General musings from the MacVector team about sequence analysis, molecular biology, the Mac in general and of course your favorite sequence analysis app for the Mac!

Tag Archives: weeklytip

Subscribe to Weekly Tips

A few tips on working with digested fragments in the Cloning Clipboard

Annotating the sequence in the Editor tab

Assemble bacterial genomes in minutes on your Mac laptop

Calculating the melting temperature of PCR primers

Calculating the PCR annealing temperature for a pair of primers

Changing the sequence alignment match and mismatch characters

Clearing the history in the Primer and Find dialogs

Clone construction using Digest/Ligate rather than Copy/Paste

Clone construction using Digest/Ligate rather than Copy/Paste

Controlling Automatic ORF Display

Controlling The Automatic ORF Display in MacVector 15.5

Controlling The Automatic ORF Display in MacVector 15.5

Controlling the realism of Agarose Gels

Create constructs using the Cloning Clipboard

Create your own Primer Database.nsub from an Excel spreadsheet

Creating a custom set of restriction enzymes containing just the enzymes in your freezer drawer.

Creating cloning construction flowcharts in third party applications

Customizing BLAST alignment results to make mismatches more noticeable

Designing and documenting cloning strategies

Displaying CDS features as translations in the Map tab.

Displaying CDS features as translations in the Map tab.

Displaying features in the Editor tab

Download the latest published version of your favorite sequence with its accession number

Download the latest published version of your favorite sequence with its accession number

Downloading BLAST Hits from the NCBI

Downloading BLAST Hits from the NCBI direct to your desktop

Downloading hits from the MacVector 15.5 BLAST Map results tab

Downloading hits from the MacVector BLAST Map results tab

Drag and drop to quickly annotate ORFs

Editing the appearance of your sequence maps

Functional domain analysis of protein sequences using InterProScan

Generating a primer report to send to your Oligo Synthesis service

Generating a primer report to send to your Oligo Synthesis service

Highlighting sequence using color and lower case in the Editor tab

How to align DNA sequences based on their amino acid translations

How to automatically annotate bare sequences

How to change the circular origin of a sequence

How to change the default appearance of features

How to change the default appearance of RE sites

How to display and manipulate segmented Features

How to display translations in the sequence editor

How to find and open all the sequences on your computer containing a specific gene.

How to Identify Bacterial Promoters Using MacVector

How to identify methylation blocked Restriction Sites

How to import annotated GenBank sequences via copy and paste

How to increase the number of graphics levels to stop features overlapping.

How to increase the number of graphics levels to stop features overlapping.

How to make feature arrows point in the other direction

How to remove gaps from a sequence

How to reset the graphics palette if it disappears

How to reset the numbering after pasting a DNA fragment

How to reset the sequence numbering when working with a subsection from a larger sequence

How to reset the zoom level when you Drag Zoom into your sequence.

How to retrieve BLAST hits from the Aligned Sequences result tab

How to save contig consensus sequences from assembly projects

How to select all identical restriction enzyme sites

How to toggle between 1 and 3 letter amino acid codes

How to toggle between 1 and 3 letter amino acid codes

How to use Codon Preference plots

Import Multi-Sequence Genbank Files into an Assembly Project for easy access to Features

Importing sequences/features from websites such as ENSEMBL or UCSC’s Genome Browser

Keep up to date with MacVector auxiliary files

Know Your Alignments

MacVector’s compatibility with different versions of macOS/OS X

Opening matching sequences from an Align To Folder search

Opening multiple sequences as alignments or individual sequences

Optimizing the Reverse Translation function

Organising your sequences using Smart Folders

Print Agarose Gel images with black bands on a white background

Quick shortcuts to zoom in and out in the Single Sequence Map tab

Quickly checking a small sequencing project

Quickly design a pair of primers to amplify a feature

Removing a restriction site from a plasmid with the Cloning Clipboard

Restriction enzyme analysis in MacVector and REBASE

Restriction enzyme sites and tooltips

Restriction enzyme sites in cloning vectors show compatible ends with fragments in the Cloning Clipboard

RNASeq Expression Analysis with NGS data

Save trace files as images

Screening for CRISPR Indels using Align To Reference

Search fastq files and retrieve matching reads into paired fastq files

Selecting sequence residues in the Map tab

Simple Assembly of Sanger Sequencing Files with MacVector Assembler

Simple but accurate restriction enzyme based clone construction using Copy and Paste

Smart Folders and MacVector

Subscribe to Weekly Tips

Tear-off Result Window Tabs

Tear-off Result Window Tabs: make viewing results easier.

Tear-off Result Window Tabs: make viewing results easier.

Test PCR Primer Pairs using the Primer Design (Primer3) Interface

Testing pairs of PCR primer

Testing pairs of primers

The easiest way to get graphics out of MacVector

The Importance of Topology

The simplest way to export high quality graphics from the Map tab

Tips for finding ORFs in your sequence

Troubleshooting problems with MacVector

Troubleshooting problems with MacVector

Tweak your DNA Matrix for better Align To Folder searches with primers

Use a right-click in the Contig Editor tab to see if your contig can be circularized

Use Analyze -> Align To Reference to align ABI trace files