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Recent Activity
dane.bowder posted in capsid maturation protease or hypothetical protein (MuF-like minor capsid protein)
Marie Fogarty posted in capsid maturation protease or hypothetical protein (MuF-like minor capsid protein)
Debbie Jacobs-Sera posted in capsid maturation protease or hypothetical protein (MuF-like minor capsid protein)
dane.bowder posted in capsid maturation protease or hypothetical protein (MuF-like minor capsid protein)
All posts created by AJUTSA
| Link to this post | posted 14 Jan, 2023 23:52 | |
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Additoinal pic for my previous question. |
2.25Mb| Link to this post | posted 14 Jan, 2023 23:51 | |
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Hello! Gene: 39356-39886 states Glimmer calls 39356 but not called by Genemark. I agree with Glimmer: start and stop outside coding potential and when I blast the sequence there are many other phages with this exact sequence called (E value 0.0). My question is why wouldn't Genemark call anything? I don't know enough about either program to have any reasonable idea, I haven't seen that statement before in the DNAMase notes section. So I am curious.. I have attached pictures just to be through in my evidence. |
3.25Mb| Link to this post | posted 10 Jan, 2023 21:51 | |
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Ohhhhhhhhhhhhhhhhhhhhhh I'm an idiot! I was looking at GeneMark for the next gene… Nevermind!!! Means I need a break. 
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| Link to this post | posted 10 Jan, 2023 21:43 | |
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Hello! I'm working on gene 17, 12876-13325. There isn't a disagreement in DNA Master. Glimmer calls start at 12876. BUT, when you look at the GeneMark graph (attached), Glimmers start puts it wayyyy to the left of the coding potential. This start has a Z value = 1.323 and Raw Score = -5.344. Another start that is just outside the coding potential (marked with an orange highlighter on my attached pic) has a better Z value = 1.724 and Raw Score = -4.502. So I'm thinking even though the program is in agreement, I need a second opinion. Does it matter that the start that is called is wayyyyyyy to the left of the coding potential? WDYT? Amy |
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