In the PCR of CTX-M sub-types such as CTX-M-1, -2, -8, and -9, I observed when I run the gel electrophoresis, more than one band is seen. Is that how to interpret the band for the sub-types of CTX-M?
I used uniplex for the sub types of the CTX-M. Some bands are of expected amplicons, while others are not. In fact, I observed apart from the expected amplicon, the same lane, I obeserved separate bands either above or below the expected amplicon. See the gel picture.
There is mispriming ....and your primers may not be specific enough or your annealing temperature is too low. You may need to redesign your primers or try troubleshooting with a touchdown or a gradient pcr if it has doesnt work then redesign your primers
Probably there is mispairing due to which bands are nonspecific. You should try to adjust the annealing temperature and DNA concentration (by diluting your DNA sample).