The nucleic acid contains information for protein synthesis, and they are also the genetic information carrier from one generation to another. Therefore, it is very vital to know the sequence of the information stored in it. Different techniques and technologies have been developed for sequencing purposes and they have made tremendous progress in last couple of year. It is difficult to believe that the first human genome, took 15 years to sequence and cost nearly $ 3 billion. Now we can sequence 45 human genomes for 1000 dollar. Minion an Oxford Nanopore technology is a portable real time sequencing device and because of it, on spot sequencing is possible Minion is a first which was used to do the sequencing on Antarctica region. DNA Sequencing can be used in many areas of research such as in virology, biotechnology, forensic biology e.t.c. It allows us to find gene quickly and the easiest way. It allows us to know how gene directs the maintenance, development, and growth of an entire organism. Gene accounts for only one and a half percent of all DNAs, it is necessary for us to understand what 98.5 percent of the genome is doing. Sequencing helps us to find the answer for that. It is also possible to find evolutionary relationship between difference species. Due to sequencing we can compare different species and one of the methods used for comparison is AAF. In this experiment we used AAF method on Nanopore sequencing and Illumina sequencing to check if they are compatibly or not. We sequenced the DNA from the same strain with a replicate or with higher coverage, AAF was able to identify them as almost identical.