<p>I am running searches for genes using <strong>Phaster</strong> {<a href="https://phaster.ca/" rel="nofollow noreferrer">PHASTER (PHAge Search Tool Enhanced Release) is a significant upgrade to the popular PHAST web server for the rapid identification and annotation of prophage sequences within bacterial genomes and plasmids. </a>  } and would like to look up the phages that have them on <strong>PhageDB</strong> <a href="https://phagesdb.org/about/" rel="nofollow noreferrer">The Actinobacteriophage Database </a>to learn more about their distribution. The blast search returns a lot of information about the phages and I am unsure what part of the sequence it gives for phages would be helpful.</p>
<p><a href="https://i.sstatic.net/GUVfz.png" rel="nofollow noreferrer"><img src="https://i.sstatic.net/GUVfz.png" alt="Image" /></a></p>

CC BY-SA 4.0
2023-12-02T00:58:23.770Z
Please clarify your specific problem or provide additional details to highlight exactly what you need. As it's currently written, it's hard to tell exactly what you're asking.
Community
CC BY-SA 4.0
2023-12-02T08:39:30.190Z
What is Phaster? Can you please provide a brief description about the program, and ideally a link that we can visit to get more information? Also... this question doesn't really have a question in it. Could you please clarify what more precisely what you are struggling with?
gringer
CC BY-SA 4.0
2023-12-03T10:39:21.400Z
I am not sure is a good idea to look for result on PHAGEDB , its full name list https://phagesdb.org/data/?set=all&type=simple ,  is probably smaller the the hits out of PHASTER
pippo1980
CC BY-SA 4.0
2023-12-03T10:51:38.660Z
unless I am getting it wrong and you are asking to use https://phagesdb.org/blast/ local blast to search for your sequence inside PHAGEDB ?
pippo1980
CC BY-SA 4.0
2023-12-03T11:00:41.787Z
mmmmmh  the phages on PHAGEDB that are not deposited at NCBI are the only one you should look/screen for , but still I am not getting your question PHASTER is used to track leftover presence of phage in plasmid and genomes , PHAGEDB is a repo (kind of non official for actionobacteria phages) or am I wrong ?
pippo1980
<genome-sequencing>
How to identify phages from Phaster in PhageDB
# How to identify phages from Phaster in PhageDB

(Asked by: username_0 on 2023-12-01)

I am running searches for genes using **Phaster** {[PHASTER (PHAge Search Tool Enhanced Release) is a significant upgrade to the popular PHAST web server for the rapid identification and annotation of prophage sequences within bacterial genomes and plasmids.](https://phaster.ca/)  } and would like to look up the phages that have them on **PhageDB** [The Actinobacteriophage Database](https://phagesdb.org/about/) to learn more about their distribution. The blast search returns a lot of information about the phages and I am unsure what part of the sequence it gives for phages would be helpful.

[![Image](https://i.sstatic.net/GUVfz.png)](https://i.sstatic.net/GUVfz.png)

**Tags:** genome-sequencing
> **Comments:**
> **username_1**: Please clarify your specific problem or provide additional details to highlight exactly what you need. As it's currently written, it's hard to tell exactly what you're asking.  
> **username_2**: What is Phaster? Can you please provide a brief description about the program, and ideally a link that we can visit to get more information? Also... this question doesn't really have a question in it. Could you please clarify what more precisely what you are struggling with?  
> **username_3**: I am not sure is a good idea to look for result on PHAGEDB , its full name list https://phagesdb.org/data/?set=all&type=simple ,  is probably smaller the the hits out of PHASTER  
> **username_3**: unless I am getting it wrong and you are asking to use https://phagesdb.org/blast/ local blast to search for your sequence inside PHAGEDB ?  
> **username_3**: mmmmmh  the phages on PHAGEDB that are not deposited at NCBI are the only one you should look/screen for , but still I am not getting your question PHASTER is used to track leftover presence of phage in plasmid and genomes , PHAGEDB is a repo (kind of non official for actionobacteria phages) or am I wrong ?  

---

## 0 answers

