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Sequences were checked and assembled using CodonCode Aligner (CodonCode Corp).
Chromatograms were checked and assembled using CodonCode Aligner.
Sequences were checked and assembled using Sequencher software [ 20] running on Mac OS computers.
All sequences were checked and assembled by visual inspection using the program SeqMan (DNA star, Madison, WI, USA).
Sequences were manually checked and assembled using BioEdit v. 7.0.5.3 [ 40] and then annotated with ARTEMIS v. 9 [ 41].
Sequence files from the DNA analyzer were checked and assembled with Sequencher v4.7 (Gene Codes, Ann Arbor, MI).
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Sequences were checked, aligned, and assembled manually using MEGA5 (Tamura et al. 2011).
Read quality was checked and reads were assembled by the Phred-Phrap program module.
DNA sequences were checked for accuracy and assembled using Phred (base-calling) and Phrap (assembly) (Ewing and Green 1998; Ewing et al. 1998).
The sequencing reads were vector-trimmed, quality-checked and assembled using CAP3 [ 47].
Cycle sequencing reactions for each of the cloned PCR products were performed in both directions using a "primer walking" strategy, and the sequences of overlapping fragments were double-checked and assembled to obtain the complete sequence of each mitochondrial genome.
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