Vz cpec

[Starnite]

@ericmjl The multiple sequence alignment was done with Clustal Multiple Sequence Alignment. I started writing code for stitching things together (cpec-translate.ipynb under the cpec folder under experiments), but it isn't working just yet.

[ericmjl]

@Starnite cool stuff! Next time, though, don't worry about editing your commit comment, but continue the conversation using the text box at the end.

Be sure to note in the report whether the alignment was done locally or via the EBI web server.

I took a quick look at the code, and it's looking not bad. When do you want to chat about it? I think I can guide you past what you've gotten done so far.

[ericmjl]

@Starnite: just thought of one more thing here.

I think I made a mistake in letting you use EM-28 as the sequencing primer. It should actually be something ~100-120 b.p. upstream of the start of EM-28. In that way, the sequencing results will have good-quality sequencing traces at about the point that the PCR product begins. Likewise, I should have asked you to do a reverse sequencing reaction as well, with the reverse sequencing primer lying ~100-120 b.p. upstream (downstream in the opposite direction) of the start of EM-27.

--sequencing-->          --cloning-->
5'-------------------------------------------------------------------------------------------3'
3'-------------------------------------------------------------------------------------------5'
                                                            <--cloning--        <--sequencing--

[ericmjl]

ping @Starnite: your goals/Oct-16.md has a conflict, FYI.

[ericmjl]

@Starnite: merged. Great work!