https://i12r-studfilesrv.informatik.tu-muenchen.de/wiki/index.php?title=Fabry:Sequence_alignments_(sequence_searches_and_multiple_alignments)&feed=atom&action=history
Fabry:Sequence alignments (sequence searches and multiple alignments) - Revision history
2024-03-29T10:22:21Z
Revision history for this page on the wiki
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Staniewski at 16:05, 9 May 2012
2012-05-09T16:05:08Z
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<td style="background-color: #f8f9fa; color: #222; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"></td>
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<td style="color: #222; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #ffe49c; vertical-align: top; white-space: pre-wrap;"><div>== Introduction ==</div></td>
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<td style="background-color: #f8f9fa; color: #222; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"><div>This page contains our results and discussions. The lab journal can be found [[Fabry:Sequence alignments (sequence searches and multiple alignments):Journal|here]].</div></td>
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<td style="background-color: #f8f9fa; color: #222; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"><div>This page contains our results and discussions. The lab journal can be found [[Fabry:Sequence alignments (sequence searches and multiple alignments):Journal|here]].</div></td>
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<td style="background-color: #f8f9fa; color: #222; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"></td>
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<td style="background-color: #f8f9fa; color: #222; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"><div>== Reference sequence ==</div></td>
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Staniewski
https://i12r-studfilesrv.informatik.tu-muenchen.de/wiki/index.php?title=Fabry:Sequence_alignments_(sequence_searches_and_multiple_alignments)&diff=18577&oldid=prev
Rackersederj: /* Methods */
2012-05-08T05:15:07Z
<p><span dir="auto"><span class="autocomment">Methods</span></span></p>
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<td colspan="2" style="background-color: #fff; color: #222; text-align: center;">Revision as of 05:15, 8 May 2012</td>
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<td class="diff-marker"> </td>
<td style="background-color: #f8f9fa; color: #222; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"></td>
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<td style="background-color: #f8f9fa; color: #222; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"><div>=== Methods ===</div></td>
<td class="diff-marker"> </td>
<td style="background-color: #f8f9fa; color: #222; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"><div>=== Methods ===</div></td>
</tr>
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<td class="diff-marker">−</td>
<td style="color: #222; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #ffe49c; vertical-align: top; white-space: pre-wrap;"><div>Each of the alignment tools ClustalW, Muscle, T-Coffee and 3D-Coffee was run on the three dataset to produce an multiple sequence alignment. The exact commandline calls are listed in our [[Fabry:Sequence alignments (sequence searches and multiple alignments):Journal#Multiple_sequence_alignments |lab journal]]. Since 3D-Coffee needs a structure template and there were no suitable hits with a pdb entry assigned, we searched<del class="diffchange diffchange-inline"> for in pdb</del> for a structure of a homologous sequence. We used the following pdb templates for the three datasets:</div></td>
<td class="diff-marker">+</td>
<td style="color: #222; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #a3d3ff; vertical-align: top; white-space: pre-wrap;"><div>Each of the alignment tools ClustalW, Muscle, T-Coffee and 3D-Coffee was run on the three dataset to produce an multiple sequence alignment. The exact commandline calls are listed in our [[Fabry:Sequence alignments (sequence searches and multiple alignments):Journal#Multiple_sequence_alignments |lab journal]]. Since 3D-Coffee needs a structure template and there were no suitable hits with a pdb entry assigned, we searched for a structure of a homologous sequence<ins class="diffchange diffchange-inline"> in pdb</ins>. We used the following pdb templates for the three datasets:</div></td>
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<td class="diff-marker"> </td>
<td style="background-color: #f8f9fa; color: #222; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"><div>* Set 100: [http://www.uniprot.org/uniprot/Q90744 1KTB]</div></td>
<td class="diff-marker"> </td>
<td style="background-color: #f8f9fa; color: #222; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"><div>* Set 100: [http://www.uniprot.org/uniprot/Q90744 1KTB]</div></td>
</tr>
<tr>
<td class="diff-marker"> </td>
<td style="background-color: #f8f9fa; color: #222; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"><div>* Set 40: [http://www.uniprot.org/uniprot/Q92456 1SZN]</div></td>
<td class="diff-marker"> </td>
<td style="background-color: #f8f9fa; color: #222; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"><div>* Set 40: [http://www.uniprot.org/uniprot/Q92456 1SZN]</div></td>
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Rackersederj
https://i12r-studfilesrv.informatik.tu-muenchen.de/wiki/index.php?title=Fabry:Sequence_alignments_(sequence_searches_and_multiple_alignments)&diff=18576&oldid=prev
Rackersederj: /* Methods */ typo ;)
2012-05-08T05:14:20Z
<p><span dir="auto"><span class="autocomment">Methods: </span> typo ;)</span></p>
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<td colspan="2" style="background-color: #fff; color: #222; text-align: center;">Revision as of 05:14, 8 May 2012</td>
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<td style="background-color: #f8f9fa; color: #222; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"></td>
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<td style="background-color: #f8f9fa; color: #222; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"><div>=== Methods ===</div></td>
<td class="diff-marker"> </td>
<td style="background-color: #f8f9fa; color: #222; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"><div>=== Methods ===</div></td>
</tr>
<tr>
<td class="diff-marker">−</td>
<td style="color: #222; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #ffe49c; vertical-align: top; white-space: pre-wrap;"><div>Each of the alignment tools ClustalW, Muscle, T-Coffee and 3D-Coffee was run on the three dataset to produce an multiple sequence alignment. The exact commandline calls are listed in our [[Fabry:Sequence alignments (sequence searches and multiple alignments):Journal#Multiple_sequence_alignments |lab journal]]. Since 3D-Coffee needs a structure template and there were <del class="diffchange diffchange-inline">not</del> suitable hits with a pdb entry assigned, we searched for in pdb for a structure of a homologous sequence. We used the following pdb templates for the three datasets:</div></td>
<td class="diff-marker">+</td>
<td style="color: #222; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #a3d3ff; vertical-align: top; white-space: pre-wrap;"><div>Each of the alignment tools ClustalW, Muscle, T-Coffee and 3D-Coffee was run on the three dataset to produce an multiple sequence alignment. The exact commandline calls are listed in our [[Fabry:Sequence alignments (sequence searches and multiple alignments):Journal#Multiple_sequence_alignments |lab journal]]. Since 3D-Coffee needs a structure template and there were <ins class="diffchange diffchange-inline">no</ins> suitable hits with a pdb entry assigned, we searched for in pdb for a structure of a homologous sequence. We used the following pdb templates for the three datasets:</div></td>
</tr>
<tr>
<td class="diff-marker"> </td>
<td style="background-color: #f8f9fa; color: #222; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"><div>* Set 100: [http://www.uniprot.org/uniprot/Q90744 1KTB]</div></td>
<td class="diff-marker"> </td>
<td style="background-color: #f8f9fa; color: #222; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"><div>* Set 100: [http://www.uniprot.org/uniprot/Q90744 1KTB]</div></td>
</tr>
<tr>
<td class="diff-marker"> </td>
<td style="background-color: #f8f9fa; color: #222; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"><div>* Set 40: [http://www.uniprot.org/uniprot/Q92456 1SZN]</div></td>
<td class="diff-marker"> </td>
<td style="background-color: #f8f9fa; color: #222; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"><div>* Set 40: [http://www.uniprot.org/uniprot/Q92456 1SZN]</div></td>
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</table>
Rackersederj
https://i12r-studfilesrv.informatik.tu-muenchen.de/wiki/index.php?title=Fabry:Sequence_alignments_(sequence_searches_and_multiple_alignments)&diff=18486&oldid=prev
Staniewski: /* Multiple sequence alignments */
2012-05-07T21:35:02Z
<p><span dir="auto"><span class="autocomment">Multiple sequence alignments</span></span></p>
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<td colspan="2" style="background-color: #fff; color: #222; text-align: center;">Revision as of 21:35, 7 May 2012</td>
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<td style="background-color: #f8f9fa; color: #222; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"><div> tr|G3WK18|G3WK18_SARHA 1e-108 72 0.9388 414</div></td>
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<td style="background-color: #f8f9fa; color: #222; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"><div> tr|G3WK18|G3WK18_SARHA 1e-108 72 0.9388 414</div></td>
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<td class="diff-marker"> </td>
<td style="background-color: #f8f9fa; color: #222; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"><div> tr|H2L5H7|H2L5H7_ORYLA 1e-100 61 0.9534 411</div></td>
<td class="diff-marker"> </td>
<td style="background-color: #f8f9fa; color: #222; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"><div> tr|H2L5H7|H2L5H7_ORYLA 1e-100 61 0.9534 411</div></td>
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<tr>
<td colspan="2" class="diff-empty"> </td>
<td class="diff-marker">+</td>
<td style="color: #222; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #a3d3ff; vertical-align: top; white-space: pre-wrap;"></td>
</tr>
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<td colspan="2" class="diff-empty"> </td>
<td class="diff-marker">+</td>
<td style="color: #222; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #a3d3ff; vertical-align: top; white-space: pre-wrap;"><div>=== Methods ===</div></td>
</tr>
<tr>
<td colspan="2" class="diff-empty"> </td>
<td class="diff-marker">+</td>
<td style="color: #222; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #a3d3ff; vertical-align: top; white-space: pre-wrap;"><div>Each of the alignment tools ClustalW, Muscle, T-Coffee and 3D-Coffee was run on the three dataset to produce an multiple sequence alignment. The exact commandline calls are listed in our [[Fabry:Sequence alignments (sequence searches and multiple alignments):Journal#Multiple_sequence_alignments |lab journal]]. Since 3D-Coffee needs a structure template and there were not suitable hits with a pdb entry assigned, we searched for in pdb for a structure of a homologous sequence. We used the following pdb templates for the three datasets:</div></td>
</tr>
<tr>
<td colspan="2" class="diff-empty"> </td>
<td class="diff-marker">+</td>
<td style="color: #222; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #a3d3ff; vertical-align: top; white-space: pre-wrap;"><div>* Set 100: [http://www.uniprot.org/uniprot/Q90744 1KTB]</div></td>
</tr>
<tr>
<td colspan="2" class="diff-empty"> </td>
<td class="diff-marker">+</td>
<td style="color: #222; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #a3d3ff; vertical-align: top; white-space: pre-wrap;"><div>* Set 40: [http://www.uniprot.org/uniprot/Q92456 1SZN]</div></td>
</tr>
<tr>
<td colspan="2" class="diff-empty"> </td>
<td class="diff-marker">+</td>
<td style="color: #222; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #a3d3ff; vertical-align: top; white-space: pre-wrap;"><div>* set 60: [http://www.uniprot.org/uniprot/P06280 1R46] (which is also the structure of our reference sequence)</div></td>
</tr>
<tr>
<td colspan="2" class="diff-empty"> </td>
<td class="diff-marker">+</td>
<td style="color: #222; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #a3d3ff; vertical-align: top; white-space: pre-wrap;"></td>
</tr>
<tr>
<td colspan="2" class="diff-empty"> </td>
<td class="diff-marker">+</td>
<td style="color: #222; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #a3d3ff; vertical-align: top; white-space: pre-wrap;"><div>However, the structures do not seem to add much valuable information to the alignment, so that the 3D-Coffee alignments were all identical to the one that T-Coffee generated.</div></td>
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<td class="diff-marker"> </td>
<td style="background-color: #f8f9fa; color: #222; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"></td>
<td class="diff-marker"> </td>
<td style="background-color: #f8f9fa; color: #222; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"></td>
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<td style="background-color: #f8f9fa; color: #222; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"><div>=== Results ===</div></td>
<td class="diff-marker"> </td>
<td style="background-color: #f8f9fa; color: #222; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"><div>=== Results ===</div></td>
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Staniewski
https://i12r-studfilesrv.informatik.tu-muenchen.de/wiki/index.php?title=Fabry:Sequence_alignments_(sequence_searches_and_multiple_alignments)&diff=18473&oldid=prev
Staniewski: /* Results */
2012-05-07T21:05:15Z
<p><span dir="auto"><span class="autocomment">Results</span></span></p>
<a href="https://i12r-studfilesrv.informatik.tu-muenchen.de/wiki/index.php?title=Fabry:Sequence_alignments_(sequence_searches_and_multiple_alignments)&diff=18473&oldid=18463">Show changes</a>
Staniewski
https://i12r-studfilesrv.informatik.tu-muenchen.de/wiki/index.php?title=Fabry:Sequence_alignments_(sequence_searches_and_multiple_alignments)&diff=18463&oldid=prev
Staniewski: /* Psi-Blast */
2012-05-07T20:53:04Z
<p><span dir="auto"><span class="autocomment">Psi-Blast</span></span></p>
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<td style="color: #222; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #a3d3ff; vertical-align: top; white-space: pre-wrap;"><div><xr id="fig:psi_overlaps"/> <ins class="diffchange diffchange-inline">shows</ins> the hit set overlaps of the psi-blast runs.</div></td>
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Staniewski
https://i12r-studfilesrv.informatik.tu-muenchen.de/wiki/index.php?title=Fabry:Sequence_alignments_(sequence_searches_and_multiple_alignments)&diff=18435&oldid=prev
Rackersederj: /* ClustalW */
2012-05-07T20:28:50Z
<p><span dir="auto"><span class="autocomment">ClustalW</span></span></p>
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<td colspan="2" style="background-color: #fff; color: #222; text-align: center;">Revision as of 20:28, 7 May 2012</td>
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<td style="background-color: #f8f9fa; color: #222; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"><div>==== ClustalW ====</div></td>
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<td style="background-color: #f8f9fa; color: #222; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"><div>==== ClustalW ====</div></td>
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<td style="color: #222; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #a3d3ff; vertical-align: top; white-space: pre-wrap;"><div>In comparison to the other methods ClustalW seems to find less conserved columns in all three datasets.</div></td>
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<td style="background-color: #f8f9fa; color: #222; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"></td>
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<td style="background-color: #f8f9fa; color: #222; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"><div>===== Set 100 =====</div></td>
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Rackersederj
https://i12r-studfilesrv.informatik.tu-muenchen.de/wiki/index.php?title=Fabry:Sequence_alignments_(sequence_searches_and_multiple_alignments)&diff=18342&oldid=prev
Staniewski: /* Psi-Blast */
2012-05-07T18:19:25Z
<p><span dir="auto"><span class="autocomment">Psi-Blast</span></span></p>
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<td style="color: #222; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #a3d3ff; vertical-align: top; white-space: pre-wrap;"><div><figure id="fig:psi_go_comparison_10its_1e-9"></div></td>
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<td style="color: #222; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #ffe49c; vertical-align: top; white-space: pre-wrap;"><div>[[File:Fabry ids psiblast 10its eVal 1e-9 GOterms comparison.png|thumb|250px|<caption>GO terms of P06280 and each Psi-BLAST hit (with Evalue ≤ 1e-9) compared</caption>.</div></td>
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<td style="color: #222; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #a3d3ff; vertical-align: top; white-space: pre-wrap;"><div>[[File:Fabry ids psiblast 10its eVal 1e-9 GOterms comparison.png|thumb|250px|<caption>GO terms of P06280 and each Psi-BLAST hit (with Evalue ≤ 1e-9) compared.</div></td>
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<td style="color: #222; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #ffe49c; vertical-align: top; white-space: pre-wrap;"><div>Percentage terms shared, in relation to number of GO terms of P06280 (AGAL_HUMAN) in the upper picture, in the second picture in relation to the number of each hit]]</div></td>
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<td style="color: #222; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #a3d3ff; vertical-align: top; white-space: pre-wrap;"><div>Percentage terms shared, in relation to number of GO terms of P06280 (AGAL_HUMAN) in the upper picture, in the second picture in relation to the number of each hit</caption>]]</div></td>
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Staniewski
https://i12r-studfilesrv.informatik.tu-muenchen.de/wiki/index.php?title=Fabry:Sequence_alignments_(sequence_searches_and_multiple_alignments)&diff=18337&oldid=prev
Staniewski: /* Psi-Blast */
2012-05-07T18:17:25Z
<p><span dir="auto"><span class="autocomment">Psi-Blast</span></span></p>
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<td colspan="2" style="background-color: #fff; color: #222; text-align: center;">Revision as of 18:17, 7 May 2012</td>
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<td style="background-color: #f8f9fa; color: #222; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"></td>
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<td style="background-color: #f8f9fa; color: #222; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"></td>
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<td style="color: #222; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #ffe49c; vertical-align: top; white-space: pre-wrap;"><div>[[File:<del class="diffchange diffchange-inline">ids_psiblast_10th_round_GOterms_comparison</del>.png|thumb|250px|<del class="diffchange diffchange-inline"> </del>GO terms of P06280 and each Psi-BLAST hit (with Evalue <del class="diffchange diffchange-inline"><=</del> <del class="diffchange diffchange-inline">0.003</del>) compared.</div></td>
<td class="diff-marker">+</td>
<td style="color: #222; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #a3d3ff; vertical-align: top; white-space: pre-wrap;"><div>[[File:<ins class="diffchange diffchange-inline">Fabry ids psiblast 10its eVal 1e-9 GOterms comparison</ins>.png|thumb|250px|<ins class="diffchange diffchange-inline"><caption></ins>GO terms of P06280 and each Psi-BLAST hit (with Evalue <ins class="diffchange diffchange-inline">≤</ins> <ins class="diffchange diffchange-inline">1e-9</ins>) compared<ins class="diffchange diffchange-inline"></caption></ins>.</div></td>
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<td style="background-color: #f8f9fa; color: #222; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"><div>Percentage terms shared, in relation to number of GO terms of P06280 (AGAL_HUMAN) in the upper picture, in the second picture in relation to the number of each hit]]</div></td>
<td class="diff-marker"> </td>
<td style="background-color: #f8f9fa; color: #222; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"><div>Percentage terms shared, in relation to number of GO terms of P06280 (AGAL_HUMAN) in the upper picture, in the second picture in relation to the number of each hit]]</div></td>
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Staniewski
https://i12r-studfilesrv.informatik.tu-muenchen.de/wiki/index.php?title=Fabry:Sequence_alignments_(sequence_searches_and_multiple_alignments)&diff=18238&oldid=prev
Rackersederj: /* Results */
2012-05-07T15:34:25Z
<p><span dir="auto"><span class="autocomment">Results</span></span></p>
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<td style="background-color: #f8f9fa; color: #222; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"></td>
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<td style="background-color: #f8f9fa; color: #222; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"><div>=== Results ===</div></td>
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<td style="background-color: #f8f9fa; color: #222; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"><div>=== Results ===</div></td>
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<td style="color: #222; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #ffe49c; vertical-align: top; white-space: pre-wrap;"><div>Maybe only interesting parts or the active site...? --[[User:Rackersederj|Rackersederj]] 13:07, 5 May 2012 (UTC) ... Active site (D170 and D231) and partly the surrounding parts are highly conserved! Functional sites... maybe also Glycosylation site (139,192,215,408) and Disulfide bonds (52 ↔ 94, 56 ↔ 63, 142 ↔ 172, 202 ↔ 223, 378 ↔ 382)</div></td>
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<td style="background-color: #f8f9fa; color: #222; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"></td>
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<td style="background-color: #f8f9fa; color: #222; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"><div>==== ClustalW ====</div></td>
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<td style="background-color: #f8f9fa; color: #222; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"><div>==== ClustalW ====</div></td>
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Rackersederj