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%%%     address         = "MIT Laboratory for Computer Science
%%%                        Room NE43-316
%%%                        545 Technology Square
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%\documentclass{acmart}
%\documentclass[faircopy]{acmart}

\documentstyle{acmart}
%\documentstyle[faircopy]{acmart}

\begin{document}

\title{Here is a title}

\author{E. M. Arkin \\ Cornell University, Ithaca, New York
\and
C. H. Papadimitriou\\University of California at San Diego, La Jolla,
California
\and
M. Yannakakis\\AT\&T Bell Laboratories, Short Hills, New Jersey}

\category{D.3.3}{Programming Languages}{Language Constructs and
Features}[data types and structures]

\category{A.0}{General}{}[Biographies/Autobiographies]

\category{A.0}{General}{}

\category{I.7.2}{Text Processing}{Document Preparation}[Languages \and
  Photocomposition]

\keywords{document processing, sequences,
string searching, subsequences, substrings}

\terms{Human Factors, Languages}

\begin{bottomstuff}

\permission
\copyright\ 1995 by the Association for Computing Machinery, Inc.

\end{bottomstuff}

\firstfoot{Journal of the Association for Computing Machinery, Vol.
38, No. 2, April 1991, pp. 100-113}

\maketitle

\begin{abstract}

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\end{abstract}

\begin{figure}[t]

Figure at top of page.

\figfilename{foo1.tex}

\nocaption

\end{figure}

\section{The First Section}

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\subsection{A subsection of the first section}

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\subsubsection{A subsubsection of the first subsection}

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\paragraph{A paragraph header}

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\subsubsection{Subsection in here}

\begin{enumerate}

\item First item

\item \subsubsection{Subsection in here}

\item First subitem
\subsubsection{one in here also}

text

\item Second subitem

\item Third item

\end{enumerate}

\section{Introduction}

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\begin{narrowfig}{104pt}
\figfilename{narrow.tex}
\begin{program}
{\bf type} date =\\
\hspace*{1em}\= {\bf record} \= day: 1\,.\,.\,31;\+\+\\
                                month: 1\,.\,.\,12;\\
                                year: integer \-\\
                {\bf end} \-\\
{\bf var} mybirth, today : date;\\
{\bf var} myage : integer;
\end{program}
\caption{An example of a program displayed in a figure.}
\label{fig:prog}
\end{narrowfig}
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\begin{figure}[h]\figfilename{bar.tex}
\begin{enumerate}\em

\item
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\item
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\end{enumerate}

\caption{Example figure with h specifier}
\end{figure}
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\begin{table}[p]

\def\arraystretch{1.1}

\caption{Learning 2-stranded coiled coils from a restricted set}

\begin{center}
\begin{tabular}{|*7{c|}}
\hline
Base Set & Evaluation & Underlying
& \multicolumn{2}{c|}{Performance}
& \multicolumn{2}{c|}{Performance} \\
         & Database   & Algorithm
& \multicolumn{2}{c|}{without LearnCoil}
& \multicolumn{2}{c|}{with LearnCoil}\\
\cline{4-7}
&&& \% of res & \# of false &   \% of res & \# of false \\
&&& & positive seqs &&   positive seqs \\\hline

TROPs   & MYOs + IFs    & PairCoil  & 75\%  & 4 & 99\%  & 1 \\\hline

MYOs    & TROPs + IFs   & PairCoil  & 89\%  & 2 & 99\%  & 1 \\\hline

IFs     & MYOs + TROPs  & PairCoil  & 83\%  & 4 & 99\%  & 2 \\\hline

TROPs   & MYOs + IFs    & PairCoil  & 75\%  & 4 & 99\%  & 1 \\\hline

MYOs    & TROPs + IFs   & PairCoil  & 89\%  & 2 & 99\%  & 1 \\\hline

IFs     & MYOs + TROPs  & PairCoil  & 83\%  & 4 & 99\%  & 2 \\\hline

TROPs   & MYOs + IFs    & PairCoil  & 75\%  & 4 & 99\%  & 1 \\\hline

MYOs    & TROPs + IFs   & PairCoil  & 89\%  & 2 & 99\%  & 1 \\\hline

IFs     & MYOs + TROPs  & PairCoil  & 83\%  & 4 & 99\%  & 2 \\\hline

\end{tabular}
\end{center}

3-str = 3-stranded; 2-str = 2-stranded; CCs = coiled coils; seqs =
sequences; TROPs = tropomyosins; MYOs = Myosins; IFs = intermediate
filaments; res = (amino acid) residues

\end{table}

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\begin{table}

\def\arraystretch{1.1}

\caption{Newly discovered coiled coil candidates}

\begin{center}
\begin{minipage}\textwidth
\begin{tabular}{|l|*2{c|}}
\hline
PIR Name    & {\sc Learn-Coil} Likelihood   & {\sc PairCoil} Likelihood\\
\hline
mouse hepatitis virus               & $>$90\%  & \phantom{$<$}23\% \\
human rotavirus A                   & $>$90\%  & \phantom{$<$0}9\% \\
human respiratory syncytial virus   & $>$90\%  & $<$10\% \\
human T-cell surface glycoprotein CD4 precursor
                                    & \phantom{$>$}77\%      & $<$10\% \\
human T-cell lymphotrophic virus    & $>$90\%  & $<$10\% \\
equine infectious anemia virus      & $>$90\%  & $<$10\% \\
%%  avian infectious bronchitis virus   & \phantom{$>$}53\%      & $<$10\% \\
HIV\footnote{HIV was previously know to contain a coiled coil
 [Blacklowk-95]}
                                    & $>$90\%  & \phantom{$<$}26\% \\
\hline
\end{tabular}
\end{minipage}
\end{center}

\end{table}

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\begin{table}%[p]

\def\arraystretch{1.1}

\caption{Learning 3-stranded coiled coils from 2-stranded coiled coils}

\begin{center}
\begin{tabular}{|*7{c|}}
\hline
Base Set & Evaluation & Underlying
& \multicolumn{2}{c|}{Performance}
& \multicolumn{2}{c|}{Performance} \\
         & Database   & Algorithm
& \multicolumn{2}{c|}{without LearnCoil}
& \multicolumn{2}{c|}{with LearnCoil}\\
\cline{4-7}
&&& \% of res & \# of false &   \% of res & \# of false \\
&&& & positive seqs &&   positive seqs \\\hline

2-str CCs   & 3-str CCs & PairCoil  & 65\%  & 0 & 94\%  & 0 \\\hline
\end{tabular}
\end{center}

\begin{center}
3-str = 3-stranded; 2-str = 2-stranded; CCs = coiled coils; seqs =
sequences
\end{center}

\end{table}

\begin{figure}
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\figfilename{quux.tex}

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\caption{Example figure}
\end{figure}

\subsection{A silly example}

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text.\footnote{Here is a footnote.}
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\begin{figure}
\begin{longenum}\em
\item
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\item
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\end{longenum}
\caption{Example figure}
\end{figure}
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\subsubsection{An even sillier example}

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\paragraph{Sillier yet}

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\section{A second silly section}

\subsection{With an immediate subsection}

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\part{Last part}

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\appendix

\section{First appendix}

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\section{Second appendix}

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\begin{acks}

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\end{acks}

\nocite*

\bibliographystyle{acmtrans}
\bibliography{acmtr}

\end{document}
