Hosted BLAST servers

A server for flexible BLAST analysis and visualization of your data accelerates your research. However, setting it up means worrying about hardware, software, network ports, passwords, security, power outages, and updates.
We take care of everything. So that you and your colleagues can focus on the science.

Our BLAST servers include

  • SequenceServer 2.01 with advanced visualizations2 and download options
  • Upload any number of genomes, transcriptomes, and proteomes
  • Customizable address, accessible worldwide from Windows, Mac & Linux
  • Professional security so only you and your group can access it
  • Automatic CPU scaling based on query and database size
  • Free automatic upgrades
  • 30-day money back guarantee

How it works

  • Name your server (e.g.,
  • Select a plan and pay
  • Provide DNA & protein sequences and your team's email addresses
  • Your secure server should be up and running within minutes
  • BLAST away - your server is accessible worldwide 24/7
  • Add/remove databases or users anytime using the point-and-click administrator dashboard; or email us for any assistance

Choose a plan to get started

Private password-protected BLAST servers
$29 $19/month
(billed annually)

For individuals

Group (popular)
$69 $49/month
(billed annually)

Teams of up to 10

$119 $79/month
(billed annually)

Teams of up to 25

Custom linking of BLAST hits

$209 $159/month
(billed annually)

Teams of up to 200

Custom linking of BLAST hits

Customised visual design

Custom domain

Priority support

Public database

Custom domain

Customised visual design

Custom linking of BLAST hits

Hosting of additional webpages

Choose a name for your server

Have a custom requirement?

Frequently Asked Questions (FAQ)

  • Do you offer discounts for students or for academic researchers?
    • Yes, we currently do.
    • If you are a student, you can subscribe to a solo plan at half price using the discount code Student50off. Within ten days of signing up, please send us an email with a photo of your student id.
    • For other academics, we provide a 25% discount for solo, group, and small public subscriptions if your lab's consumables and equipment budget is less than 50,000 euros annually. Use discount code LowIncomeAcademia. Subsequently, please send us an email self-certifying that the lab fulfills the expenditure criterion.
  • How do I provide my sequence databases?
    • Your SequenceServer instance has a graphical administrator dashboard that allows you to upload sequence databases from your local computer or from another machine. You can upload individual FASTA files (raw or .gz or .zip compressed), formatted BLAST databases, or archives (.zip or .tar.gz) of multiple FASTA files or databases.
    • We will appropriately format each FASTA file into a BLAST database.
    • Instead, you could provide a Dropbox/Google Drive share, or a set of http or ftp links. If, for example, you have your data in DropBox, generating that type of link is easy. We can also provide a secure ftp upload link.
  • What if I want a database to have a different title than its filename?
    • First, we will convert all '_' and '-' to spaces.
    • But if you want to change your database names even more, the easiest is to rename your fasta files before uploading them. Alternatively, you can specify the display name in the upload interface. If you want to do things in an automated fashion, you can alternatively provide a .title file alongside your fasta file. For example if your genome assembly is `Best_species_masurca_2021-11-yw.fasta`, the accompanying file can be `Best_species_masurca_2021-11-yw.fasta.title`. That .title file should simply include the text you want to use as a title, for example Best species genome 1.0. This can be handy if you're uploading many files
  • How many databases can I include?
    • We have no hard limits on numbers of databases. However, we must have a fair usage policy to ensure quality of service for all users. Most people need not worry, as you similarly don't need to worry about the fair usage policy of your internet or mobile phone providers.
    • An example of a setup that would go against our fair usage policy could be to run BLAST of 10,000,000 queries against NR every few days (and anyways BLAST is unlikely to be the most appropriate algorithm for that type of search).
  • How many BLAST searches can I run?
    • For private databases, we have no hard limits on numbers of searches or query sizes. However, we must of course have a fair usage policy to ensure quality of service for all users. This is similar to the fair usage policy that your internet provider provides, and thus the vast majority of potential users won't have to worry about anything.
    • If you suspect that your needs may be exceedingly high, please don't hesitate to reach out
  • What do I need to do to add, remove, or change genomes, proteomes or transcriptomes? What about adding/removing users? How often often can I update databases or users?
    • We have a graphical user interface dashboard that enables the administrator of an instance to easily add and remove databases and users. Some screenshots here
    • You can make as many changes as you want, as often as you want.
  • Which versions of SequenceServer and BLAST does the cloud service use?
    • We run the latest stable version of SequenceServer 2. and of NCBI BLAST+. We continually roll out upgrades so your analyses benefit from the highest sensitivity, specificity, visualizations and download options.
    • We know that for specific projects it can be helpful to freeze your analyses to specific versions of BLAST and SequenceServer. Get in touch if you need this.
  • Can I go back to a previous BLAST result?
    • Yes, BLAST search results remain at their URL - the https address at the top of the page. How long the results are retained for depends on your plan: 7 days for Solo, 30 days for the Group plan and for public databases, one year for Pro and Business subscription plans.
  • Can I share my BLAST results?
    • Feel free to share the https URL at the top of the page with others who also have access to your password-protected BLAST instance. Alternatively, save your BLAST report using the built-in functionality of your web browser (save as a PDF or as a Web archive). Additionally, you can export the raw data (in table or XML formats). Finally, you can easily download figures from the BLAST report in publication ready PNG or SVG formats.
  • How will I access my SequenceServer?
    • Through a web browser, at (with dashes, or underscores or not - as long as nobody else is using it.
  • Do I need to enter my password every time I want to do a BLAST search?
    • No, we use a cookie in your browser to remember that you previously logged in successfully.
  • Is it possible to further restrict access to a private SequenceServer instance?
    • Yes, we can, for example, additionally restrict access based on IP or other constraints. In some cases, we can integrate with company-specific single-sign-on authentication systems.
  • I run the web site. Could I embed a hosted SequenceServer in my web page?
    • Yes, if we run, there are essentially four manners through which you can integrate it with your website. We can help with each of them
    • First, you can simply use iframe embedding. This works (surprisingly well).
    • Second, you can change DNS records to make, or even simply be synonymous with We can change the identity of what we are serving so it reflects the name you prefer.
    • Third, we can pass information on the server side, by modifying your webserver's configuration file. If, for example you are running nginx, you can use its reverse proxy features. So if you want the blast interface served under, then you would put the following into your nginx.conf:
    • location /blast/ {
          proxy_connect_timeout 15;
          proxy_read_timeout 240;
    • In that way, everything goes through your server, but the interface appears to your website users as if its served from your site directly.
    • Finally, we can host your normal pages as well. Thus you don't need a separate webserver or hosting provider (see also next question).
  • Can you host normal web pages too?
    • Yes, we can. Say you are hosting a community or departmental web page and want to enable your users to also download fasta files or protocols, view images, or access a jBrowse genome browser or other data. We are now able to also host such pages and data on our servers. Yes it works for static html pages, or for dynamic content (e.g., PHP/Lamp).
    • So for example, you could have as a normal website, and for SequenceServer searches. For small-scale usage (less than 5GB data) there is no extra cost for this on annual subscription plans.
    • Please get in touch with your constraints if this is something you'd like to pursue.
  • Can I have a free trial?
    • We have the equivalent of that: we offer a full 30-day money back guarantee, no questions asked: cancel within 30 days and it will have cost you nothing.
  • Can you give me a quote for a grant proposal?
    • Yes. Get in touch with us, and let us know which plan and duration you want the quote to cover. We will get a quote back to you rapidly.
  • Do you take other payment mechanisms?
    • If payment by bank card, Apple Pay or Google Pay doesn’t work for you, please get in touch. We can take payments over the phone and also do bank transfers.
    • Some finance departments require going through a purchase order process. Because this has substantial administrative overhead on our side, we can only do it for subscriptions of at least one year. Have your finance department contact us at to get our details.
  • Can I prepay for several years?
    • Yes - we understand that the need for this can arise. We offer an additional 10% discount for multi-year subscriptions. Please get in touch by email with your specific request and preferred payment mechanism, and we will rapidly get back to you.
  • Is the payment mechanism secure?
    • We take security extremely seriously. SequenceServer doesn’t want or need your payment information. Instead, we process payments using the industry standard You can thus pay with Apple Pay, Google Pay, or by bank card. Stripe annually process hundreds of billions of dollars in payments, including for Kickstarter,, Zoom, Uber, Deliveroo and Unicef.
  • Can I cancel my subscription?
    • Yes. We will refund everything if you cancel in the first 30 days. If you cancel after the first 30 days, your subscription will terminate at the end of your current billing period (month or year).
    • If you would like to cancel, you can do it directly through your administrator dashboard, or feel free to email us. No questions asked.
  • Is there a cancellation fee?
    • No, there are no cancellation fees or charges. We will refund you the whole amount if you cancel in the first 30 days. If you cancel after the first 30 days, your subscription will simply not renew at the end of your current billing period.
  • I have other questions
    • Feel free to contact us by email. We are also happy to arrange a demonstration or question/answer call over zoom.