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1. Use electronic PCR to identify STS on large segments of humangenomic DNA.2. Use these STS to generate a map of this region of the genome3. Combine overlapping segments to form a contig
At the bottom of the Genomicspage linked above are links to four segments of human genomic DNA .
Open each page individually. Select and copy the DNA sequenceon that page.
Use the back button to return to the Genomics page and UnderElectronic PCR select "New Version".
Paste the DNA sequence into the box and select "Submit Query".
Record the names and positions of the STS markers found on each segmentof DNA.
Did all of the segments of DNA contain andSTS? Did some STS appear on more than one segmentof DNA?
Once you have used the electronic PCR program to identify the STSs presenton each segment of DNA,
look for common STS present on different segments.
Use the position of these STSs to draw a map of each segment of DNA.
Did any of the DNA segments overlap with eachother? Did all of the DNA segments overlap with eachother?
Combine any overlapping segments into a contig.
This can be done using a sequence editor if you have one on your computer. If not you can use a word processing program.
To use a word processor, copy segment 1 and paste it into theword processor. Hit return 2-3 times to give space betweensequences.
Copy segment 2, which overlaps with segment 1, and pasteit into the word processor.
Go up to segment 1 and copy the last 10-20 bp of sequence.
Use the "Find" function on the word processor to find that samesequence in segment 2.
At the end of the common sequence in segment 2 hit return 2-3times. This separates the overlapping sequence in segment 2 fromthe non-overlapping sequence.
Now select and delete the region of segment 2 that overlappedwith segment 1.
Delete any spaces between segment 1 and segment 2. Thisgenerates a longer contiguous segement of DNA (a contig).
Repeat this process with the other segments.
Why did we need to delete the region of segment2 that overlapped with segment 1 before combining the two segments? What would have happened if we had not removedthis region.