Opening Genbank or FASTA files with multiple sequences as individual sequences

By Chris | Published: September 6, 2019

Many sequence formats contain multiple concatenated sequence entries. For example FASTA and Genbank are two formats capable of storing multiple individual sequences. By default MacVector will treat such sequences as alignments and open them in the Multiple Sequence Alignment editor. Most users who want to open such a file do want to see an alignment. […]

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Opening multiple sequences as alignments or individual sequences

By Chris | Published: April 10, 2018

Many sequence formats contain multiple concatenated sequence entries. For example FASTA and Genbank are two formats capable of storing multiple individual sequences. By default MacVector will treat such sequences as alignments and open them in the Multiple Sequence Alignment editor. Most users who want to open such a file do want to see an alignment. […]

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What can MacVector do for me?

By Chris | Published: April 5, 2018

Here’s what MacVector can do for your lab. Comparing sequences Whatever type of alignment your sequence needs, there’s a tool in MacVector. CRISPR Indel Analysis: Identify insertions and deletions following CRISPR editing of a target. Sequence assembly of NGS data against a reference genome or compare your sequencing against your new construct. Translated Multiple Sequence […]

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101 things you (maybe) didn’t know about MacVector: #49 – Identifying CRISPR Indels

By Kevin | Published: August 17, 2016

If you are screening a set of clones for the presence of changes after a CRISPR experiment, then the MacVector Analyze | Align To Reference functionality is the approach to use. However, you may find that the default parameters are not ideal for this type of analysis – they are tuned for simple sequence confirmation […]

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101 things you (maybe) didn’t know about MacVector: #44 – Opening matching sequences from an Align To Folder search

By Kevin | Published: May 27, 2015

The Database | Align To Folder function is an extremely useful tool to help you find matching sequences on your own local file system. It is essentially a BLAST search of your own private sequence collection – a little slower, but more sensitive. You can use it to easily open all of the sequences you […]

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101 things you (maybe) didn’t know about MacVector: #14 – How To Align Non-Overlapping Protein Fragments Against A Parent Protein

By Kevin | Published: September 24, 2012

The classic algorithm for aligning multiple protein sequences is ClustalW. Normally, it does a great job of aligning related DNA and Protein sequences and can handle thousands of sequences if required. However, one place where it struggles is if you are aligning non-overlapping segments of DNA or Protein against a parental full-length sequence. The reason […]

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Clustering an alignment

By Chris | Published: October 25, 2010

Sometimes it is useful to sort, or cluster, an alignment according to the similarity/identity of its sequences. With such a sorted alignment you are able to more easily visualise closely related sequences as they will be together in an alignment with more distantly related sequences being much further apart. If you want to quickly cluster […]

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Alignments in MacVector

By Kevin | Published: June 12, 2009

Update 19 August 2013: We’ve added support for Muscle and T-Coffee to the MSA editor We get a lot of comments and questions from users on the various alignment functions in MacVector. They say there’s more than one way to skin a cat (not that I’ve done that – I have skinned a catfish, but […]

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