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The remaining sequences are processed using the CD-HIT program to remove the highly homologues sequences.
The raw Sanger data obtained from sequencing were processed using the Phred-Phrap-Consed package [75].
Raw sequences were processed using cross-match [ 42], which resulted in the removal of poor quality sequences and vector sequences.
Pyrotag sequences were processed using Pyrotagger [48], and QIIME with correction via ACACIA.
Sequences were processed using Phred, trimmed for quality, and assembled using Phrap.
The sequences obtained were processed using the MacVector (MacVector Inc , USA version 11.1.2) suite of programs to trim out vector sequences.
Sequence trace files from sequencing reactions were processed using the DNAStar 5.0 suite of programs.
Sequencing data were processed using the DNATools application developed by Sam Achten and Lenny Jorissen (Hasselt University).
Sequence reads were processed using the CASAVA1.8 pipeline (Illumina).
All sequencing data were processed using CASAVA 1.8+(ref. 34) and extracted from FASTQ files.
Sequence data were processed using QIIME following the UPARSE standard pipeline according to Brazilian Microbiome Project ((http://www.brmicrobiome.org/#!16s-profiling-pipeline-illumina/czxl)41, 16s-profiling-pipeline-illumina/czxl 41resentative sequences.
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