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Bioinformatics Utilities
Interactive Blast Query
Overview A bioinormatics web utility for interactive online manipulation of Blast results.
Interactive Blast Query Page The Interactive Blast Query uses Ncbi Blast server, and queries the Ncbi Blast database. It adds two output formats to those offered by the Ncbi Blast program, and both of them are interactive, allowing online manipulation of the data. The two interactive formats are:
  • Filter/Sort Hit Table
  • Master/Detail Hit Table
Blastall Batch Utilities
Overview The Blastall Batch Utility is an online web application used for generating command strings and batch files for running the blastall program locally. The interactive user interface lets the user select input files from the local machine, define running parameters, and creates corresponding batch files on the local hard disk.
Blast a Fasta File vs. Another Fasta File This utility generates a batch file (or command string) for running Blast directly on two Fasta files, one serves as a database and the other as a query.
Blast a Fasta File vs. a Blast Database This utility generates a batch file (or command string) for running a Blast query (a Fasta file) vs. a Blast database.
Format a Fasta File as a Blast Database This utility creates a batch file (or command string) for formatting a Fasta file as a Blast database.
Simple Sequence Repeats (SSR) Extractor Utility
Overview Overview and instructions for using the SSR extractor utility.
SSR Extractor The SSR Extractor utility finds simple sequence repeats within DNA sequences (loaded from any local Fasta file) and displays them in a table. The input data is processed according to several user-defined parameters. The output table is interactive and supports filtering, sorting, data re-processing and exporting to CSV format (Excel).
Palindrome Checking Utility
Overview Overview and instructions for using the palindrome checking utility.
Palindrome Checker This utility checks how close a given sequence is to being a palindrome, in the biological sense. A palindrome here means that the complementary string (complementary strand) is the same as the original string, when read from the opposite direction.