionalize code for latexml or normal latex using this.
\newif\iflatexml\latexmlfalse
\providecommand{\tightlist}{\setlength{\itemsep}{0pt}\setlength{\parskip}{0pt}}%

\AtBeginDocument{\DeclareGraphicsExtensions{.pdf,.PDF,.eps,.EPS,.png,.PNG,.tif,.TIF,.jpg,.JPG,.jpeg,.JPEG}}

\usepackage[utf8]{inputenc}
\usepackage[english]{babel}




\begin{document}

\title{backbone}


\author{Sixing Huang}
\affil{Affiliation not available}



\date{\today}

\maketitle




Method\\

Acidobacterial sequences from silva release 119 (\cite{Quast_2012})
were downloaded and mixed with sequences of 1997 in-house isolates. The
sequences were de-replicated and it resulted in 12231 unique reference
sequences. They were aligned with Infernal 1.1 (-notrunc -g -matchonly)
(\cite{Nawrocki_2009}) against its bacterial ssu model. The alignment was
clustered with HPC-CLUST 1.1 (-t 0.9 -al true -dfunc nogap)
(\cite{Matias_Rodrigues_2013}) and it generated in total 5450 reference OTUs upon
an identity cutoff of 97\%. The query sequences were compared to the
de-replicated reference seqeunces upon a 99\% identity cutoff.
Subsequently, query sequences were assigned to reference OTUs with a
fractionated approach, in which each reference OTU got only a value
equal to one divided by the amount of qualified hits.

\selectlanguage{english}
\FloatBarrier
\bibliographystyle{plain}
\bibliography{bibliography/converted_to_latex.bib%
}

\end{document}

