Difference between revisions of "Gleis Week 3"
From LMU BioDB 2013
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(Genetic code by computer commands) |
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:: 2 unique matches | :: 2 unique matches | ||
:: First unique match occured twice. Second match occured once | :: First unique match occured twice. Second match occured once | ||
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| + | ==The Genetic Code, By Computer== | ||
| + | ===Complement of a Strand=== | ||
| + | cat sequence_file | sed "y/atgc/tacg/" | ||
| + | ===Reading Frames=== | ||
| + | +1 cat sequence_file | sed "s/.../& /g" | sed "s/t/u/g" | sed -f genetic-code.sed | ||
| + | +2 cat sequence_file | sed "s/^.//g" | sed "s/.../& /g" | sed "s/t/u/g" | sed -f genetic-code.sed | ||
| + | +3 cat sequence_file | sed "s/^..//g" | sed "s/.../& /g" | sed "s/t/u/g" | sed -f genetic-code.sed | ||
| + | -1 cat sequence_file | sed "y/atgc/tacg/" | rev | sed "s/.../& /g" | sed "s/t/u/g" | sed -f genetic-code.sed | ||
| + | -2 cat sequence_file | sed "y/atgc/tacg/" | rev | sed "s/^.//g" | sed "s/.../& /g" | sed "s/t/u/g" | sed -f genetic-code.sed | ||
| + | -3 cat sequence_file | sed "y/atgc/tacg/" | rev | sed "s/^..//g" | sed "s/.../& /g" | sed "s/t/u/g" | sed -f genetic-code.sed | ||
Revision as of 18:11, 12 September 2013
Contents |
XMLPIPEDB MATCH
- What Match command tallies the occurrences of the pattern GO:000916. in the 493.P_falciparum.xml file?
- 2 unique matches
- First unique match occured twice. Second match occured once
The Genetic Code, By Computer
Complement of a Strand
cat sequence_file | sed "y/atgc/tacg/"
Reading Frames
+1 cat sequence_file | sed "s/.../& /g" | sed "s/t/u/g" | sed -f genetic-code.sed +2 cat sequence_file | sed "s/^.//g" | sed "s/.../& /g" | sed "s/t/u/g" | sed -f genetic-code.sed +3 cat sequence_file | sed "s/^..//g" | sed "s/.../& /g" | sed "s/t/u/g" | sed -f genetic-code.sed -1 cat sequence_file | sed "y/atgc/tacg/" | rev | sed "s/.../& /g" | sed "s/t/u/g" | sed -f genetic-code.sed -2 cat sequence_file | sed "y/atgc/tacg/" | rev | sed "s/^.//g" | sed "s/.../& /g" | sed "s/t/u/g" | sed -f genetic-code.sed -3 cat sequence_file | sed "y/atgc/tacg/" | rev | sed "s/^..//g" | sed "s/.../& /g" | sed "s/t/u/g" | sed -f genetic-code.sed
