Thats a unique idea.You should consider the following idea to enhance your idea so that it would impact uniquely: Alignment-free methods are increasingly used to calculate evolutionary distances beten DNA and protein sequences as a basis of phylogeny reconstruction. Most of these methods, hover, use heuristic distance functions that are not based on any explicit model of molecular evolution. Herein,  propose a simple estimator dN of the evolutionary distance beten two DNA sequences that is calculated from the number N of (spaced) word matches beten them.  show that this distance function is more accurate than other distance measures that are used by alignment-free methods. In addition,  calculate the variance of the normalized number N of (spaced) word matches.  show that the variance of N is smaller for spaced words than for contiguous words, and that the variance is further reduced if our spaced-words approach is used with multiple patterns of ‘match positions’ and ‘don’t care positions’. Our software is available online and as downloadable source code at: http://spaced.gobics.de/.
['Burkhard Morgenstern', 'Bingyao Zhu', 'Sebastian Horwege', 'Chris Leimeister']
I am writing a research paper on a idea Estimating evolutionary distances between genomic sequences from spaced-word matches.
[{"from": "human", "value": "I am writing a research paper on a idea Estimating evolutionary distances between genomic sequences from spaced-word matches."}, {"from": "gpt", "value": "Thats a unique idea.You should consider the following idea to enhance your idea so that it would impact uniquely: Alignment-free methods are increasingly used to calculate evolutionary distances beten DNA and protein sequences as a basis of phylogeny reconstruction. Most of these methods, hover, use heuristic distance functions that are not based on any explicit model of molecular evolution. Herein,  propose a simple estimator dN of the evolutionary distance beten two DNA sequences that is calculated from the number N of (spaced) word matches beten them.  show that this distance function is more accurate than other distance measures that are used by alignment-free methods. In addition,  calculate the variance of the normalized number N of (spaced) word matches.  show that the variance of N is smaller for spaced words than for contiguous words, and that the variance is further reduced if our spaced-words approach is used with multiple patterns of \u2018match positions\u2019 and \u2018don\u2019t care positions\u2019. Our software is available online and as downloadable source code at: http://spaced.gobics.de/."}]