Full Dataset Scaffold 20/5k

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Scaffold limited to consensus over 20,000p (250 total sequences)

aka Scaffold 20/20k

Blasting to Sigenae8 with modified gap costs

 

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on Inquiry went extremely fast using both blastall and megablast. issue is sigenae5 is the only database on there.

*could try BFX cell.

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Blast worked fine on CLC, however table only produces top hit.

Will redo keeping hits from all (UPDATE: cannot do individual outputs)

and modified settings

These setting run very fast. 

Still not obvious output

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Running on Master node. 

complete

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rerun capturing more hits per query

/common/clcbfxcell/blastall_cell -c cell_sw -v 50 -a 10 -b 1 -p blastn -m 8 -i /Users/safs/Dropbox/Cluster/tmp/Combined_fosmids_cd_hit_mod_20000.fa  -d /common/clcbfxcell/databases/cgigas_all_contigs_v8.fasta > /Users/safs/Dropbox/Cluster/tmp/Combined_fosmids_cd_hit_mod_20000_CgSig8_v2.txt

still only 250 hits return

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will remove -v and -b variables

#WIN

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Try to get on Inquiry and/or submit to Giles.

or maybe aquacul4?

Inquiry #fail

aquacul4 will work (probably) if I format database on aquacul4