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We sought to investigate any associations between phenotypic differences in winter plumage and coding region variation by obtaining sequences from four previously identified candidate genes for plumage coloration (MC1R, TYR, TYRP1 and DCT) in European Lagopus populations.

RNA-editing events were compared to other plant species by obtaining sequences from genbank with RNA-editing information and performing an alignment.

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Regions were initially targeted in this interval by obtaining sequence from subclones generated from P1 clones v1-71 mapped to subdivision 49A and v14-60 mapped to subdivision 48F of the D. virilis genome [65], [66].

This evolutionary scenario makes predictions about the sequences, intron/exon structure, and syntenies of GATA456 genes within arthropod phylogeny that can now be further tested by obtaining genome sequences from additional arthropods.

We repeated the procedure outlined above by obtaining 2,000 sequences from the Y chromosome and calculating the GC content at each position across the alignments.

Finally, all edits were inferred from clean sequence reads, generated from both strands of a clone, and most were also validated by obtaining the same sequence from multiple independent cDNA clones (Table 1).

Likewise, the phylogenetic information from the selected fragment was confirmed by obtaining the phylogenetic tree from the sequences of the species analyzed.

We compared the HapMap genotypes and the genotypes obtained by sequencing from both types of libraries in all the positions where the sequencing call obtained with either method disagreed with the HapMap genotype in order to look for allelic drop outs.

Raw sequence reads corresponding to a 9.1-fold coverage of the haploid genome (42 882, 88 830 and 15 227 reads from libraries with 1.6, 5.0 and 35 kb inserts, respectively) were first obtained by sequencing from both ends of the inserts on an ABI 3730xl DNA Analyzer (Applied Biosystems).

Algorithm ambiguity was tested by obtaining scores for 7230 unclassified plant sequences from Genbank, each containing glycine at position two.

A novel restriction protein could be obtained by substituting sequences from the self-associating domain of Fv1 for the Trim5 sequences in Trim5 CypA.

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