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Allele calls were checked manually and edited if necessary.
Gaps were inspected manually and edited in XCED.
For multiple alignments of OR genes, ClustalX 1.81 [ 44] was used with default parameters and gaps were inspected manually and edited in xced to ensure integrity of transmembrane domains and proper alignment of anchoring OR motifs.
The consensus genome, consisting of an artificially assembled sequence, was annotated manually and edited using a commercial genome sequence editing software, in silico molecular cloning (in silico Biology Co., Kanagawa, Japan).
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Resulting multiple protein alignments were manually verified and edited using Se-Al 2.0 (http://tree.bio.ed.ac.uk/software/seal/).ac.uk/software/seal/
In many cases these descriptions must be manually composed and edited by experts and annotators.
Accuracy was achieved by two-directional sequencing and all electropherograms were manually checked and edited.
The completed alignment was manually trimmed and edited in MEGA 4.0 [62].
The 2506 beta-satellite monomers were aligned by CLUSTALW 2.0 [22] and manually examined and edited using MEGA 4.0 [62].
For phylogenetic analysis multiple sequence alignments were constructed using PROMALS3D [54] and MUSCLE [55], manually examined and edited.
The final alignments were manually inspected and edited using the sequence alignment editor SE-Al version 1.d1 software [43].
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