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-<div class="textblock">Here are the data structures with brief descriptions:</div><div class="directory">
-<table class="directory">
-<tr id="row_0_" class="even"><td class="entry"><img src="ftv2node.png" alt="o" width="16" height="22" /><img src="ftv2cl.png" alt="C" width="24" height="22" /><a class="el" href="structbondT.html" target="_self">bondT</a></td><td class="desc">Base pair</td></tr>
-<tr id="row_1_"><td class="entry"><img src="ftv2node.png" alt="o" width="16" height="22" /><img src="ftv2cl.png" alt="C" width="24" height="22" /><a class="el" href="structbondTEn.html" target="_self">bondTEn</a></td><td class="desc">Base pair with associated energy</td></tr>
-<tr id="row_2_" class="even"><td class="entry"><img src="ftv2node.png" alt="o" width="16" height="22" /><img src="ftv2cl.png" alt="C" width="24" height="22" /><a class="el" href="structcofoldF.html" target="_self">cofoldF</a></td><td class="desc"></td></tr>
-<tr id="row_3_"><td class="entry"><img src="ftv2node.png" alt="o" width="16" height="22" /><img src="ftv2cl.png" alt="C" width="24" height="22" /><a class="el" href="structConcEnt.html" target="_self">ConcEnt</a></td><td class="desc"></td></tr>
-<tr id="row_4_" class="even"><td class="entry"><img src="ftv2node.png" alt="o" width="16" height="22" /><img src="ftv2cl.png" alt="C" width="24" height="22" /><a class="el" href="structconstrain.html" target="_self">constrain</a></td><td class="desc">Constraints for cofolding</td></tr>
-<tr id="row_5_"><td class="entry"><img src="ftv2node.png" alt="o" width="16" height="22" /><img src="ftv2cl.png" alt="C" width="24" height="22" /><a class="el" href="structCOORDINATE.html" target="_self">COORDINATE</a></td><td class="desc">This is a workarround for the SWIG Perl Wrapper RNA plot function that returns an array of type <a class="el" href="structCOORDINATE.html" title="this is a workarround for the SWIG Perl Wrapper RNA plot function that returns an array of type COORD...">COORDINATE</a></td></tr>
-<tr id="row_6_" class="even"><td class="entry"><img src="ftv2node.png" alt="o" width="16" height="22" /><img src="ftv2cl.png" alt="C" width="24" height="22" /><a class="el" href="structcpair.html" target="_self">cpair</a></td><td class="desc">This datastructure is used as input parameter in functions of PS_dot.c</td></tr>
-<tr id="row_7_"><td class="entry"><img src="ftv2node.png" alt="o" width="16" height="22" /><img src="ftv2cl.png" alt="C" width="24" height="22" /><a class="el" href="structduplexT.html" target="_self">duplexT</a></td><td class="desc"></td></tr>
-<tr id="row_8_" class="even"><td class="entry"><img src="ftv2node.png" alt="o" width="16" height="22" /><img src="ftv2cl.png" alt="C" width="24" height="22" /><a class="el" href="structdupVar.html" target="_self">dupVar</a></td><td class="desc"></td></tr>
-<tr id="row_9_"><td class="entry"><img src="ftv2node.png" alt="o" width="16" height="22" /><img src="ftv2cl.png" alt="C" width="24" height="22" /><a class="el" href="structfolden.html" target="_self">folden</a></td><td class="desc"></td></tr>
-<tr id="row_10_" class="even"><td class="entry"><img src="ftv2node.png" alt="o" width="16" height="22" /><img src="ftv2cl.png" alt="C" width="24" height="22" /><a class="el" href="structinteract.html" target="_self">interact</a></td><td class="desc"></td></tr>
-<tr id="row_11_"><td class="entry"><img src="ftv2node.png" alt="o" width="16" height="22" /><img src="ftv2cl.png" alt="C" width="24" height="22" /><a class="el" href="structintermediate__t.html" target="_self">intermediate_t</a></td><td class="desc"></td></tr>
-<tr id="row_12_" class="even"><td class="entry"><img src="ftv2node.png" alt="o" width="16" height="22" /><img src="ftv2cl.png" alt="C" width="24" height="22" /><a class="el" href="structINTERVAL.html" target="_self">INTERVAL</a></td><td class="desc">Sequence interval stack element used in subopt.c</td></tr>
-<tr id="row_13_"><td class="entry"><img src="ftv2node.png" alt="o" width="16" height="22" /><img src="ftv2cl.png" alt="C" width="24" height="22" /><a class="el" href="structLIST.html" target="_self">LIST</a></td><td class="desc"></td></tr>
-<tr id="row_14_" class="even"><td class="entry"><img src="ftv2node.png" alt="o" width="16" height="22" /><img src="ftv2cl.png" alt="C" width="24" height="22" /><a class="el" href="structLST__BUCKET.html" target="_self">LST_BUCKET</a></td><td class="desc"></td></tr>
-<tr id="row_15_"><td class="entry"><img src="ftv2node.png" alt="o" width="16" height="22" /><img src="ftv2cl.png" alt="C" width="24" height="22" /><a class="el" href="structmodel__detailsT.html" target="_self">model_detailsT</a></td><td class="desc">The data structure that contains the complete model details used throughout the calculations</td></tr>
-<tr id="row_16_" class="even"><td class="entry"><img src="ftv2node.png" alt="o" width="16" height="22" /><img src="ftv2cl.png" alt="C" width="24" height="22" /><a class="el" href="structmove__t.html" target="_self">move_t</a></td><td class="desc"></td></tr>
-<tr id="row_17_"><td class="entry"><img src="ftv2node.png" alt="o" width="16" height="22" /><img src="ftv2cl.png" alt="C" width="24" height="22" /><a class="el" href="structPAIR.html" target="_self">PAIR</a></td><td class="desc">Base pair data structure used in subopt.c</td></tr>
-<tr id="row_18_" class="even"><td class="entry"><img src="ftv2node.png" alt="o" width="16" height="22" /><img src="ftv2cl.png" alt="C" width="24" height="22" /><a class="el" href="structpair__info.html" target="_self">pair_info</a></td><td class="desc">A base pair info structure</td></tr>
-<tr id="row_19_"><td class="entry"><img src="ftv2node.png" alt="o" width="16" height="22" /><img src="ftv2cl.png" alt="C" width="24" height="22" /><a class="el" href="structpairpro.html" target="_self">pairpro</a></td><td class="desc"></td></tr>
-<tr id="row_20_" class="even"><td class="entry"><img src="ftv2node.png" alt="o" width="16" height="22" /><img src="ftv2cl.png" alt="C" width="24" height="22" /><a class="el" href="structparamT.html" target="_self">paramT</a></td><td class="desc">The datastructure that contains temperature scaled energy parameters</td></tr>
-<tr id="row_21_"><td class="entry"><img src="ftv2node.png" alt="o" width="16" height="22" /><img src="ftv2cl.png" alt="C" width="24" height="22" /><a class="el" href="structpath__t.html" target="_self">path_t</a></td><td class="desc"></td></tr>
-<tr id="row_22_" class="even"><td class="entry"><img src="ftv2node.png" alt="o" width="16" height="22" /><img src="ftv2cl.png" alt="C" width="24" height="22" /><a class="el" href="structpf__paramT.html" target="_self">pf_paramT</a></td><td class="desc">The datastructure that contains temperature scaled Boltzmann weights of the energy parameters</td></tr>
-<tr id="row_23_"><td class="entry"><img src="ftv2node.png" alt="o" width="16" height="22" /><img src="ftv2cl.png" alt="C" width="24" height="22" /><a class="el" href="structplist.html" target="_self">plist</a></td><td class="desc">This datastructure is used as input parameter in functions of <a class="el" href="PS__dot_8h.html" title="Various functions for plotting RNA secondary structures, dot-plots and other visualizations.">PS_dot.h</a> and others</td></tr>
-<tr id="row_24_" class="even"><td class="entry"><img src="ftv2node.png" alt="o" width="16" height="22" /><img src="ftv2cl.png" alt="C" width="24" height="22" /><a class="el" href="structPostorder__list.html" target="_self">Postorder_list</a></td><td class="desc"></td></tr>
-<tr id="row_25_"><td class="entry"><img src="ftv2node.png" alt="o" width="16" height="22" /><img src="ftv2cl.png" alt="C" width="24" height="22" /><a class="el" href="structpu__contrib.html" target="_self">pu_contrib</a></td><td class="desc">Contributions to p_u</td></tr>
-<tr id="row_26_" class="even"><td class="entry"><img src="ftv2node.png" alt="o" width="16" height="22" /><img src="ftv2cl.png" alt="C" width="24" height="22" /><a class="el" href="structpu__out.html" target="_self">pu_out</a></td><td class="desc">Collection of all free_energy of beeing unpaired values for output</td></tr>
-<tr id="row_27_"><td class="entry"><img src="ftv2node.png" alt="o" width="16" height="22" /><img src="ftv2cl.png" alt="C" width="24" height="22" /><a class="el" href="structsect.html" target="_self">sect</a></td><td class="desc">Stack of partial structures for backtracking</td></tr>
-<tr id="row_28_" class="even"><td class="entry"><img src="ftv2node.png" alt="o" width="16" height="22" /><img src="ftv2cl.png" alt="C" width="24" height="22" /><a class="el" href="structsnoopT.html" target="_self">snoopT</a></td><td class="desc"></td></tr>
-<tr id="row_29_"><td class="entry"><img src="ftv2node.png" alt="o" width="16" height="22" /><img src="ftv2cl.png" alt="C" width="24" height="22" /><a class="el" href="structSOLUTION.html" target="_self">SOLUTION</a></td><td class="desc">Solution element from subopt.c</td></tr>
-<tr id="row_30_" class="even"><td class="entry"><img src="ftv2node.png" alt="o" width="16" height="22" /><img src="ftv2cl.png" alt="C" width="24" height="22" /><a class="el" href="structstruct__en.html" target="_self">struct_en</a></td><td class="desc"></td></tr>
-<tr id="row_31_"><td class="entry"><img src="ftv2node.png" alt="o" width="16" height="22" /><img src="ftv2cl.png" alt="C" width="24" height="22" /><a class="el" href="structsvm__model.html" target="_self">svm_model</a></td><td class="desc"></td></tr>
-<tr id="row_32_" class="even"><td class="entry"><img src="ftv2node.png" alt="o" width="16" height="22" /><img src="ftv2cl.png" alt="C" width="24" height="22" /><a class="el" href="structswString.html" target="_self">swString</a></td><td class="desc"></td></tr>
-<tr id="row_33_"><td class="entry"><img src="ftv2node.png" alt="o" width="16" height="22" /><img src="ftv2cl.png" alt="C" width="24" height="22" /><a class="el" href="structTree.html" target="_self">Tree</a></td><td class="desc"></td></tr>
-<tr id="row_34_" class="even"><td class="entry"><img src="ftv2node.png" alt="o" width="16" height="22" /><img src="ftv2cl.png" alt="C" width="24" height="22" /><a class="el" href="structTwoDfold__solution.html" target="_self">TwoDfold_solution</a></td><td class="desc">Solution element returned from TwoDfoldList</td></tr>
-<tr id="row_35_"><td class="entry"><img src="ftv2node.png" alt="o" width="16" height="22" /><img src="ftv2cl.png" alt="C" width="24" height="22" /><a class="el" href="structTwoDfold__vars.html" target="_self">TwoDfold_vars</a></td><td class="desc">Variables compound for 2Dfold MFE folding</td></tr>
-<tr id="row_36_" class="even"><td class="entry"><img src="ftv2node.png" alt="o" width="16" height="22" /><img src="ftv2cl.png" alt="C" width="24" height="22" /><a class="el" href="structTwoDpfold__solution.html" target="_self">TwoDpfold_solution</a></td><td class="desc">Solution element returned from TwoDpfoldList</td></tr>
-<tr id="row_37_"><td class="entry"><img src="ftv2lastnode.png" alt="\" width="16" height="22" /><img src="ftv2cl.png" alt="C" width="24" height="22" /><a class="el" href="structTwoDpfold__vars.html" target="_self">TwoDpfold_vars</a></td><td class="desc">Variables compound for 2Dfold partition function folding</td></tr>
+<h1>Data Structures</h1>Here are the data structures with brief descriptions:<table>
+ <tr><td class="indexkey"><a class="el" href="structbondT.html">bondT</a></td><td class="indexvalue">Base pair </td></tr>
+ <tr><td class="indexkey"><a class="el" href="structbondTEn.html">bondTEn</a></td><td class="indexvalue">Base pair with associated energy </td></tr>
+ <tr><td class="indexkey"><a class="el" href="structcofoldF.html">cofoldF</a></td><td class="indexvalue"></td></tr>
+ <tr><td class="indexkey"><a class="el" href="structConcEnt.html">ConcEnt</a></td><td class="indexvalue"></td></tr>
+ <tr><td class="indexkey"><a class="el" href="structconstrain.html">constrain</a></td><td class="indexvalue">Constraints for cofolding </td></tr>
+ <tr><td class="indexkey"><a class="el" href="structCOORDINATE.html">COORDINATE</a></td><td class="indexvalue">This is a workarround for the SWIG Perl Wrapper RNA plot function that returns an array of type <a class="el" href="structCOORDINATE.html" title="this is a workarround for the SWIG Perl Wrapper RNA plot function that returns an...">COORDINATE</a> </td></tr>
+ <tr><td class="indexkey"><a class="el" href="structcpair.html">cpair</a></td><td class="indexvalue">This datastructure is used as input parameter in functions of PS_dot.c </td></tr>
+ <tr><td class="indexkey"><a class="el" href="structduplexT.html">duplexT</a></td><td class="indexvalue"></td></tr>
+ <tr><td class="indexkey"><a class="el" href="structdupVar.html">dupVar</a></td><td class="indexvalue"></td></tr>
+ <tr><td class="indexkey"><a class="el" href="structfolden.html">folden</a></td><td class="indexvalue"></td></tr>
+ <tr><td class="indexkey"><a class="el" href="structinteract.html">interact</a></td><td class="indexvalue"></td></tr>
+ <tr><td class="indexkey"><a class="el" href="structintermediate__t.html">intermediate_t</a></td><td class="indexvalue"></td></tr>
+ <tr><td class="indexkey"><a class="el" href="structINTERVAL.html">INTERVAL</a></td><td class="indexvalue">Sequence interval stack element used in subopt.c </td></tr>
+ <tr><td class="indexkey"><a class="el" href="structLIST.html">LIST</a></td><td class="indexvalue"></td></tr>
+ <tr><td class="indexkey"><a class="el" href="structLST__BUCKET.html">LST_BUCKET</a></td><td class="indexvalue"></td></tr>
+ <tr><td class="indexkey"><a class="el" href="structmodel__detailsT.html">model_detailsT</a></td><td class="indexvalue">The data structure that contains the complete model details used throughout the calculations </td></tr>
+ <tr><td class="indexkey"><a class="el" href="structmove__t.html">move_t</a></td><td class="indexvalue"></td></tr>
+ <tr><td class="indexkey"><a class="el" href="structPAIR.html">PAIR</a></td><td class="indexvalue">Base pair data structure used in subopt.c </td></tr>
+ <tr><td class="indexkey"><a class="el" href="structpair__info.html">pair_info</a></td><td class="indexvalue">A base pair info structure </td></tr>
+ <tr><td class="indexkey"><a class="el" href="structpairpro.html">pairpro</a></td><td class="indexvalue"></td></tr>
+ <tr><td class="indexkey"><a class="el" href="structparamT.html">paramT</a></td><td class="indexvalue">The datastructure that contains temperature scaled energy parameters </td></tr>
+ <tr><td class="indexkey"><a class="el" href="structpath__t.html">path_t</a></td><td class="indexvalue"></td></tr>
+ <tr><td class="indexkey"><a class="el" href="structpf__paramT.html">pf_paramT</a></td><td class="indexvalue">The datastructure that contains temperature scaled Boltzmann weights of the energy parameters </td></tr>
+ <tr><td class="indexkey"><a class="el" href="structplist.html">plist</a></td><td class="indexvalue">This datastructure is used as input parameter in functions of <a class="el" href="PS__dot_8h.html" title="Various functions for plotting RNA secondary structures, dot-plots and other visualizations...">PS_dot.h</a> and others </td></tr>
+ <tr><td class="indexkey"><a class="el" href="structPostorder__list.html">Postorder_list</a></td><td class="indexvalue"></td></tr>
+ <tr><td class="indexkey"><a class="el" href="structpu__contrib.html">pu_contrib</a></td><td class="indexvalue">Contributions to p_u </td></tr>
+ <tr><td class="indexkey"><a class="el" href="structpu__out.html">pu_out</a></td><td class="indexvalue">Collection of all free_energy of beeing unpaired values for output </td></tr>
+ <tr><td class="indexkey"><a class="el" href="structsect.html">sect</a></td><td class="indexvalue">Stack of partial structures for backtracking </td></tr>
+ <tr><td class="indexkey"><a class="el" href="structsnoopT.html">snoopT</a></td><td class="indexvalue"></td></tr>
+ <tr><td class="indexkey"><a class="el" href="structSOLUTION.html">SOLUTION</a></td><td class="indexvalue">Solution element from subopt.c </td></tr>
+ <tr><td class="indexkey"><a class="el" href="structstruct__en.html">struct_en</a></td><td class="indexvalue"></td></tr>
+ <tr><td class="indexkey"><a class="el" href="structsvm__model.html">svm_model</a></td><td class="indexvalue"></td></tr>
+ <tr><td class="indexkey"><a class="el" href="structswString.html">swString</a></td><td class="indexvalue"></td></tr>
+ <tr><td class="indexkey"><a class="el" href="structTree.html">Tree</a></td><td class="indexvalue"></td></tr>
+ <tr><td class="indexkey"><a class="el" href="structTwoDfold__solution.html">TwoDfold_solution</a></td><td class="indexvalue">Solution element returned from TwoDfoldList </td></tr>
+ <tr><td class="indexkey"><a class="el" href="structTwoDfold__vars.html">TwoDfold_vars</a></td><td class="indexvalue">Variables compound for 2Dfold MFE folding </td></tr>
+ <tr><td class="indexkey"><a class="el" href="structTwoDpfold__solution.html">TwoDpfold_solution</a></td><td class="indexvalue">Solution element returned from TwoDpfoldList </td></tr>
+ <tr><td class="indexkey"><a class="el" href="structTwoDpfold__vars.html">TwoDpfold_vars</a></td><td class="indexvalue">Variables compound for 2Dfold partition function folding </td></tr>
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