Methods of making sequencing adapters and methods of sequencing nucleic acid molecules

The invention relates to a method for preparing a sequencing adapter and a method for sequencing nucleic acid molecules. The disclosed embodiments relate to methods, devices, systems, and computer program products for determining sequences of interest, including sequences having low allele frequencies and long sequence lengths, using unique molecular indexed sequences that can be uniquely associated with individual polynucleotide fragments. In some implementations, the unique molecular index sequences include variable length non-random sequences. In some implementations, unique molecular index sequences are associated with individual polynucleotide fragments based on alignment scores representing similarities between the unique molecular index sequences and subsequences of sequence reads obtained from the individual polynucleotide fragments. Systems, devices, and computer program products for determining a sequence of interest implementing the disclosed methods are also provided. 本申请涉及制备测序衔接子的方法和对核酸分子进行测序的方法。