SEA-PHAGES | All posts created by sahas

Link to this post \| posted 30 Mar, 2016 18:56
sahas	Hi While annotating the phage PhancyPhin, we came across a gene (#13) which we decided to delete as it was in the reverse orientation compared to all the others in that region, was about 107 bp long and had no coding potential. Now there is a gap of 116 bp between 12 and 14. The region is too small to insert a gene and also there are no suitable start and stop co ordinates. We see a similar gap in other members such as michellemybelle. So shall we let the gap be as it is? Gene 34 is another gene that when deleted with similar reasoning as above, leaves a gap of 206 bp, with no suitable start and stop co ordinates? So, is it alright to have a gap of 200 bp? Thank you Sangha

Link to this post | posted 30 Mar, 2016 18:56

Hi
While annotating the phage PhancyPhin, we came across a gene (#13) which we decided to delete as it was in the reverse orientation compared to all the others in that region, was about 107 bp long and had no coding potential. Now there is a gap of 116 bp between 12 and 14. The region is too small to insert a gene and also there are no suitable start and stop co ordinates. We see a similar gap in other members such as michellemybelle. So shall we let the gap be as it is? Gene 34 is another gene that when deleted with similar reasoning as above, leaves a gap of 206 bp, with no suitable start and stop co ordinates? So, is it alright to have a gap of 200 bp?
Thank you
Sangha

Posted in: Gene or not a Gene → Deleting a gene leaves 200 bp gap

Link to this post \| posted 03 Mar, 2016 17:18
sahas	Chris Thanks a lot for your help on this. Really appreciate it. Sangha cdshaffer Sangha, I can confirm that phage PhancyPhin also crashes on my machine when running the current version of starterator so I don't think there is anything wrong with your computer. I was able to run is successfully with my updated code so the problem was an old bug in starterator that we have found and fixed. You can download the full report using this link. Thanks for reporting the issue, the only way to make programs better is if people take the time to post problems that can be checked.

Link to this post | posted 03 Mar, 2016 17:18

sahas

Chris
Thanks a lot for your help on this.
Really appreciate it.
Sangha

cdshaffer
Sangha,
I can confirm that phage PhancyPhin also crashes on my machine when running the current version of starterator so I don't think there is anything wrong with your computer. I was able to run is successfully with my updated code so the problem was an old bug in starterator that we have found and fixed. You can download the full report using this link.

Thanks for reporting the issue, the only way to make programs better is if people take the time to post problems that can be checked.

Posted in: Starterator → phage that crash starterator

Link to this post \| posted 01 Mar, 2016 16:04
sahas	Hi Starterator crashed on Pham 40 for phage PhancyPhin both the times I have tried. I was wondering if you could help. Thank you Sangha

Posted in: Starterator → phage that crash starterator

Recent Activity

All posts created by sahas