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The resulting sequences were analyzed and aligned using Blast Local Alignment Tool (BLAST) program at the National Centre for Biotechnology Information (NCBI).
Sequences were analyzed and aligned using the CEQuence Investigator program (Beckman Coulter, Fullerton, CA).
Genomic sequences obtained for the different Picea species were analyzed and aligned using ClustalX [ 68].
Sequencing data were analyzed and aligned using ClustalW software (available at www.clustal.org, UCD Dublin, Ireland).
They were analyzed and aligned using MEGA software version 5 [ 22].
The sequences were analyzed and aligned using the Bioedit Sequence Alignment Editor software (Tom Hall, Ibis Biosciences, Carlsbad, CA).
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After the removal of sequence impurities such as vector, short sequences and poly(A) ends, all sequences were analyzed by Blast2GO and aligned using BLASTX and the GenBank nonredundant database.
Sequences with a length of at least 500 bp were then retrieved and aligned using MUSCLE [ 84], and analyzed using the RIPCAL software [ 44].
and aligned using Muscle 3.6 [ 37].
A total of 395 orthologs were found in all species analyzed and were aligned using MAFFT [ 133] and retrieved alignments were trimmed using Trimal [ 129] in order to exclude spurious sequences or poorly aligned regions.
Viral sequences were analyzed and aligned by using ClustalW (http://workbench.sdsc.edu).sdsc.edu
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