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Illumina mate-pair sequencing - mate-pair library with 8-12Kb fragment was prepared from a sample genomic DNA with reagent kits Nextera Mate Pair library Sample Prep kit (Illumina) and TruSeq DNA Sample Prep kit (Illumina) in the protocols, recommended by the manufacturer. Sample was sequenced on the MiSeq platform (Illumina) using a 2   150 cycle MiSeq V2 reagent kit, following standard Illumina sequencing protocols. Demultiplexing was performed using bcl2fastq v2.17.1.14 Conversion Software (Illumina). Adaptor sequences were removed from reads during demultiplexing. For trimming and separation of single-end, paired-end, mate-pair reads we used NxTrim