User:Jose Fabricio Lopez/Notebook/GEDF/2012/09/12: Difference between revisions
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===Loogbook=== | ===Loogbook=== | ||
====BLAST btwn t.at.both vs ncrna==== | =====BLAST btwn t.at.both vs ncrna===== | ||
*No hits found in BLAST btwn t.at.both vs ncrna. | *No hits found in BLAST btwn t.at.both vs ncrna. | ||
<code> | <code> | ||
-evalue 1e-3 -num_alignments 10 -query RealIntergenicBOTH.fas -out BLASTnTotalIntergenicRegionsVsncrnaDB.txt -word_size 4 -outfmt 6 | -evalue 1e-3 -num_alignments 10 -query RealIntergenicBOTH.fas -out BLASTnTotalIntergenicRegionsVsncrnaDB.txt -word_size 4 -outfmt 6 | ||
</code> | </code> | ||
====Augus pred vs TrichodermaFrozen==== | =====Augus pred vs TrichodermaFrozen===== | ||
* 13538 hits found. | * 13538 hits found. | ||
**9326 100% of identity. | **9326 100% of identity. | ||
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TrichodermaAtrovirideV2.aa -evalue 1e-5 -num_alignments 1 -query augustusPredictionTestResults.aa -out BLASTTestAugustusVsTrichodremaFrozenGene.txt -word_size 7 -outfmt 6 | TrichodermaAtrovirideV2.aa -evalue 1e-5 -num_alignments 1 -query augustusPredictionTestResults.aa -out BLASTTestAugustusVsTrichodremaFrozenGene.txt -word_size 7 -outfmt 6 | ||
</code> | </code> | ||
====BLAST e-value 1e-3==== | =====BLAST e-value 1e-3===== | ||
In order to get more hits I run blast again. e-value 1e-3. It is made just in case. Between Agustus predicted and T.at.v2.aa | In order to get more hits I run blast again. e-value 1e-3. It is made just in case. Between Agustus predicted and T.at.v2.aa | ||
Revision as of 13:26, 12 September 2012
Gene Expression and Development in Fungi | <html><img src="http://openwetware.org/images/9/94/Report.png" border="0" /></html> Main project page <html><img src="/images/c/c3/Resultset_previous.png" border="0" /></html>Previous entry<html> </html>Next entry<html><img src="/images/5/5c/Resultset_next.png" border="0" /></html> |
Trichoderma & P. vulgaris interactionThings to doThings doneLoogbookIntergenic sequences in T.atrovirideThings to do
Things done
LoogbookBLAST btwn t.at.both vs ncrna
Augus pred vs TrichodermaFrozen
BLAST e-value 1e-3In order to get more hits I run blast again. e-value 1e-3. It is made just in case. Between Agustus predicted and T.at.v2.aa JGI ESTs trainning
Prediction of 0bp away
Extras |