Hello,
I'm using FastQC to check the quality of my 250bp PE Miseq reads prior to assembly, and am seeing a spike in the relative enrichment of the 5-mer 'TTATA' around the 160-169 bp region of the reverse read (see the attached PNG). This pattern is repeated in a lot, but not all, of the genomes I'm assembling.
The reads have been put through both CutAdapt and TagDust for adapter / barcode trimming, as well as Condetri for quality trimming.
Has anyone had experience of something like this, and could enlighten me as to possible causes?
Thanks!
I'm using FastQC to check the quality of my 250bp PE Miseq reads prior to assembly, and am seeing a spike in the relative enrichment of the 5-mer 'TTATA' around the 160-169 bp region of the reverse read (see the attached PNG). This pattern is repeated in a lot, but not all, of the genomes I'm assembling.
The reads have been put through both CutAdapt and TagDust for adapter / barcode trimming, as well as Condetri for quality trimming.
Has anyone had experience of something like this, and could enlighten me as to possible causes?
Thanks!
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