Link to this post | posted 17 Apr, 2019 17:38
NWCiowaSEAPHAGE	Are we annotating a frameshift for this cluster or waiting for more evidence? I'm assuming no for now since none of the ANs have annotated a frameshift? Edited 17 Apr, 2019 17:40

Link to this post | posted 18 Jan, 2019 16:47
NWCiowaSEAPHAGE	Does a gene that BLASTs to Membrane protein, Band-7-like need to have multiple transmembrane domains to call it Membrane protein, Band-7-like? Edited 18 Jan, 2019 19:35

Link to this post | posted 13 Nov, 2018 15:30
NWCiowaSEAPHAGE	I don't think adenylate kinase is on the approved functions list yet. Can it be added?

Link to this post | posted 19 Oct, 2017 19:36
NWCiowaSEAPHAGE	We have a gene in our C1 phage with many hits to a zinc-finger DNA binding domain/protein in PhagesDB BLAST and NCBI BLAST. We used HHPred and got several hits to zinc finger proteins with probabilities above 95. Is this a function we can use?

Link to this post | posted 19 Oct, 2017 19:26
NWCiowaSEAPHAGE	We also have many BLAST hits for an N-acetyl transferase on PhagesDB BLAST and NCBI BLAST. When I tried HHPred I got many hits for acetyl transferases (around a probability of 90). Is this a function we can use?

Link to this post | posted 12 Oct, 2017 19:57

NWCiowaSEAPHAGE

We have a tRNA gene in a tRNA cluster within our C1 phage, Roots515, that DNA Master says is for serine but ARAGORN and tRNAscan-SE say is for leucine. Additionally, the anticodon is almost always consistent between ARAGORN and tRNAscan-SE but different in DNA Master. This is our first experience annotating tRNAs but, as you can imagine, we have many to do for our C1 phage! Any advice is most welcome! Thanks.

Link to this post | posted 22 Sep, 2017 19:24
NWCiowaSEAPHAGE	Problem solved! Thank you so very much!!

Link to this post | posted 21 Sep, 2017 18:00

NWCiowaSEAPHAGE

1. Can you ignore the box, and just start phamerator? I don't think I can do that. I tried starting the virtual box and then the sea machine. I also tried starting the sea machine directly. When I start the sea machine directly I get the message in the attachment. 2. What happens if you just click the red close button at the very top left? Does it still kick you back to the login screen? Yup. It still kicks me out. 3. Does this happen on both the student and faculty accounts? Unfortunately yes. In the student account I can't even try to click any buttons. It kicks me back to the login screen almost immediately. 580Kb

Link to this post | posted 19 Sep, 2017 17:00

NWCiowaSEAPHAGE

I am getting an error message (different than the one posted in the forum last year - see attachment). If I click on either "report" or "cancel" it kicks me back to the screen that asks for a password. The error box moves a little within the upper left corner of my screen - almost blinking in and out. I've tried to reinstall the software and I've also updated the virtual machine. Neither made a difference. Any help someone can give me is most welcome! 1.39Mb

Link to this post | posted 19 Aug, 2017 17:46

NWCiowaSEAPHAGE

I checked in this morning and my BLAST went just fine (and it was a large genome - over 150 kB). I'm not sure what to suggest. I'm no computer wiz. I kind of limp along and learn as I go. smg366 NWCiowaSEAPHAGE I got it to work this afternoon, actually! ! It's BLASTING as I type this Were you able to get BLAST to work? I have been trying to BLAST my genome in DNA Master for the past few days and it has not worked. I was wondering if this was specific to my computer or the program.