Advanced Blast 2.0

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Description of the BLAST 2.0

BLAST FAQs

Basic BLAST 2.0

DataBases

Protein DataBases [blastp or blastx] Swissprot Swissprot + Trembl

Nucleotide DataBases including EST [blastn, tblastn or tblastx] Human Rodentes Other Mammals Other Vertebrates Invertebrates Plants Fungi Prokaryotes Organelles Viruses Bacteriophage Human HTGs Invertebrate HTGs Mus musculus HTGs Plant HTGs Rodent HTGs Other HTGs Fungi GSSs Human GSSs Invertebrate GSSs Mammals GSSs Plant GSSs Prokaryote GSSs Mus musculus GSSs Vertebrate GSSs Other GSSs Synthetic Unclassified EST Human EST Rodentes EST Other Mammals EST Other Vertebrates EST Invertebrates EST Plants EST Fungi EST Prokaryotes

Program blastp blastn blastx tblastn tblastx

Matrix BLOSUM45 BLOSUM50 BLOSUM80 BLOSUM62 PAM30 PAM70

Your EMAIL

Alignment View pairwise M/S identities M/S no identities Flat identities Flat non-identities

Expect default 0.0001 0.01 0.1 1.0 10 100 1000	Filter Yes No	Query Strand both top bottom	Nucleotide penalty	Number Of Scores default 5 10 20 50 100 150 200 250
Perform Gapped Alignment Yes No	OpenGap default 5 6 7 8 9 10 11 12 13 14 15 16 17 18 19	ExtendGap default 1 2 3	DropOff default 0 2 4 6 8 10	Number Of Alignments default 5 10 20 50 100 150 200 250

Other advanced Blast 2.0 options for experts

Enter or Paste here your sequence in FASTA format

\n";
#      passthru ("./blastall $opt_email -p $program $database $seq_file -a 2 $use_matrix");
      passthru ("./blastall $opt_email -p $program $database $seq_file -a 2 $use_matrix -m $align -e $exp -F $filter -S $strand $use_nucpenal -v $scores -g $gapalign -G $opengap -E $extendgap -X $dropoff -b $numal $otherop");
      echo "