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Your task is to write a program that will take a sequence of DNA and a CSV file containing STR counts for a list of individuals and then output to whom the DNA (most likely) belongs.

Question

Your task is to write a program that will take a sequence of DNA and a CSV file containing STR counts for a list of individuals and then output to whom the DNA (most likely) belongs.

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Solution

Sure, here is a Python program that can solve the task. This program assumes that the CSV file has the first row as the header, which contains the names of the STRs, and the first column as the names of the individuals. The rest of the cells contain the STR counts for each individual.

import csv

def main():
    # Load the DNA sequence from a file
    with open('sequence.txt', 'r') as file:
        dna_sequence = file.read()

    # Load the STR counts from a CSV file
    with open('str_counts.csv', 'r') as file:
        reader = csv.reader(file)
        str_counts = list(reader)

    # Get the STR names from the header of the CSV file
    str_names = str_counts[0][1:]

    # Create a dictionary to store the STR counts for the DNA sequence
    dna_str_counts = {str_name: dna_sequence.count(str_name) for str_name in str_names}

    # Compare the STR counts of the DNA sequence with those of each individual
    for individual in str_counts[1:]:
        individual_name = individual[0]
        individual_str_counts = {str_name: int(count) for str_name, count in zip(str_names, individual[1:])}

        # If the STR counts match, print the name of the individual
        if dna_str_counts == individual_str_counts:
            print(f'The DNA most likely belongs to {individual_name}')
            return

    # If no match is found, print a message
    print('No match found')

if __name__ == '__main__':
    main()

Please note that this program uses a simple comparison of STR counts, which may not be accurate in real-world scenarios. In reality, DNA matching often involves more complex statistical methods.

This problem has been solved

Similar Questions

For this lab, imagine you are an IT Specialist at a medium-sized company. The Human Resources Department at your company wants you to find out how many people are in each department. You need to write a Python script that reads a CSV file containing a list of the employees in the organization, counts how many people are in each department, and then generates a report using this information. The output of this script will be a plain text file.

A similar database that is used to compare DNA for possible matches is known as the Combined DNA Index System or (CODIS). Entries are put into CODIS from and known offenders.

The STR profile you just calculated used 6 loci.  Is this sufficient to identify whether this is a suspects DNA?  Why/ why not?

he same segment of DNA from five different people was sequenced and the sequences were aligned to look for regions of DNA sequence identity and SNPs. The results are shown below.

Which sequence of DNA would be suitable in DNA profiling?A. ---ATTCGTGAATCAGCC--B. ---ATTCGTGAATTTGCC--C. ---ATTCGTGATTGCAGC--D. ---ATTCGTGATTCGTGA--

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