PMC:4502366 / 5366-6140 JSONTXT

{"project":"2_test","denotations":[{"id":"25911226-24695404-43388776","span":{"begin":109,"end":113},"obj":"24695404"},{"id":"25911226-19451168-43388777","span":{"begin":417,"end":421},"obj":"19451168"},{"id":"25911226-19505943-43388778","span":{"begin":478,"end":482},"obj":"19505943"},{"id":"25911226-17906827-43388779","span":{"begin":579,"end":583},"obj":"17906827"},{"id":"25911226-2231712-43388780","span":{"begin":620,"end":624},"obj":"2231712"}],"text":"Briefly, adapter sequences were removed and quality filtering was performed using Trimmomatic (Bolger et al. 2014). An initial assembly of all sequence reads was performed using Minia 1.6906 (Chikhi and Rizk 2012; Salikhov and Sacomoto 2013). Putative mitochondrial sequences from this assembly were identified by looking for contigs with relatively high coverage, estimated by mapping reads using bwa (Li and Durbin 2009; Li 2013) and obtaining depth using samtools (Li et al. 2009), and showing high similarity to the Armadillidium vulgare mitochondrial genome (Marcadé et al. 2007) by BLAST searches (Altschul et al. 1990). This search identified a single contig of approximately 13 kb in length with ∼1600× and 680× coverage in the male and female samples, respectively."}