Three files using

http://aquacul4.fish.washington.edu/~steven/ballyhoo/SeaFan_Consensus90230

http://aquacul4.fish.washington.edu/~steven/ballyhoo/Amillepora_jan2012.fasta

http://aquacul4.fish.washington.edu/~steven/ballyhoo/transcripts_Nemve1FilteredModels1


SOURCE:
http://www.bio.utexas.edu/research/matz_lab/matzlab/Data_files/Amillepora_jan2012.zip

http://www.bio.utexas.edu/research/matz_lab/matzlab/Data.html



http://genome.jgi-psf.org/Nemve1/Nemve1.download.ftp.html


Making DB

robertsmac:bin sr320$ ./makeblastdb -in /Volumes/Bay3/Software/ncbi-blast-2.2.26+/db/Amillepora_jan2012 -dbtype nucl -out /Volumes/Bay3/Software/ncbi-blast-2.2.26+/db/ 26+/db/Amillepora_jan2012 



blasting

SF_Amill


./blastn -query /Volumes/Bay3/Software/ncbi-blast-2.2.26+/query/SeaFan_Consensus90230 -db /Volumes/Bay3/Software/ncbi-blast-2.2.26+/db/Amillepora_jan2012 -outfmt 6 -out /Volumes/Bay3/Software/ncbi-blast-2.2.26+/out/SF_Amill_blastnout -task blastn -max_target_seqs 1 -num_threads 1

SF_Amill_blastnout

hits <1.00E-05 = 10939

SF_Amill_hit.txt

SF_Nemve


./blastn -query /Volumes/Bay3/Software/ncbi-blast-2.2.26+/query/SeaFan_Consensus90230 -db /Volumes/Bay3/Software/ncbi-blast-2.2.26+/db/transcripts_Nemve1FilteredModels1 -outfmt 6 -out /Volumes/Bay3/Software/ncbi-blast-2.2.26+/out/SF_Nemve_blastnout -task blastn -max_target_seqs 1 -num_threads 1


SF_Nemve_blastnout


hits <1.00E-05 = 9628
SF_Nemve_hit.txt




Amill_Nemve

./blastn -query /Volumes/Bay3/Software/ncbi-blast-2.2.26+/query/Amillepora_jan2012 -db /Volumes/Bay3/Software/ncbi-blast-2.2.26+/db/transcripts_Nemve1FilteredModels1 -outfmt 6 -out /Volumes/Bay3/Software/ncbi-blast-2.2.26+/out/Amill_Nemve_blastnout -task blastn -max_target_seqs 1 -num_threads 1




Amill_Nemve_blastnout


hits <1.00E-05 = 13024

Amill_Nemve_hit.txt


Nemve_Amill

./blastn -query /Volumes/Bay3/Software/ncbi-blast-2.2.26+/query/transcripts_Nemve1FilteredModels1 -db /Volumes/Bay3/Software/ncbi-blast-2.2.26+/db/Amillepora_jan2012 -outfmt 6 -out /Volumes/Bay3/Software/ncbi-blast-2.2.26+/out/Nemve_Amill_blastnout -task blastn -max_target_seqs 1 -num_threads 2

Nemve_Amill_blastnout

hits <1.00E-05 = 11282

Nemve_Amill_hit.txt


Amill_SF


./blastn -query /Volumes/Bay3/Software/ncbi-blast-2.2.26+/query/Amillepora_jan2012 -db /Volumes/Bay3/Software/ncbi-blast-2.2.26+/db/SeaFan_Consensus90230 -outfmt 6 -out /Volumes/Bay3/Software/ncbi-blast-2.2.26+/out/Amill_SF_blastnout -task blastn -max_target_seqs 1 -num_threads 2

Amill_SF_blastnout

hits <1.00E-05 = 10628


Amill_SF_hit.txt

Nemve_SF

./blastn -query /Volumes/Bay3/Software/ncbi-blast-2.2.26+/query/transcripts_Nemve1FilteredModels1 -db /Volumes/Bay3/Software/ncbi-blast-2.2.26+/db/SeaFan_Consensus90230 -outfmt 6 -out /Volumes/Bay3/Software/ncbi-blast-2.2.26+/out/Nemve_SF_blastnout -task blastn -max_target_seqs 1 -num_threads 1



Nemve_SF_blastnout

hits <1.00E-05 =

Nemve_SF_hit.txt