Lasergene: Modules |
The SeqMan sequence assembler brings dramatic speed and a huge capacity for large projects to your desktop computers. And with this speed and power, SeqMan brings unsurpassed quality.
SeqMan removes unreliable data, along with contaminating vector and host sequences, automatically. After assembly, SeqMan uses DNASTAR's unique trace quality evaluation scheme to call the most accurate consensus sequence possible. This scheme is so good it reduces the depth of coverage needed for accurate sequence determination, yielding spectacular savings in time and effort. To evaluate and edit the consensus sequence, you can view the consensus, multiple sequences, their underlying traces, and six-frame translation, all lined up in a single window. This enables you to pinpoint sequence errors that your competitors using other assemblers might overlook. And once you have your contigs, you can BLAST them against NCBI's data to gather crucial information about your sequence long before your competitors do.
And remember, the power and sophistication of this high-end application is available on easy-to-use Windows 95/98/NT and Macintosh platforms.
GeneQuest brings powerful gene discovery tools to your desktop computer. Whether your project is small, BAC-sized or even larger, GeneQuest helps you find genes, regulatory elements, patterns and structure in your primary sequence. You can compare sequences with existing data using the integrated BLAST feature,* and find out more about related sequences using the integrated Entrez search tool.* Then, you can use GeneQuest to document your discoveries for your own use, for publication, and for submission to public databases. And since GeneQuest can import both sequence and annotation data directly from Genbank files, you can apply all the gene discovery tools to any public sequences you choose.
Protean brings powerful protein structure analysis tools to your desktop computer. With Protean you can predict and display motifs, secondary structural characteristics and physicochemical properties of proteins using the comprehensive built-in library of analytical methods. Protean can also help you locate antigenic determinants, predict protease digestion patterns, and more. With all the available tools, you can use Protean as your virtual lab before performing costly experiments. And Protean's simple, elegant graphical user interface guides you through the most comprehensive suite of protein analysis tools available. When you find interesting structures, you can use the integrated BLAST tool to search NCBI's databases for related sequences using all or part of your polypeptide as the query. Use Protean to analyze your own sequences, or load and analyze a published sequence directly from NCBI.
This ensemble of six fast alignment algorithms reveals subtle sequence differences and global similarities. MegAlign works with either nucleic acid or polypeptide sequences, and offers a choice of alignment algorithms for each. Enter your own sequences or load public data directly from NCBI.* If you want to find more homologs for alignment, simply select a sequence and run a BLAST* query, then drop in the sequences you want from the hit list. Then use MegAlign to construct phylogenetic trees, or to generate detailed numerical reports of sequence comparisons. Whether you want to compare gene families or sequence pairs, MegAlign offers flexible tools for customizing output for presentation and publication.
PrimerSelect is a comprehensive suite of tools for design and analysis of oligonucleotides, including primers for PCR, sequencing, probe hybridization and transcription. Using DNA, RNA or back-translated proteins as templates, PrimerSelect details thermodynamic properties for annealing reactions. The software lists all possible primers, ranked in order of suitability for your experiments. You can accept PrimerSelect's top choice or view all the options and choose alternatives based on your specialized knowledge. PrimerSelect includes the WorkBench-your virtual lab where you predict the effects your choices will have on reading frames, restriction sites and features. PrimerSelect further assists your decisions by highlighting potential pitfalls in both standard and multiplex PCR experiments. These tools enable you to limit investment in time-consuming and costly experiments to those that have the highest probability of success. PrimerSelect even lets you perform BLAST searches and load sequences directly from NCBI's databases,* so you can easily design primers for any published sequence.
MapDraw brings powerful restriction mapping to your desktop computer. You choose the enzyme sites, and MapDraw displays the results in any of the six different formats, including both linear and circular maps. You can create and save specific sets of enzyme sites, and apply any set separately or in combination. Cloning compatibility filters ensure proper site selection for digestions. Clear explanations of ligation and fill possibilities identify potential cloning problems. MapDraw can display translations of all six reading frames alongside the restriction sites, and even reverse translates polypeptide sequences. You can also view features and annotations, and control the way these are displayed on your maps. If your data are in trace file format, no problem- MapDraw accepts both SCF3 and ABI trace file formats directly. Even if you're looking at a whole bacterial genome, MapDraw can handle it. MapDraw even lets you load sequences directly from NCBI's databases via accession number or the integrated BLAST tool,* so you can easily create maps for any published sequence.
EditSeq is provided with every Lasergene system to enable you to work on nucleic acid and protein sequences of all sizes from a variety of formats, including GenBank, FASTA, MacVector, GCG®, Text, ABI®, ALF®, Staden, clipboard, GeneMan, and of course the highly efficient Lasergene sequence format that DNASTAR established in 1982. You can even access NCBI's databases by accession number or integrated BLAST search tool.* With EditSeq you can manually edit both sequence and annotations, in conveniently separated panes. Available functions include reverse complement, invert, translate, back-translate, and ORF identification. And like all Lasergene applications, EditSeq will handle projects both large and small on the Win95/98/NT or Macintosh computers you already have on your desktop. You can even import sequences as large as whole bacterial genomes.