TOOLS 

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     SEQUENCE ANALYSIS

 BankIt:   

 

                     Submit sequences to GenBank

 Gene Feature

 

                    Search for features of an in put DNA sequence

 Genome Browser

 

                   Search for a sequence on human genome

 Sequence Massager    

 

                   Format and manipulating nucleic acid sequences, reverse, complement, etc.

 Sequence Pattern Finder

 

                  Locates sequences matching a particular pattern in a given DNA sequence

 Restriction mapper

 

                 Graphical restriction map drawing tool

 Repeat Masker

 

                screens DNA sequences against a library of repetitive elements and returns a masked query sequence as well as a table annotating the masked regions

 Reverse Complement

 

                Converts a DNA sequence into its reverse, complement, or reverse-complement

 Phred

 

                Reads sequence trace data, make base calls and assigns quality values

 Phrap

 

               Program to assemble DNA sequences

 Consed

 

              View and edit sequences to be used in conjunction with Phred and Phrap

 Improbizer

 

              Searches for motifs in DNA or RNA sequences that occur with improbable frequency 

 RepeatMasker

 

             screens DNA sequences against a library of repetitive elements and returns a masked query sequence

 Shuffle

 

            Radomize a input sequence

 Codon Usage

 

           Search the codon usage in various species 

 Ident and Sim

 

           Accepts a group of aligned sequences and calculates the identity and similarity of each sequence pair 

 Filter DNA

 

          Removes non-DNA characters from text 

 GenBank to Fasta

 

         Convert GenBank input to fasta format 
 CpG Islands

 

            Searches for CpG islands in DNA 

 

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