Computer-implemented method and computer-based system for validating DNA sequencing data

A computer-based system for validating DNA sequencing data from fragment sequence data of one or more DNA fragments, the system comprising:

• means for obtaining from a user a target specification;
• a database comprising reference sequences;
• a computer including a selection module configured to use said fragment sequence data for said target specification to select from a set of more than one possible reference sequences stored in a database, a selected reference sequence having a highest correlation with said fragment sequence data;
• an alignment module configured to align automatically the fragment sequence data with the selected reference sequence;
• a detection module configured to identify sequence positions where nucleotide codes of the aligned fragment sequence data and the selected reference sequence do not correspond;
• and
• an assembler module configured to generate a contig as a consensus sequence from the fragment sequence data aligned with the selected reference sequence, including to insert into the consensus sequence, at sequence positions having non corresponding nucleotide codes in the fragment sequence data, a code indicating ambiguity.

A computer program product comprising a non transitory computer readable medium containing therein computer program code means for controlling one or more processors of a computer-based system to perform a method for validating DNA sequencing data from fragment sequence data of one or more DNA fragments, said method including:

• obtaining from a user a target specification;
• using said fragment sequence data for said target specification to select from a set of more than one possible reference sequences stored in a database, a selected reference sequence having a highest correlation with said fragment sequence data;
• aligning automatically the fragment sequence data with the selected reference sequence using a computer;
• identifying automatically sequence positions where nucleotide codes of the aligned fragment sequence data and the selected reference sequence do not correspond;
• and
• using a computer in generating a contig as a consensus sequence from the fragment sequence data aligned with the selected reference sequence, the generating comprising inserting into the consensus sequence, at sequence positions having non-corresponding nucleotide codes in the fragment sequence data, a code indicating ambiguity.