Finding Repeated DNA Sequences
The problem asks us to identify all 10-letter-long sequences that appear more than once in a given DNA sequence. DNA sequences are represented as strings composed of the characters 'A', 'C', 'G', and 'T'. This is a common bioinformatics task, useful for tasks like gene annotation and identifying repetitive elements within genomes.
Problem Description
Given a string s representing a DNA sequence, find all 10-letter-long substrings that occur more than once in s.
Key Requirements:
- A substring is a contiguous sequence of characters within a string.
- The length of the substrings we are looking for is exactly 10.
- We need to return a list of all such 10-letter substrings that appear at least twice.
- The order of the repeated sequences in the output does not matter.
- Each repeated sequence should appear only once in the output list, even if it appears more than twice in the input string.
Expected Behavior:
The function should iterate through the input DNA string, consider all possible 10-letter substrings, and keep track of their occurrences. If a substring is encountered for the second time (or more), it should be added to the result list.
Edge Cases to Consider:
- Short Input String: If the input string
shas a length less than 10, there can be no 10-letter substrings, so the output should be an empty list. - No Repeated Sequences: If all 10-letter substrings are unique, the output should be an empty list.
- All Characters Identical: A string like "AAAAAAAAAAAA..." might have many overlapping repeated sequences.
Examples
Example 1:
Input: s = "AAAAACCCCCAAAAACCCCCCAAAAAGGGTTT"
Output: ["AAAAACCCCC", "CCCCCAAAAA"]
Explanation: The 10-letter substrings "AAAAACCCCC" and "CCCCCAAAAA" both appear twice.
Example 2:
Input: s = "AAAAAAAAAAAAA"
Output: ["AAAAAAAAAA"]
Explanation: The 10-letter substring "AAAAAAAAAA" appears 3 times.
Example 3:
Input: s = "AGCTAGCTAGCT"
Output: []
Explanation: All 10-letter substrings are unique. The only 10-letter substrings are "AGCTAGCTAG" and "GCTAGCTAGC".
Constraints
- 1 <= s.length <= 10^5
sconsists only of the characters 'A', 'C', 'G', and 'T'.- The solution should aim for an efficient time complexity.
Notes
- Consider how you can efficiently keep track of the substrings you've already seen.
- Think about data structures that can help with frequency counting or set membership checks.
- The problem involves overlapping substrings, so simply splitting the string into non-overlapping chunks won't work. You'll need to consider sliding windows or similar approaches.