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The reads of brain and liver of each species were pooled and were assembled into unigenes.
The reads of dominant miRNAs constituted 82.7% of the total reads.
The reads of each transcript belonging to the same pathway were summed up.
The reads of An. quadriannulatus were first mapped to the An.
The reads of each sample were aligned separately to the Emihu1plus genome using TopHat [ 14].
The reads of these putative orthologs were normalized with DESeq [ 27].
The reads of each sample were aligned to the Daphnia magna v. 2.4 reference assembly using TopHat version 1.2.0.
The reads of four families (miR157, miR166, miR167 and miR168) were significantly higher than those of other families.
The reads of bisulfite converted DNA were mapped to Apis mellifera genome assembly 4 after converting the Cs to Ts.
The reads of each marker (those with best stampy [ 61] alignment to the scaffold) were reassembled with PHRAP [ 65], with default parameters.
The reads of each sample were aligned against one published mitochondrial genome ([GenBank: X79547.1] [ 38]) using BWA v0.5.1 (http://bio-bwa.sourceforge.net/, [ 39]).
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Justyna Jupowicz-Kozak
CEO of Professional Science Editing for Scientists @ prosciediting.com