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The reduced-age data sets were obtained by removing the sequences labeled in red.
The primer and adapter sequences were trimmed from the HQ sequences, followed by removing the sequences shorter than 50 bp from the clean ESTs before assembly.
Finally, the cluster center on r c is complete, and has been denoted by a chain S that is saved into the result chain set Q. We update R by removing the sequences of S, then iterate it over R until empty to finish the algorithm.
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A control construct, Luc-Psip1-P75-M, was created by removing the sequence, complementary to the miR-135b seed, using a AGT GTC AAT GTG TAA ATT GTT TTA A phosphor-primer and a AAC TAG AAT AAT TTT TGT CCA AGT T primer and the QuikChange II Site-Directed Mutagenesis Kit (Agilent).
High-quality clean reads were obtained by removing the adaptor sequences, duplicated sequences, ambiguous reads ('N'), and low-quality reads.
The raw reads were first filtered by removing the adapter sequences and low quality sequences, which included the reads with N percentage (i.e., the percentage of nucleotides in read which could not be sequenced) over 5% and ones containing more than 20% nucleotides in read with Q-value ≤ 10.
The repetitive sequence-free genome sequences (RSFGSs) of each strain were obtained by removing the repetitive sequences from the entire genome sequence.
The raw reads obtained were preprocessed by removing the adaptor sequences and discarding empty or low-quality sequences, and the reads were mapped to the grape (V. vinifera cv. Pinot Noir) reference genome (http://www.genoscope.cns.fr/) using SOAPaligner/soap2 with default parameters.
Clean reads were obtained by removing the adaptor sequences, empty reads, and the low-quality sequences (with ambiguous sequences 'N').
Those used for public genome browser annotations start by removing the repetitive sequences, focusing on the approximately 28,000 located within unique sequence [ 60].
The sequences were curated by removing the vector sequence from the reads and the beginning comparisons from the first base following the 3' end of the primers.
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