Answered: 1. Design an algorithm to align two…

1. Design an algorithm to align two sequences A and B so that if one sequence has global start, the other sequence also has global start.

Biology: The Unity and Diversity of Life (MindTap Course List)

14th Edition

ISBN:9781305073951

Author:Cecie Starr, Ralph Taggart, Christine Evers, Lisa Starr

Publisher:Cecie Starr, Ralph Taggart, Christine Evers, Lisa Starr

Chapter15: Studying And Manipulating Genomes

Section: Chapter Questions

Problem 9SQ: An individuals set of unique _______ can be used in DNA profiling. a. DNA sequences b. short tandem...

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1. Below are the DNA sequences that encode the first eight amino acids for five alleles of the Adh protein in Drosophila pseudoobscura. Nucleotides that differ from the first sequence are shown by a lowercase letter. ATGTCTCTCACCAACAAGAACGTCATGgCTCTCACCAACAAGAACGTCATGTCgCTCACCAACAAGAACGTCATGTCTtTgACCAACAAGAACGTCATGTCTCTCACCAACAAGAACGTg a) What are the first eight amino acids for each of these five DNA sequences?
2. You are making a genetic map and use a cross to measure the distance between genes H and J as 40cMand the distance between J and M as 20cM. When you measure the distance between genes H and M, you get 50 cM. Do the following (A-C). (A) Draw and label a map of genes H, J, and M. (B) What is the genetic distance between genes H and M? How do you know? (Answer in 1 sentence) (C) Complete the table (right). For each pair of genes, write “yes” or “no” to indicate whether the pair of genes are“linked genes” and/orpart of the same“linkage group”.
5. You are attempting to genotype a series of cells at gene A through restriction enzyme digestion. You know that the wild type allele "A" has 2 restriction enzyme cutting sites, creating bands that are 100bp, 200bp, and 300bp. A mutation creating allele "a" removes one of these cutting sites, creating bands that are 100bp and 500bp. How many separate bands would you expect to see on a gel for a cell that is heterozygous Aa?
7. You've completed several two gene mapping experiments and found the followingt results in cM. a-b 21 а-с 11 a-d 24 b-c 10 b-d d-c 3 13 Construct a map of all four genes indicating the gene order and distances between them.
Align two sequences: horizontal – GGAATGG, vertical – ATG, m= 2, mm = 0, g/o = -2, g/e = -1. Complete the NW matrix below and show the alignment paths. Write down and score all optimal alignments. Part 2. Dynamic Programming Assignment, Needleman-Wunsch Algorithm, Affine Gap Cost Click the shapes and move them using arrow keys (or drag). Click the shapes and right-click to copy/paste or click and use Ctrl + C to copy, then Ctrl + V to paste (in MS Word). 0000 Align and score all optimal alignments here. 0000
1. What are the possible effect or consequences if the sequence homology is ignored in homologous recombination? List all possible consequence and explain it comprehensively.
1. The Human Genome Project has demonstrated that in humans of all races and nationalities approximately 99.9 percent of the genome sequence is the same, yet different individuals can be identified by DNA fingerprinting techniques. a. What is one primary variation in the human genome that can be used to distinguish different individuals? b. How has the concept of a reference genome evolved to encompass a broader understanding of genomic variation in humans?
4. Allele specific oligo-nucleotide hybridization is a genetic test used to look for single nucleotide polymorphisms (SNPS) associated with genetic diseases. It uses short sequences of labeled DNA as probes to bind onto either the normal allele or mutated allele in a patient's sample. Given that hemocystinuria is an autosomal recessive disease, use the results from the ASOH test below to determine the GENOTYPE and PHENOTYPE of the newborns born at Henry Mayo Hospital this week. Luis Mina Emma Elias Genotype Phenotype Allele H probe Allele h probe Luis Mina Emma Elias
1. a. Examine the following image showing the results of an ALU insert gel-like. The first lane is the molecular marker. How many + alleles are represented in lanes 2-8? Assume each lane is an individual's amplified diploid DNA. b.The first lane is the molecular marker. How many - alleles are represented in lanes 2-8? Assume each lane is an individual's amplified diploid DNA. c.The first lane is the molecular marker. If lanes 2-8 represent the seven students in the class, what is the frequency of the + allele in this small population? d. If this gel represents the genotypes of all 7 students in a class, what is the EXPECTED number of people that would have a +/+ genotype if this small population were in Hardy-Weinberg equilibrium? (To nearest tenth)
Suppose you are comparing two sequences that are 100 bases long. To calculate the percent similarity (also referred to as percent identity) between the two sequences, you simply count the total number of bases that are identical between the two sequences and divide that value by 100. For example, if two sequences that are 100 bases long have 80 80 bases in common, the percent similarity would be 80% ( 100 x 100). Now practice with three shorter sequences. The following sequences are from three related organisms: Organism A: TGGCATTCAT Organism B: TCGAATACGA Organism C: TGCCTTACAT Drag the terms on the left to the appropriate blanks on the right to answer the questions. Not all terms will be used. Reset Help 30% What is the percent similarity between organisms A and B? 40% What is the percent similarity between organisms A and C?
6). To investigate the genetic control of locomotive behavior in the diploid nematode, Caenorhabditis elegans, eight "wiggly" mutants were isolated, which wiggle in an uncoordinated way rather than smoothly gliding. These eight mutants were crossed together in all possible pairwise combinations, yielding the results summarized in the table above (+ means that all the progeny were wild type, and m means that all the progeny showed the wiggly mutant phenotype). Organize the eight mutations into con lementation groups, each consisting of a group of mutations affecting the same gene. 1 2 3 4 5 6 7 8 1 E N+E 2 3+1 m + m 4 5 + m m E+ + + EE 6 ++E E+ +EE m m + + + + + + + + + m 7 8 ++4 ∞+E +E m m ++ E
The plot shows a correlation between sequence error rate and cluster density on an Illumina flow cell. From your knowledge of how Illumina sequencing works, why do you think there is this correlation?