DNA ALIGNMENT USING A HIERARCHICAL INVERTED INDEX TABLE

• Main Authors: GARMANY JAN D, HUNT MARTIN A, ARASTAS DAEMON G, WOOD STEPHEN V, DOERR MICHAEL B
• Format: Patent
• Language: Chinese; English
• Published: 08.06.2018
• Subjects: INFORMATION AND COMMUNICATION TECHNOLOGY [ICT] SPECIALLY ADAPTEDFOR SPECIFIC APPLICATION FIELDS; PHYSICS

The invention provides system and method for constructing a hierarchical index table usable for matching a search sequence to reference data. The index table may be constructed to contain entries associated with an exhaustive list of all subsequences of a given length, wherein each entry contains the number and locations of matches of each subsequence in the reference data. The hierarchical indextable may be constructed in an iterative manner, wherein entries for each lengthened subsequence are selectively and iteratively constructed based on the number of matches being greater than each of aset of respective thresholds. The hierarchical index table may be used to search for matches between a search sequence and reference data, and to perform misfit identification and characterization upon each respective candidate match. 用于构建可用于将检索序列与参考数据匹配的分级索引表的系统和方法。所述索引表可经构建以含有与给定长度的所有子序列的穷尽性列表相关联的条目，其中每个条目含有在所述参考数据中的每个子序列的匹配的数量和位置。可以迭代方式构建所述分级索引表，其中基于匹配的数量大于组相应阈值中的每个，选择性地和迭代地构建用于每个延长子序列的条目。所述分级索引表可用于搜索在检索序列和参考数据之间的匹配，并且