FASTM

• NUCLEOTIDE DATABASES
  • EMBL-Bank
    • EMBL Release
      • EMBL Environmental
        • EMBL EST Environmental
        • EMBL GSS Environmental
        • EMBL HTC Environmental
        • EMBL HTG Environmental
        • EMBL Patent Environmental
        • EMBL Standard Environmental
        • EMBL TSA Environmental
      • EMBL Fungi
        • EMBL EST Fungi
        • EMBL GSS Fungi
        • EMBL HTC Fungi
        • EMBL HTG Fungi
        • EMBL Patent Fungi
        • EMBL Standard Fungi
        • EMBL STS Fungi
        • EMBL TSA Fungi
      • EMBL Human
        • EMBL EST Human
        • EMBL GSS Human
        • EMBL HTC Human
        • EMBL HTG Human
        • EMBL Patent Human
        • EMBL Standard Human
        • EMBL STS Human
      • EMBL Invertebrate
        • EMBL EST Invertebrate
        • EMBL GSS Invertebrate
        • EMBL HTC Invertebrate
        • EMBL HTG Invertebrate
        • EMBL Patent Invertebrate
        • EMBL Standard Invertebrate
        • EMBL STS Invertebrate
        • EMBL TSA Invertebrate
      • EMBL Mammal
        • EMBL EST Mammal
        • EMBL GSS Mammal
        • EMBL HTC Mammal
        • EMBL HTG Mammal
        • EMBL Patent Mammal
        • EMBL Standard Mammal
        • EMBL STS Mammal
        • EMBL TSA Mammal
      • EMBL Mouse
        • EMBL EST Mouse
        • EMBL GSS Mouse
        • EMBL HTC Mouse
        • EMBL HTG Mouse
        • EMBL Patent Mouse
        • EMBL Standard Mouse
        • EMBL STS Mouse
      • EMBL Phage
        • EMBL GSS Phage
        • EMBL HTG Phage
        • EMBL Patent Phage
        • EMBL Standard Phage
      • EMBL Plant
        • EMBL EST Plant
        • EMBL GSS Plant
        • EMBL HTC Plant
        • EMBL HTG Plant
        • EMBL Patent Plant
        • EMBL Standard Plant
        • EMBL STS Plant
        • EMBL TSA Plant
      • EMBL Prokaryote
        • EMBL EST Prokaryote
        • EMBL GSS Prokaryote
        • EMBL HTC Prokaryote
        • EMBL HTG Prokaryote
        • EMBL Patent Prokaryote
        • EMBL Standard Prokaryote
        • EMBL STS Prokaryote
      • EMBL Rodent
        • EMBL EST Rodent
        • EMBL GSS Rodent
        • EMBL HTC Rodent
        • EMBL HTG Rodent
        • EMBL Patent Rodent
        • EMBL Standard Rodent
        • EMBL STS Rodent
        • EMBL TSA Rodent
      • EMBL Synthetic
        • EMBL Patent Synthetic
        • EMBL Standard Synthetic
      • EMBL Transgenic
        • EMBL Standard Transgenic
        • EMBL GSS Transgenic
      • EMBL Unclassified
        • EMBL EST Unclassified
        • EMBL Patent Unclassified
        • EMBL Standard Unclassified
      • EMBL Viral
        • EMBL EST Viral
        • EMBL GSS Viral
        • EMBL HTG Viral
        • EMBL Patent Viral
        • EMBL Standard Viral
        • EMBL TSA Viral
      • EMBL Vertebrate
        • EMBL EST Vertebrate
        • EMBL GSS Vertebrate
        • EMBL HTC Vertebrate
        • EMBL HTG Vertebrate
        • EMBL Patent Vertebrate
        • EMBL Standard Vertebrate
        • EMBL STS Vertebrate
        • EMBL TSA Vertebrate
    • EMBL Updates
    • EMBL Coding Sequence
    • Others
      • EMBL Expressed Sequence Tag
      • EMBL Genome Survey Sequence
      • EMBL High Throughput cDNA
      • EMBL High Throughput Genome
      • EMBL Patent
      • EMBL Standard
      • EMBL Sequence Tagged Site
      • EMBL Transcriptome Shotgun Assembly
      • EMBL Release and Updates
      • EMBL Vectors
  • IMGT
    • IMGT/LIGM-DB
    • IMGT/HLA
    • IPD-KIR
    • IPD-MHC
  • Patents
    • NR Patent DNAs Level-1
    • NR Patent DNAs Level-2
  • Structure
    • Nucleotide Structure Sequences

Enter or paste a DNA RNA sequence in any supported format:

or upload a file:

• PROGRAM
  FASTM

• MATRIX
  N/A
• MATCH/MISMATCH SCORES
  +2/-2 +5/-4 +3/-2 N/A
• GAP OPEN
  -23 -22 -21 -20 -19 -18 -17 -16 -15 -14 -13 -12 -11 -10 -9 -8 -7 -6 -5 -4 -3 -2 -1 0
• GAP EXTEND
  0 -1 -2 -3 -4 -5 -6 -7 -8
• KTUP
  6 5 4 3 2 N/A
• EXPECTATION UPPER VALUE
  1e-600 1e-300 1e-100 1e-50 1e-10 1e-5 0.001 0.1 1 2 5 10 20 50
• EXPECTATION LOWER VALUE
  0 (default) 1e-300 1e-100 1e-50 1e-10 1e-5 0.001 0.1 1 2 5 10 20 50
• DNA STRAND
  N/A both top bottom
• HISTOGRAM
  no yes
• FILTER
  none dust
• STATISTICAL ESTIMATES
  Regress MLE Altshul-Gish Regress/shuf. MLE/shuf.
• SCORES
  10 20 30 40 50 60 70 80 90 100 150 200 250 500 750 1000
• ALIGNMENTS
  10 20 30 40 50 60 70 80 90 100 150 200 250 500 750 1000
• SEQUENCE RANGE
• DATABASE RANGE
• MULTI HSPs
  no yes
• SCORE FORMAT
  Default -m 9 -- with coordinates scores and %identity -m 9C -- with CIGAR alignment -m 9c -- with encoded alignment -m 9i -- with identity and length