  This paper presents a novel DNA sequences alignment method based on inverted
index. Now most large scale information retrieval system are all use inverted
index as the basic data structure. But its application in DNA sequence
alignment is still not found. This paper just discuss such applications. Three
main problems, DNA segmenting, long DNA query search, DNA search ranking
algorithm and evaluation method are detailed respectively. This research
presents a new avenue to build more effective DNA alignment methods.
