Repetitive Dna Sequences

Serial Cloner is a light molecular biology software. Serial Cloner reads and write DNA Strider-compatible files and import and export files in the universal FASTA format (as well as in pDRAW32 format). Powerful graphical display tools and simple interfaces help the analysis and construction steps...

Main Workbench includes all features from CLC DNA Workbench, CLC RNA Workbench, and CLC Protein Workbench, as well as a range of Gene Expression Analysis. CLC Main Workbench creates a software environment enabling users to make a large number of advanced protein sequence analyses, combined with...

NCBI has an implementation of BLAST algorithm on their website at www.ncbi.nlm.nih.gov/BLAST, which is good if you want to query short DNA or protein sequence against various sequence databases. The problem arises when large sequences need to be BLAST'ed against a sequence database or against...


Platforms: Matlab

DNADynamo sequence analysis software is easy to use. It's user interface is focused on your DNA sequences, proteins and restriction enzyme sites. Sequencing data, oligonucleotide sequences, DNA/Protein annotations and notes can be added to each sequence. Information is accessible whenever it is...


Platforms: Mac

Ridom TraceEdit is a cross-platform graphical DNA trace viewer and editor. TraceEdit displays the chromatogram files from Applied Biosystems automated sequencers and files in the Staden SCF format. Incorrect base calls can be edited and saved. TraceEdit is freely available and designed to operate...


Platforms: Mac

FSA is a probabilistic multiple sequence alignment algorithm which uses a "distance-based" approach to aligning homologous protein, RNA or DNA sequences.


Platforms: *nix

Bowtie is an ultrafast, memory-efficient short read aligner. It aligns short DNA sequences (reads) to the human genome at a rate of over 25 million 35-bp reads per hour. Bowtie indexes the genome with a Burrows-Wheeler index to keep its memory footprint small: typically about 2.2 GB for the human...


Platforms: *nix

Algorithm::NeedlemanWunsch is a sequence alignment with configurable scoring. SYNOPSIS use Algorithm::NeedlemanWunsch; sub score_sub { if (!@_) { return -2; # gap penalty } return ($_[0] eq $_[1]) ? 1 : -1; } my $matcher = Algorithm::NeedlemanWunsch->new(&score_sub); my $score =...


Platforms: *nix

The Adonis Effect The Adonis Effect is all about getting the body that females instinctively desire. The idea of the program is that the ratio of your shoulder to your waist should be equal to the ?Golden Ratio?, which is 1.618. The Golden Ratio is seen throughout nature such as in the...


Platforms: Windows

GATA is a graphic alignment tool for comparative sequence analysis. It makes use of BLAST to graphically align two DNA sequences, creating box- line- box representations of window scored local alignments. GATA also displays extensive GFF gene annotation.


Platforms: Windows, Mac, Linux

SimBac is a software package for simulating bacterial genome evolution. It outputs samples of DNA sequences at each generation & allows testing of major evolutionary mechanisms, including mutation, recombination, genetic drift, and natural selection.


Platforms: Windows, Mac, Linux

OligoCounter is a Java command line program which counts overrepresented 8-14bp oligonucleotides in DNA sequences. These oligos can be useful in visualising small genomes on a global basis (see figure below), investigating repeats at certain regions, and for attributing short reads (for example...


Platforms: Mac

PriorsEditor is a general workbench for regulatory region analysis and transcription factor binding site discovery. The program emphasizes the use of positional priors to focus the search for binding sites towards portions of DNA sequences that are considered more likely to contain true...


Platforms: Mac

This 30 days fully functional demo of CLC DNA Workbench provides a wide range of advanced DNA sequence analyses, and is based on the same user-friendly and integrated software environment as CLC Free Workbench. Some analyses are: - Assembly of DNA sequencing data - Graphically and...


Platforms: Mac

OnScreen DNA By-the-Day is a special version of OnScreen DNA which can be licensed in 24-hour chunks at the rate of $9.99 per day.OnScreen DNA is interactive 3D visualization software that models the double helix of DNA and how it works in gene transcription and replication.The By-the-Day version...


Platforms: Mac

ReverseComplement is a handy, easy to use, simple application specially designed to help you determine the reverse, complement, and reverse complement of DNA and RNA sequences.


Platforms: Windows

How well can you visualize the 3D structure of the DNA molecule? Can you spot erroneous depictions of DNA as a left-handed double helix? If you're not satisfied with your level of understanding of DNA structure or would like to have at your fingertips an instant memory refresher for which...


Platforms: Mac

Support multi-core CPU, multi-threading and batch conversion, unique conversion speed and high quality of audio and video; You can also set the number of CPU cores, custom conversion speed. various preset programs, once output to multiple files in different formats or parameters set for the same...


Platforms: Windows

The usual approach to merging is to loop through both sequences taking the smallest from each until they are both exhausted. Python's "timsort" function detects order in underlying sequences and will run a C speed merge on the data. So, all that is involved is concatenating the sequences and...


Platforms: Windows, Mac, *nix, Python, BSD Solaris

Padding variable length sequences script returns a pad function that implements tuple unpacking.


Platforms: Windows, Mac, *nix, Python, BSD Solaris