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The main diagonal represents the sequence's alignment with itself; lines off the main diagonal represent similar or repetitive patterns within the sequence. In bioinformatics a dot plot is a graphical method for comparing two biological sequences and identifying regions of close similarity after sequence alignment. It is a type of recurrence plot.
Repeat-related problems: that deal with operations on single sequences and can be based on exact string matching or approximate string matching methods for finding dispersed fixed length and maximal length repeats, finding tandem repeats, and finding unique subsequences and missing (un-spelled) subsequences.
The pattern of repeated sorting passes with decreasing gaps is similar to Shellsort, but in Shellsort the array is sorted completely each pass before going on to the next-smallest gap. Comb sort's passes do not completely sort the elements. This is the reason that Shellsort gap sequences have a larger optimal shrink factor of about 2.25.
Repeated sequences (also known as repetitive elements, repeating units or repeats) are short or long patterns that occur in multiple copies throughout the genome.In many organisms, a significant fraction of the genomic DNA is repetitive, with over two-thirds of the sequence consisting of repetitive elements in humans. [1]
When the cards are sorted by rank with a stable sort, the two 5s must remain in the same order in the sorted output that they were originally in. When they are sorted with a non-stable sort, the 5s may end up in the opposite order in the sorted output. Stable sort algorithms sort equal elements in the same order that they appear in the input.
The system of DNA profiling used today is based on PCR and uses simple sequences [6] or short tandem repeats (STR). This method uses highly polymorphic regions that have short repeated sequences of DNA (the most common is 4 bases repeated, but there are other lengths in use, including 3 and 5 bases).
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Comparison-based sorting algorithms have traditionally dealt with achieving an optimal bound of O(n log n) when dealing with time complexity.Adaptive sort takes advantage of the existing order of the input to try to achieve better times, so that the time taken by the algorithm to sort is a smoothly growing function of the size of the sequence and the disorder in the sequence.