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Successfully detected barcodes were removed from the sequence leaving paired-end reads of 30 nt in length, while reads containing no recognizable barcode sequence were discarded.
While reads containing the deletion could not be aligned by BWA, their paired end mates were mapped.
While reads from the testis libraries produce distinct peaks at 19nt, reads from the remaining tissues produce no such peaks.
While reads per gene were largely unchanged compared to the 30°C control between 16°C, 23°C, and 37°C, reads for 119 genes were significantly affected at 43°C (Additional file 3).
While reads produced after BAC pools sequencing are distributed evenly along the whole BAC insert, sequence tags are produced from specific sites surrounding recognition pattern of restriction enzyme used for WGP.
Reads aligned to the known spliced junctions are considered as linear splicing and thus are filtered out, while reads that only span the 3′ end of the downstream exon and 5′ end of the upstream exon are considered potential signals of circRNA, in which the junction is AG/GU but not the canonical GU/AG (Memczak et al., 2013).
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Justyna Jupowicz-Kozak
CEO of Professional Science Editing for Scientists @ prosciediting.com