METHODS AND COMPOSITIONS FOR IDENTIFYING REPEATING SEQUENCES IN NUCLEIC ACIDS

摘要

Short Tandem Repeats are currently used by law enforcement and others, for example, for the identification of individuals by DNA matching. A method is described herein that uses WPD to classify and identify repeating sequences in nucleotide sequences from the position and frequency information contained within nucleotide sequences. This decomposition allows for the quick classification of nucleotide sequences (i.e., reads) into two different classes, including, for example, one class that contains sequencer reads that contain a repeat motif with non-repeat sequence on either flank, and another class that contains sequencer reads that do not contain any repeat sequence.

主权项

1. A method for identifying repeating sequences in a target nucleic acid comprising repeating sequences and non-repeating sequences, the method comprising the steps of
i) sequencing the target nucleic acid to obtain sequence data wherein the sequence data is digitized and the digitized sequence data is decomposed using WPD, wherein the WPD generates data comprising non-periodic signal data and periodic signal data comprising coefficients, wherein the non-periodic signal data is classified into a non-repeat bin, and wherein the periodic signal data is placed in a repeat bin; and ii) identifying the repeating sequences in the target nucleic acid by matching the coefficients from the periodic signal data in the repeat bin to coefficients generated from WPD of a reference sequence.