<?xml version="1.0"?>
<!DOCTYPE rnaml SYSTEM "rnaml.dtd">

<rnaml version="1.0">

   <molecule id="1">
      <sequence>
         <numbering-system id="1" used-in-file="false">
            <numbering-range>
               <start>1</start>
               <end>10</end>
            </numbering-range>
         </numbering-system>
         <numbering-table length="10" comment="sequence number in pdb file">
            1    2    3    4    5    6    7    8    9   10 
         
         </numbering-table>
         <seq-data>
            AUCGAGAGGA 
         </seq-data>
         <seq-annotation comment="?">
         </seq-annotation>
      </sequence>
      <structure>
         <model id="?">
            <model-info>
               <method>Crystallography ?</method>
               <resolution>? Angstroms</resolution>
            </model-info>
            <base>
               <position>1</position>
               <base-type>A</base-type>
               <atom serial="6">
                  <atom-type> O3'</atom-type>
                     <coordinates>31.886 -3.722 19.979</coordinates>
               </atom>
            </base>
            <base>
               <position>2</position>
               <base-type>U</base-type>
               <atom serial="20">
                  <atom-type> P  </atom-type>
                     <coordinates>31.581 -4.531 21.160</coordinates>
               </atom>
               <atom serial="28">
                  <atom-type> O3'</atom-type>
                     <coordinates>36.000 -4.777 23.758</coordinates>
               </atom>
            </base>
            <base>
               <position>3</position>
               <base-type>C</base-type>
               <atom serial="40">
                  <atom-type> P  </atom-type>
                     <coordinates>35.144 -5.787 24.585</coordinates>
               </atom>
               <atom serial="48">
                  <atom-type> O3'</atom-type>
                     <coordinates>37.085 -4.380 29.514</coordinates>
               </atom>
            </base>
            <base>
               <position>4</position>
               <base-type>G</base-type>
               <atom serial="60">
                  <atom-type> P  </atom-type>
                     <coordinates>37.013 -5.928 29.826</coordinates>
               </atom>
               <atom serial="68">
                  <atom-type> O3'</atom-type>
                     <coordinates>36.189 -5.682 35.046</coordinates>
               </atom>
            </base>
            <base>
               <position>5</position>
               <base-type>A</base-type>
               <atom serial="83">
                  <atom-type> P  </atom-type>
                     <coordinates>35.683 -5.995 36.678</coordinates>
               </atom>
               <atom serial="91">
                  <atom-type> O3'</atom-type>
                     <coordinates>31.501 -6.623 39.838</coordinates>
               </atom>
            </base>
            <base>
               <position>6</position>
               <base-type>G</base-type>
               <atom serial="105">
                  <atom-type> P  </atom-type>
                     <coordinates>31.694 -7.923 39.611</coordinates>
               </atom>
               <atom serial="113">
                  <atom-type> O3'</atom-type>
                     <coordinates>26.484 -8.810 41.646</coordinates>
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               <position>7</position>
               <base-type>A</base-type>
               <atom serial="128">
                  <atom-type> P  </atom-type>
                     <coordinates>25.429 -9.931 41.518</coordinates>
               </atom>
               <atom serial="136">
                  <atom-type> O3'</atom-type>
                     <coordinates>21.116 -11.391 40.821</coordinates>
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            </base>
            <base>
               <position>8</position>
               <base-type>G</base-type>
               <atom serial="150">
                  <atom-type> P  </atom-type>
                     <coordinates>20.921 -12.905 40.632</coordinates>
               </atom>
               <atom serial="158">
                  <atom-type> O3'</atom-type>
                     <coordinates>17.357 -15.900 37.960</coordinates>
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            </base>
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               <base-type>G</base-type>
               <atom serial="173">
                  <atom-type> P  </atom-type>
                     <coordinates>17.690 -17.405 37.963</coordinates>
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               <atom serial="181">
                  <atom-type> O3'</atom-type>
                     <coordinates>16.194 -20.354 34.692</coordinates>
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            </base>
            <base>
               <position>10</position>
               <base-type>A</base-type>
               <atom serial="196">
                  <atom-type> P  </atom-type>
                     <coordinates>15.900 -21.845 35.515</coordinates>
               </atom>
               <atom serial="204">
                  <atom-type> O3'</atom-type>
                     <coordinates>17.207 -25.956 34.114</coordinates>
               </atom>
            </base>
            <str-annotation>
               <single-strand>
                  <segment>
                     <seg-name>SG1</seg-name>
                     <base-id-5p><base-id><position>1</position></base-id></base-id-5p>
                     <base-id-3p><base-id><position>3</position></base-id></base-id-3p>
                  </segment>
               </single-strand>
               <single-strand>
                  <segment>
                     <seg-name>SG2</seg-name>
                     <base-id-5p><base-id><position>6</position></base-id></base-id-5p>
                     <base-id-3p><base-id><position>6</position></base-id></base-id-3p>
                  </segment>
               </single-strand>
            </str-annotation>
            <secondary-structure-display comment="x,y coodinates">
               <ss-base-coord>
                  <base-id><position>1</position></base-id>
                  <coordinates>0.000 0.000</coordinates>
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               <ss-base-coord>
                  <base-id><position>2</position></base-id>
                  <coordinates>0.000 29.464</coordinates>
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               <ss-base-coord>
                  <base-id><position>3</position></base-id>
                  <coordinates>0.000 58.929</coordinates>
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               <ss-base-coord>
                  <base-id><position>4</position></base-id>
                  <coordinates>0.000 88.393</coordinates>
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               <ss-base-coord>
                  <base-id><position>5</position></base-id>
                  <coordinates>0.000 137.500</coordinates>
               </ss-base-coord>
               <ss-base-coord>
                  <base-id><position>6</position></base-id>
                  <coordinates>0.000 186.607</coordinates>
               </ss-base-coord>
               <ss-base-coord>
                  <base-id><position>7</position></base-id>
                  <coordinates>0.000 284.821</coordinates>
               </ss-base-coord>
               <ss-base-coord>
                  <base-id><position>8</position></base-id>
                  <coordinates>0.000 333.929</coordinates>
               </ss-base-coord>
               <ss-base-coord>
                  <base-id><position>9</position></base-id>
                  <coordinates>0.000 383.036</coordinates>
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               <ss-base-coord>
                  <base-id><position>10</position></base-id>
                  <coordinates>0.000 432.143</coordinates>
               </ss-base-coord>
            </secondary-structure-display>
         </model>
      </structure>
   </molecule>

   <molecule id="2">
      <sequence>
         <numbering-system id="2" used-in-file="false">
            <numbering-range>
               <start>1</start>
               <end>14</end>
            </numbering-range>
         </numbering-system>
         <numbering-table length="14" comment="sequence number in pdb file">
            1    2    3    4    5    6    7    8    9   10 
           11   12   13   14 
         </numbering-table>
         <seq-data>
            acgauccucu cgau
         </seq-data>
         <seq-annotation comment="?">
            <modification>
               <base-id><position>1</position></base-id>
               <modified-type> DA</modified-type>
            </modification>
            <modification>
               <base-id><position>2</position></base-id>
               <modified-type> DC</modified-type>
            </modification>
            <modification>
               <base-id><position>3</position></base-id>
               <modified-type> DG</modified-type>
            </modification>
            <modification>
               <base-id><position>4</position></base-id>
               <modified-type> DA</modified-type>
            </modification>
            <modification>
               <base-id><position>5</position></base-id>
               <modified-type> DT</modified-type>
            </modification>
            <modification>
               <base-id><position>6</position></base-id>
               <modified-type> DC</modified-type>
            </modification>
            <modification>
               <base-id><position>7</position></base-id>
               <modified-type> DC</modified-type>
            </modification>
            <modification>
               <base-id><position>8</position></base-id>
               <modified-type> DT</modified-type>
            </modification>
            <modification>
               <base-id><position>9</position></base-id>
               <modified-type> DC</modified-type>
            </modification>
            <modification>
               <base-id><position>10</position></base-id>
               <modified-type> DT</modified-type>
            </modification>
            <modification>
               <base-id><position>11</position></base-id>
               <modified-type> DC</modified-type>
            </modification>
            <modification>
               <base-id><position>12</position></base-id>
               <modified-type> DG</modified-type>
            </modification>
            <modification>
               <base-id><position>13</position></base-id>
               <modified-type> DA</modified-type>
            </modification>
            <modification>
               <base-id><position>14</position></base-id>
               <modified-type> DT</modified-type>
            </modification>
         </seq-annotation>
      </sequence>
      <structure>
         <model id="?">
            <model-info>
               <method>Crystallography ?</method>
               <resolution>? Angstroms</resolution>
            </model-info>
            <base>
               <position>1</position>
               <base-type>a</base-type>
               <atom serial="223">
                  <atom-type> O3'</atom-type>
                     <coordinates>48.359 -19.264 34.013</coordinates>
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            </base>
            <base>
               <position>2</position>
               <base-type>c</base-type>
               <atom serial="236">
                  <atom-type> P  </atom-type>
                     <coordinates>47.444 -20.105 32.941</coordinates>
               </atom>
               <atom serial="244">
                  <atom-type> O3'</atom-type>
                     <coordinates>42.020 -22.755 32.977</coordinates>
               </atom>
            </base>
            <base>
               <position>3</position>
               <base-type>g</base-type>
               <atom serial="255">
                  <atom-type> P  </atom-type>
                     <coordinates>40.588 -22.336 32.456</coordinates>
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               <atom serial="263">
                  <atom-type> O3'</atom-type>
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            <base>
               <position>4</position>
               <base-type>a</base-type>
               <atom serial="277">
                  <atom-type> P  </atom-type>
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               </atom>
               <atom serial="285">
                  <atom-type> O3'</atom-type>
                     <coordinates>34.154 -24.046 31.038</coordinates>
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            <base>
               <position>5</position>
               <base-type>u</base-type>
               <atom serial="298">
                  <atom-type> P  </atom-type>
                     <coordinates>34.077 -22.913 30.531</coordinates>
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               <atom serial="306">
                  <atom-type> O3'</atom-type>
                     <coordinates>31.088 -23.124 26.344</coordinates>
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            </base>
            <base>
               <position>6</position>
               <base-type>c</base-type>
               <atom serial="318">
                  <atom-type> P  </atom-type>
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                  <atom-type> P  </atom-type>
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                  <atom-type> O3'</atom-type>
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               <base-type>u</base-type>
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                  <atom-type> P  </atom-type>
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               <atom serial="364">
                  <atom-type> O3'</atom-type>
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               <base-type>c</base-type>
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                  <atom-type> P  </atom-type>
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               <atom serial="384">
                  <atom-type> O3'</atom-type>
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            <base>
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                  <atom-type> P  </atom-type>
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                  <atom-type> P  </atom-type>
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               <atom serial="464">
                  <atom-type> O3'</atom-type>
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                  <atom-type> P  </atom-type>
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                  <atom-type> O3'</atom-type>
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            <str-annotation>
               <single-strand>
                  <segment>
                     <seg-name>SG1</seg-name>
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                     <base-id-3p><base-id><position>4</position></base-id></base-id-3p>
                  </segment>
               </single-strand>
               <single-strand>
                  <segment>
                     <seg-name>SG2</seg-name>
                     <base-id-5p><base-id><position>9</position></base-id></base-id-5p>
                     <base-id-3p><base-id><position>9</position></base-id></base-id-3p>
                  </segment>
               </single-strand>
               <single-strand>
                  <segment>
                     <seg-name>SG3</seg-name>
                     <base-id-5p><base-id><position>12</position></base-id></base-id-5p>
                     <base-id-3p><base-id><position>14</position></base-id></base-id-3p>
                  </segment>
               </single-strand>
            </str-annotation>
            <secondary-structure-display comment="x,y coodinates">
               <ss-base-coord>
                  <base-id><position>1</position></base-id>
                  <coordinates>117.857 550.000</coordinates>
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               <ss-base-coord>
                  <base-id><position>2</position></base-id>
                  <coordinates>117.857 520.536</coordinates>
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               <ss-base-coord>
                  <base-id><position>3</position></base-id>
                  <coordinates>117.857 491.071</coordinates>
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               <ss-base-coord>
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                  <coordinates>117.857 461.607</coordinates>
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               <ss-base-coord>
                  <base-id><position>5</position></base-id>
                  <coordinates>117.857 432.143</coordinates>
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               <ss-base-coord>
                  <base-id><position>6</position></base-id>
                  <coordinates>117.857 383.036</coordinates>
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                  <coordinates>117.857 235.714</coordinates>
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               <ss-base-coord>
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                  <coordinates>117.857 137.500</coordinates>
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               <ss-base-coord>
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                  <coordinates>117.857 88.393</coordinates>
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               <ss-base-coord>
                  <base-id><position>12</position></base-id>
                  <coordinates>117.857 58.929</coordinates>
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                  <base-id><position>13</position></base-id>
                  <coordinates>117.857 29.464</coordinates>
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               <ss-base-coord>
                  <base-id><position>14</position></base-id>
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            </secondary-structure-display>
         </model>
      </structure>
   </molecule>


   <interactions>
            <str-annotation>
               <base-pair comment="?">
                  <base-id-5p>
                     <base-id>
                        <molecule-id ref="1"/><position>4</position>
                     </base-id>
                  </base-id-5p>
                  <base-id-3p>
                     <base-id>
                        <molecule-id ref="2"/><position>11</position>
                     </base-id>
                  </base-id-3p>
                  <edge-5p>+</edge-5p>
                  <edge-3p>+</edge-3p>
                  <bond-orientation>c</bond-orientation>
               </base-pair>
               <base-pair comment="?">
                  <base-id-5p>
                     <base-id>
                        <molecule-id ref="1"/><position>5</position>
                     </base-id>
                  </base-id-5p>
                  <base-id-3p>
                     <base-id>
                        <molecule-id ref="2"/><position>10</position>
                     </base-id>
                  </base-id-3p>
                  <edge-5p>-</edge-5p>
                  <edge-3p>-</edge-3p>
                  <bond-orientation>c</bond-orientation>
               </base-pair>
               <base-pair comment="?">
                  <base-id-5p>
                     <base-id>
                        <molecule-id ref="1"/><position>7</position>
                     </base-id>
                  </base-id-5p>
                  <base-id-3p>
                     <base-id>
                        <molecule-id ref="2"/><position>8</position>
                     </base-id>
                  </base-id-3p>
                  <edge-5p>-</edge-5p>
                  <edge-3p>-</edge-3p>
                  <bond-orientation>c</bond-orientation>
               </base-pair>
               <base-pair comment="?">
                  <base-id-5p>
                     <base-id>
                        <molecule-id ref="1"/><position>8</position>
                     </base-id>
                  </base-id-5p>
                  <base-id-3p>
                     <base-id>
                        <molecule-id ref="2"/><position>7</position>
                     </base-id>
                  </base-id-3p>
                  <edge-5p>+</edge-5p>
                  <edge-3p>+</edge-3p>
                  <bond-orientation>c</bond-orientation>
               </base-pair>
               <base-pair comment="?">
                  <base-id-5p>
                     <base-id>
                        <molecule-id ref="1"/><position>9</position>
                     </base-id>
                  </base-id-5p>
                  <base-id-3p>
                     <base-id>
                        <molecule-id ref="2"/><position>6</position>
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                  <edge-5p>+</edge-5p>
                  <edge-3p>+</edge-3p>
                  <bond-orientation>c</bond-orientation>
               </base-pair>
               <base-pair comment="?">
                  <base-id-5p>
                     <base-id>
                        <molecule-id ref="1"/><position>10</position>
                     </base-id>
                  </base-id-5p>
                  <base-id-3p>
                     <base-id>
                        <molecule-id ref="2"/><position>5</position>
                     </base-id>
                  </base-id-3p>
                  <edge-5p>-</edge-5p>
                  <edge-3p>-</edge-3p>
                  <bond-orientation>c</bond-orientation>
               </base-pair>
               <helix id="H1">
                  <base-id-5p>
                     <base-id>
                        <molecule-id ref="1"/><position>4</position>
                     </base-id>
                  </base-id-5p>
                  <base-id-3p>
                     <base-id>
                        <molecule-id ref="2"/><position>11</position>
                     </base-id>
                  </base-id-3p>
                  <length>2</length>
               </helix>
               <helix id="H2">
                  <base-id-5p>
                     <base-id>
                        <molecule-id ref="1"/><position>7</position>
                     </base-id>
                  </base-id-5p>
                  <base-id-3p>
                     <base-id>
                        <molecule-id ref="2"/><position>8</position>
                     </base-id>
                  </base-id-3p>
                  <length>4</length>
               </helix>
            </str-annotation>
   </interactions>
</rnaml>
