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Alignment in macvector3/28/2023 ![]() ![]() To download and save hits, select hits and click TO DISKĪligning a sequence against a folder of local sequencesĪlign to Folder allows you to scan a local folder full of sequences and align them using the FastA alignment algorithm.To retrieve hits select the hits and click TO DESKTOP.You can download any hits directly to your Desktop including all annotations. Its kind of like a local BLAST, but more sensitive. Choose a folder of sequences and click ALIGN.This requires our optional Assembler add-on. Use this if you want to align ten or more DNA sequences with the idea of assembling them into a longer sequence with a consensus (de novo) or for aligning reads against a reference (resequencing). Add your sequencing reads and also any reference sequences.Primer Database.lets you automatically map your primer collection to any sequence you open. Go to MACVECTOR > PREFERENCES > SCAN DNA FOR.MacVectorTip: How to copy a specific short amino acid translation of a sequence.Simulating DNA electrophoresis in agarose gels using MacVector’s Agarose Gel tool. ![]() MacVectorTip: How to find Restriction Enzymes that only cut outside of a specific region.Getting Started with MacVector: An overview of primer design workflows in MacVector.PCR primer sets were designed to target nrfA, the gene encoding the pentaheme nitrite reductase NrfA that catalyzes the nitrite ammonification step in the process of dissimilatory nitrate reduction to ammonium (DNRA).Melissa Caimano on HOW DO I video guides to common molecular biology workflows.admin on HOW DO I video guides to common molecular biology workflows.mariam abdelmalak on Major release details – Summary.Brian on Designing primers and documenting In-Fusion Cloning with MacVector.Chris on Designing primers and documenting In-Fusion Cloning with MacVector.MacVectorTip: Designing Primers for Gibson Assembly.MacVectorTip: Simulating mixed plasmid populations in agarose gels. Details of the nucleotide alignments of the primer target regions of 271 nrfA sequences from reference genomes representing 18 distinct clades of NrfA are shown here along with validation of application to PCR-based methodology including the use of amplified fragment length polymorphism (AFLP) profiling and Illumina platform amplicon-based sequencing of environmental samples and selected reference strains. Summary data tables illustrate the specificity of forward primers nrfAF2awMOD and nrfAF2awMODgeo when paired with the new reverse primer nrfAR1MOD in relation to consensus target reference sequences associated with members of 18 NrfA clades. Specificity of the new primers to nrfA sequences in environmental samples is shown in AFLP analysis and amino acid-translated amplicon sequences obtained with the new primer sets. We also provide sequence alignment files of the full length nrfA genes, PCR reference amplicon alignment, NrfA amino-acid alignment and NrfA translated PCR amplicon-amino acid alignment. ![]()
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