Hello,

I have no experiences with data from sanger sequencing. I amplified 16s rDNA from pure cultures and sent samples for sanger sequencing for identification. Now, I got the data back but feel lost how to perform quality trimming. I have been looking around, and rarely find literature explaining about quality trimming of these sanger sequences.

In the meantime, I have known that we can use personal judgement looking at the chromatogram, and delete those bases with score lower than 40. In addition, there is also software offering automatic quality trimming but still we have to indicate threshold parameters (i.e. window size, quality threshold). And I found mixed discussion about using NGS-trimming tools such as trimmomatic to sanger sequences.

I feel lost and do not know which approach I should follow?

Please help.

Thank you so much