DNA Baser 2.10
DNA Baser is a useful program that has been designed as a tool for fast assembly of DNA sequences.
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490.00 
Trial
0K
Windows Vista 
DNA Baser is a useful program that has been designed as a tool for fast assembly of DNA sequences. We had in mind a fast assembly engine and implementation of a number of features that greatly reduce the required user input. These features have been successfully implemented, so that the current version of DNA Baser can assemble 4 trace files with about 800 nucleotides each within 2 seconds on an average system configuration.
End trimming of the original trace files, suggestions for correction of ambiguous bases based on quality values, automatic removal of cloning vector sequences from the final contig are only some examples of fully functional features that makes the assembly of DNA sequences much easier and less time-consuming.
DNA Baser is ideal for assembly of practically any type of sequence, for example the ssu rRNA genes (16 and 18S rRNA), lsu rRNA genes (23 and 28S rRNA), protein genes or genomic fragments. For more detailed information, please switch to the Features page (link to features).
This makes DNA Baser an ideal tool for studies of biodiversity, molecular ecology, sequencing of various functional and structural genes, genomic or metagenomic sequencing, practically any application that is based on cloning and sequencing of DNA.
DNA Baser can use ABI and SCF file types, but also simple text file formats such as TXT, FASTA or SEQ.
We offer the DNA Baser package at a very accessible price, which makes this software easily available for universities, research institutions or private companies that make use of DNA sequencing.
Alignment core features
* Sequences are automatically assembled based on trace files of ABI or SCF formats. The assembly algorithm is very fast: the assembly of four SCF files with 800 nucleotides each takes less than 3 seconds on an average computer (AMD 1.2 GHz)
* The ends of the trace files are automatically trimmed based on their Quality Values (QV); the resolution of the trimming engine can be fully adjusted by the user; this operation saves the user significant time, as manual ‘cleaning’ of the trace sequences is not needed
* The original trace files and the generated contig are synchronized and displayed as such, making the correction of ambiguous bases much easier
* Using QV, DNA Baser makes suggestions for correction of the ambiguous bases; the rate of correct suggestions recorded during testing was more than 90%. This means that the user must only confirm the software’s suggestions, which again decreases the overall processing time
* Reverse-complement: reverse sequences are automatically turned during assembly
* Automatic cut of vector sequence, if you instruct DNA Baser to do so. DNA Baser comes with a database of commonly used vector/primer sequences, database which can be updated by the user according to its own vector/primer sequences. Using these sequences, DNA Baser will remove the vector sequence from the final contig
* Viewing of trace files (format ABI and SCF)
Special features
* Good price and significant discount when several licenses are ordered. Please see the Prices page for more details
* Special kind of license (extended license). Find out more about the extended license here.
* Specially designed interface for fast handling of chromatogram files
* Batch mode assembly: you can instruct BASER to assemble all your trace files distributed in folders while you are in the coffee break
* Conversion between several file formats
* Other special features include User-friendly, colorful and intuitive interface, Skin mode and Audio warning system. The user has full control over the graphic user interface (GUI) and the sounds.
Limitations
tags
dna baser trace files the user are automatically the assembly ambiguous bases much easier and scf practically any abi and for more rrna genes file formats
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Authors software
DNA Baser 2.10
CubicDesign
DNA Baser is a useful program that has been designed as a tool for fast assembly of DNA sequences.
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