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3 months ago
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Hello everyone, please help me with Tn-seq data. I don't understand how to determine the insertion coordinate on reverse reads. I have a result of mapping reads using blastn with the following structure:
[transposon end]--[genomic sequence] (part of the transposon was removed before mapping).
Thus, having filtered the reads by the qstart = 1 feature, I got genomic coordinates for forward and reverse reads, if with forward everything is clear that qstart = sstart, then what to do with reverse? Example: read1 qstart = 1, strand = Plus/Minus, sstart = 120, send = 100, the coordinate of the insertion in the genome will be 120?
