Hi All, I am new in understanding the software manuals. So, I need a help in the matter which may be very simple to most of you.I am trying to align my viral reads data to the viral reference genome. I am using bowtie for my analysis. Using bowtie, I used the default parameters. I am trying to do a very strict alignment analysis like not allowing mis-match and insertions. That means to have the result as the end to end match. In that case,which parameters do I have to focous on?