I am trying to make an SSR genotyping by running my PCR products on a PAGE electrophoresis
I'm using PROTEAN II xi Cell by BioRad .
As you see in the picture, bands are not migrating in a straight pattern at the top of the gel and you can see it clearly when looking at the ladders at the sides of the gel. Could anybody suggest a solution to this problem?
I have tried everything related to temperature , homogeneity, running voltage and I'm also quite sure that the two glass plates sandwiching the gel are clean ...
I assume that these bands can be scored , but the problem becomes more annoying when I want to run bigger size fragments ...
Any Ideas?