Problem 79. DNA N-Gram Distribution

Created by Cody Team

Solve Later

{"relationships":[{"relationshipType":"http://schemas.mathworks.com/matlab/code/2013/relationships/document","targetMode":"","relationshipId":"rId1","target":"/matlab/document.xml"},{"relationshipType":"http://schemas.mathworks.com/matlab/code/2013/relationships/output","targetMode":"","relationshipId":"rId2","target":"/matlab/output.xml"}],"parts":[{"partUri":"/matlab/document.xml","relationship":[],"contentType":"application/vnd.mathworks.matlab.code.document+xml","content":"<?xml version=\"1.0\" encoding=\"UTF-8\"?>\n<w:document xmlns:w=\"http://schemas.openxmlformats.org/wordprocessingml/2006/main\"><w:body><w:p><w:pPr><w:pStyle w:val=\"text\"/></w:pPr><w:r><w:t>Given a string s and a number n, find the most frequently occurring n-gram in the string, where the n-grams can begin at any point in the string. This comes up in DNA analysis, where the 3-base reading frame for a codon can begin at any point in the sequence.</w:t></w:r></w:p><w:p><w:pPr><w:pStyle w:val=\"text\"/></w:pPr><w:r><w:t>So for</w:t></w:r></w:p><w:p><w:pPr><w:pStyle w:val=\"code\"/></w:pPr><w:r><w:t><![CDATA[ s = 'AACTGAACG']]></w:t></w:r></w:p><w:p><w:pPr><w:pStyle w:val=\"text\"/></w:pPr><w:r><w:t>and</w:t></w:r></w:p><w:p><w:pPr><w:pStyle w:val=\"code\"/></w:pPr><w:r><w:t><![CDATA[ n = 3]]></w:t></w:r></w:p><w:p><w:pPr><w:pStyle w:val=\"text\"/></w:pPr><w:r><w:t>we get the following n-grams (trigrams):</w:t></w:r></w:p><w:p><w:pPr><w:pStyle w:val=\"code\"/></w:pPr><w:r><w:t><![CDATA[ AAC, ACT, CTG, TGA, GAA, AAC, ACG]]></w:t></w:r></w:p><w:p><w:pPr><w:pStyle w:val=\"text\"/></w:pPr><w:r><w:t>Since AAC appears twice, then the answer, hifreq, is AAC. There will always be exactly one highest frequency n-gram.</w:t></w:r></w:p><w:p><w:pPr><w:pStyle w:val=\"text\"/></w:pPr><w:r><w:rPr><w:i/></w:rPr><w:t>This problem was originally inspired by a</w:t></w:r><w:r><w:rPr><w:i/></w:rPr><w:t> </w:t></w:r><w:hyperlink w:docLocation=\"http://www.mathworks.com/matlabcentral/newsreader/view_thread/278173\"><w:r><w:rPr><w:i/></w:rPr><w:t>MATLAB Newsgroup discussion</w:t></w:r></w:hyperlink><w:r><w:rPr><w:i/></w:rPr><w:t>.</w:t></w:r></w:p></w:body></w:document>"},{"partUri":"/matlab/output.xml","contentType":"text/xml","content":"<?xml version=\"1.0\" encoding=\"UTF-8\" standalone=\"no\" ?><embeddedOutputs><metaData><evaluationState>manual</evaluationState><layoutState>code</layoutState><outputStatus>ready</outputStatus></metaData><outputArray type=\"array\"/><regionArray type=\"array\"/></embeddedOutputs>"}]}

Solve

Solution Stats

2083 Solutions
1175 Solvers

Last Solution submitted on Sep 09, 2023

Last 200 Solutions

Problem Comments

1 Comment

1 Comment

E Chang on 22 Oct 2018

It should be noted that spaces should be ignored or else test suites 3 and 5 fail.

Solution Comments

Show comments

Problem Recent Solvers1175

Problem Tags

Community Treasure Hunt

Find the treasures in MATLAB Central and discover how the community can help you!

Start Hunting!

Problem 79. DNA N-Gram Distribution

Solution Stats

Last 200 Solutions

Problem Comments

Solution Comments

Problem Recent Solvers1175

Suggested Problems

More from this Author96

Problem Tags

Community Treasure Hunt

Problem 79. DNA N-Gram Distribution

Solution Stats

Last 200 Solutions

Problem Comments

Solution Comments

Problem Recent Solvers1175

Suggested Problems

More from this Author96

Problem Tags

Community Treasure Hunt

Players