DETECTION OF A GENOMIC SEQUENCE IN A MICROORGANISM GENOME BY WHOLE GENOME SEQUENCING

Abstract: a method for detecting target genomic sequences at predetermined positions in a sequenced genome of a microbial organism in the form of reads. the method comprises computing a local sequencing depth of the genome in a neighborhood of the position of a target genomic sequence, the computing including a) detecting in the reads a set of digital genomic sequences from at least one reference genome of the microbial organism, b) generating of third set of digital genomic sequences comprising reads and digital genomic sequences of the second set belonging to the neighborhood c) counting the number of copies of each digital genomic sequences of the third set of digital genomic sequences, and d) computing the local sequencing depth as being equal to the maximum of the counted numbers of copies.

Inventor(s): Pierre Mahé, Meriem El Azami, Magali Dancette, Maud Tournoud, Aurélien Griffon

CPC Classification: G16B30/00 (ICT specially adapted for sequence analysis involving nucleotides or amino acids)

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