Iam a Microbiologist, and I'm very new to using any bioinformatics tool and still struggling in understanding the very basic concepts of bioinformatics in general....I hope you would bear up with my very naiive questions, as I'm really really lost..
I want to design a primer for my bacterial enzyme, so from what I know is that I have to make multiple alignment for the DNA sequences I have first.. .
Iam using CLC genome workbench as I find it user friendly. I add about 8 different sequences of this enzyme from 8 different bacterial strains and then made the alignment, but doing this I found that there is almost no similarity and the percentage of conserved parts is very little. I understand this would be a hindrance to design a good primer, right?
So what shall I do now...should I choose other organisms than those and start all over or what..?