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: subsequences

Use Analyze->Primer Database Search to scan sequences for primer binding sites

It’s easy to keep track of all your primers using a MacVector subsequence (.nsub) file. We even ship MacVector with a starter file called “Primer Database.nsub” that you can find in the /Applications/MacVector/Subsequences/ folder. If you choose Analyze | Primer Database Search… and use this default file to search pUC19, you’ll find many of the […]

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Using the Primer Database to store your lab’s collection of primers

MacVector’s Primer Database allows you to save and retrieve primers from a Primer Database with the Primer3 and Quicktest Primer tools. You can also scan sequences for potential primer binding sites using Primer Database Search. The tool comes with a starter database of primers, but you can use existing subsequence files or import primers from […]

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Using the Primer Database to store your lab’s collection of primers

MacVector 14 saw the introduction of the new Primer Database tool. This allows you to save and retrieve primers from the Primer Database from the Primer3 and Quicktest Primer tools. You can also scan sequences for potential primer binding sites. The tool comes with a starter database of primers, but you can use existing subsequence […]

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Using the Primer Database to store your lab’s collection of primers

MacVector now directly supports storing primers within a primer database. The Primer Database tool allows you to save and retrieve primers from subsequence files within Primer3 and Quicktest Primer. You can easily create your own primer database, use existing files or import primers from Excel. Many users use subsequence files to store primers, and in […]

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101 things you (maybe) didn’t know about MacVector: #17 – Creating A Primer Database From An Excel File

Following on from my last post, and Nick’s comment that if you already have a primer collection, its not really practical to re-type them all into MacVector, one-by-one, here’s a useful tip to simplify that process. We have a utility called PrimerConverter.app that you can download from our website. You do need to be using […]

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101 things you (maybe) didn’t know about MacVector: #16 – Using A Primer Database

If you have accumulated a collection of primers in your freezer, then you should consider storing the sequences in a primer database within MacVector so that you can rapidly scan any new plasmids for potential primer binding sites. Plus, you’ll have a nice electronic record of all your primer sequences. Start by choosing File | […]

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Using old subsequence files with MacVector

Sometimes when a subsequence file, that has been created by an version of MacVector prior to MacVector 11, has been stored on a remote filesystem or has been emailed MacVector will refuse to open the file. Mac files are generally comprised of two pieces: A data fork and the resource fork. Prior to the release […]

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Creating your own subsequence library of primers

As mentioned in a recent post MacVector has a powerful feature called Subsequence searches. This function allows you to keep a library of sequence pattern matches, using a powerful nomenclature with up to three parts, and quickly scan protein and nucleic acid sequences with this library. .Although MacVector ships with a number of collections of […]

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