Alex A. Cardenas Week 3: Difference between revisions
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*Copy and pasted sequences into a txt. file saved it as 'sequence.txt' | *Copy and pasted sequences into a txt. file saved it as 'sequence.txt' | ||
*Uploaded all of the files and then ran them all using ClustalW | *Uploaded all of the files and then ran them all using ClustalW | ||
*After running the program and sequences compared, the scores were: | |||
Sequences (1:2) Aligned. Score: 86 | |||
Sequences (1:3) Aligned. Score: 85 | |||
Sequences (1:4) Aligned. Score: 97 | |||
Sequences (1:5) Aligned. Score: 97 | |||
Sequences (2:3) Aligned. Score: 97 | |||
Sequences (2:4) Aligned. Score: 84 | |||
Sequences (2:5) Aligned. Score: 84 | |||
Sequences (3:4) Aligned. Score: 83 | |||
Sequences (3:5) Aligned. Score: 84 | |||
Sequences (4:5) Aligned. Score: 96 | |||
Questions | Questions |
Revision as of 14:43, 14 September 2011
Methods
- Went to pubmed to find the Markham paper
- Clicked on nucleotide under the links to find the sequences
- Retrieved the sequence file S4V2-4 and viewed it in the FASTA format
- Which was then copy and pasted into Biology workbench.
- Copy and pasted sequences into a txt. file saved it as 'sequence.txt'
- Uploaded all of the files and then ran them all using ClustalW
- After running the program and sequences compared, the scores were:
Sequences (1:2) Aligned. Score: 86 Sequences (1:3) Aligned. Score: 85 Sequences (1:4) Aligned. Score: 97 Sequences (1:5) Aligned. Score: 97 Sequences (2:3) Aligned. Score: 97 Sequences (2:4) Aligned. Score: 84 Sequences (2:5) Aligned. Score: 84 Sequences (3:4) Aligned. Score: 83 Sequences (3:5) Aligned. Score: 84 Sequences (4:5) Aligned. Score: 96
Questions
- What was the accession number of the sequence you chose?
- AF016818
- Which subject of the study was that HIV sequence from? Which section of the record contains information about who the HIV was collected from?
- Subject 2 visit 4
- Envolope glycoprotein region V3 (env) gene