Hi dear all
I have two questions:
1. In my fastqc output, there is a failure in "Per base sequence content". The problem is for first nine base pairs. I know the irregularity in first 9 positions is not due to adapters contamination. Am I allowed to trim these first 9 base pair ?
2. How much I can trim a sequence? I know I can trim a sequence as much as I want. but output of my analysis won't be reliable if I trim almost half of the base pairs. Am I right? So I mean how much I can trim my sequences without affecting final result (The goal) of my analysis?
I have two questions:
1. In my fastqc output, there is a failure in "Per base sequence content". The problem is for first nine base pairs. I know the irregularity in first 9 positions is not due to adapters contamination. Am I allowed to trim these first 9 base pair ?
2. How much I can trim a sequence? I know I can trim a sequence as much as I want. but output of my analysis won't be reliable if I trim almost half of the base pairs. Am I right? So I mean how much I can trim my sequences without affecting final result (The goal) of my analysis?
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