I. Basic Information

A. Your name 

A. Do you know from your own tests whether filtering is important in determining the differences between the output of the two versions of BlastN?  Select Yes No

B. Do you feel you have a good handle on how homegrown BlastN differs from the NCBI implementation?  Select Very much so Moderately so A bit Not at all

C. What progress have you made in getting homegrown BlastN to give you E-values?  Select Did it Reasonable progress Giving it a try No progress

D. What progress have you made in understanding the inability of BlastN to find the similarity between DG47 and lef?   Select Learned a lot Learned a bit Able to make some changes No progress

E. Please choose up to four study questions from the notes What's wrong with BlastN? that you would most like discussed in class:

SQ1  SQ2  SQ3  SQ4  SQ5  SQ6  SQ7  SQ8 

Comments for questions II.A through II.D:

A. How comfortable are you with reading a PAM frequency table (e.g. Table 2) and a log odds table (e.g. Fig. 3)?  Select Very comfortable Moderately comfortable Somewhat comfortable Not comfortable

B. How comfortable are you with the distinctions between the different versions of PAM and between the different versions of BLOSUM?  Select Very comfortable Moderately comfortable Somewhat comfortable Not comfortable

C. How comfortable are you calculating the score of an amino acid alignment?  Select Very comfortable Moderately comfortable Somewhat comfortable Not comfortable

D. Please choose up to two study questions from the notes Scoring and protein alignments that you would most like discussed in class:

SQ7  SQ8  SQ9  SQ10 

Comments for questions III.A through III.C:

 

Thanks!

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