https://xmlpipedb.lmucs.io/biodb/fall2013/index.php?action=history&feed=atom&title=Stephen_Louie_Week_4
Stephen Louie Week 4 - Revision history
2026-04-22T22:56:48Z
Revision history for this page on the wiki
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https://xmlpipedb.lmucs.io/biodb/fall2013/index.php?title=Stephen_Louie_Week_4&diff=1944&oldid=prev
Slouie: Added #3
2013-09-20T05:28:21Z
<p>Added #3</p>
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<tr><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div># '''Input:''' cat infA-E.coli-K12.txt  | sed "s/cat[at]at/ <-10box> & <\/-10box> /g" | sed "s/................. <-10box>/ <\/-35box> &/g" |sed "s/...... <\/-35box>/ <-35box> &/g" | sed "s/ <-10box> ...... <\/-10box> ...../& <tss> /g" | sed "s/ <tss> ./& <\/tss> /g" | sed "s/gagg/ <rbs> & <\/rbs>\n/g" | sed "2s/atg/ <start_codon> & <\/start_codon> /1" | sed -r "2s/<\/start_codon> .{3}*t[ag][ag]/& <\/stop_codon> /g" | sed "2s/... <\/stop_codon>/ <stop_codon> &/g" | sed "2s/aaaaggt/ <terminator> &/g" | sed "2s/tttt..../& <\/terminator> /2"  '''Output:'''ttttcaccacaagaatgaatgttttcggcacatttctccccagagtgttataattgcggtcgcagagttggttacgctcattaccccgctgccgataaggaatttttcgcgtcaggtaacgcccatcgtttatctcaccgctcccttatacgttgcgcttttggtgcggcttagccgtgtgttttcggagtaatgtgccgaacctgtttgttgcgatttagcgcgcaaatc <-35box> tttact </-35box> tatttacagaacttcgg <-10box> cattat </-10box> cttgc <tss> c </tss> ggttcaaattacggtagtgatacccca <rbs> gagg </rbs> attag <start_codon> atg </start_codon> gccaaagaagacaatattgaaatgcaaggtaccgttcttgaaacgttgcctaataccatgttccgcgtagagttagaaaacggtcacgtggttactgcacacatctccggtaaaatgcgcaaaaactacatccgcatcctgacgggcgacaaagtgactgttgaactgaccccgtacgacctgagcaaaggccgcattgtcttccgtagtcgc <stop_codon> tga </stop_codon> ttgttttaccgcctgatgggcgaagagaaagaacgagt <terminator> aaaaggtcggtttaaccggcctttttatt </terminator> ttat</div></td><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div># '''Input:''' cat infA-E.coli-K12.txt  | sed "s/cat[at]at/ <-10box> & <\/-10box> /g" | sed "s/................. <-10box>/ <\/-35box> &/g" |sed "s/...... <\/-35box>/ <-35box> &/g" | sed "s/ <-10box> ...... <\/-10box> ...../& <tss> /g" | sed "s/ <tss> ./& <\/tss> /g" | sed "s/gagg/ <rbs> & <\/rbs>\n/g" | sed "2s/atg/ <start_codon> & <\/start_codon> /1" | sed -r "2s/<\/start_codon> .{3}*t[ag][ag]/& <\/stop_codon> /g" | sed "2s/... <\/stop_codon>/ <stop_codon> &/g" | sed "2s/aaaaggt/ <terminator> &/g" | sed "2s/tttt..../& <\/terminator> /2"  '''Output:'''ttttcaccacaagaatgaatgttttcggcacatttctccccagagtgttataattgcggtcgcagagttggttacgctcattaccccgctgccgataaggaatttttcgcgtcaggtaacgcccatcgtttatctcaccgctcccttatacgttgcgcttttggtgcggcttagccgtgtgttttcggagtaatgtgccgaacctgtttgttgcgatttagcgcgcaaatc <-35box> tttact </-35box> tatttacagaacttcgg <-10box> cattat </-10box> cttgc <tss> c </tss> ggttcaaattacggtagtgatacccca <rbs> gagg </rbs> attag <start_codon> atg </start_codon> gccaaagaagacaatattgaaatgcaaggtaccgttcttgaaacgttgcctaataccatgttccgcgtagagttagaaaacggtcacgtggttactgcacacatctccggtaaaatgcgcaaaaactacatccgcatcctgacgggcgacaaagtgactgttgaactgaccccgtacgacctgagcaaaggccgcattgtcttccgtagtcgc <stop_codon> tga </stop_codon> ttgttttaccgcctgatgggcgaagagaaagaacgagt <terminator> aaaaggtcggtttaaccggcctttttatt </terminator> ttat</div></td></tr>
<tr><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>#'''Input:'''cat infA-E.coli-K12.txt  | sed "s/cat[at]at/ <-10box> & <\/-10box> /g" | sed "s/................. <-10box>/ <\/-35box> &/g" |sed "s/...... <\/-35box>/ <-35box> &/g" | sed "s/ <-10box> ...... <\/-10box> ...../& <tss> /g" | sed "s/ <tss> ./& <\/tss> /g" | sed "s/gagg/ <rbs> & <\/rbs>\n/g" | sed "2s/atg/ <start_codon> & <\/start_codon> /1" | sed -r "2s/<\/start_codon> .{3}*t[ag][ag]/& <\/stop_codon> /g" | sed "2s/... <\/stop_codon>/ <stop_codon> &/g" | sed "2s/aaaaggt/ <terminator> &/g" | sed "2s/tttt..../& <\/terminator> /2" | sed "y/atcg/uagc/" '''Output:'''gccaaguuuaaugccaucacuauggggucuccuaaucuaccgguuucuucuguuauaacuuuacguuccauggcaagaacuuugcaacggauuaugguacaaggcgcaucucaaucuuuugccagugcaccaaugacguguguagaggccauuuuacgcguuuuugauguaggcguaggacugcccgcuguuucacugacaacuugacuggggcaugcuggacucguuuccggcguaacagaaggcaucagcgacuaacaaaauggcggacuacccgcuucucuuucuugcucauuuuccagccaaauuggccggaaaaauaa</div></td><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>#'''Input:'''cat infA-E.coli-K12.txt  | sed "s/cat[at]at/ <-10box> & <\/-10box> /g" | sed "s/................. <-10box>/ <\/-35box> &/g" |sed "s/...... <\/-35box>/ <-35box> &/g" | sed "s/ <-10box> ...... <\/-10box> ...../& <tss> /g" | sed "s/ <tss> ./& <\/tss> /g" | sed "s/gagg/ <rbs> & <\/rbs>\n/g" | sed "2s/atg/ <start_codon> & <\/start_codon> /1" | sed -r "2s/<\/start_codon> .{3}*t[ag][ag]/& <\/stop_codon> /g" | sed "2s/... <\/stop_codon>/ <stop_codon> &/g" | sed "2s/aaaaggt/ <terminator> &/g" | sed "2s/tttt..../& <\/terminator> /2" | sed "y/atcg/uagc/" '''Output:'''gccaaguuuaaugccaucacuauggggucuccuaaucuaccgguuucuucuguuauaacuuuacguuccauggcaagaacuuugcaacggauuaugguacaaggcgcaucucaaucuuuugccagugcaccaaugacguguguagaggccauuuuacgcguuuuugauguaggcguaggacugcccgcuguuucacugacaacuugacuggggcaugcuggacucguuuccggcguaacagaaggcaucagcgacuaacaaaauggcggacuacccgcuucucuuucuugcucauuuuccagccaaauuggccggaaaaauaa</div></td></tr>
<tr><td class='diff-marker'>−</td><td style="background: #ffa; color:black; font-size: smaller;"><div> </div></td><td class='diff-marker'>+</td><td style="background: #cfc; color:black; font-size: smaller;"><div><ins class="diffchange diffchange-inline">#'''Input:'''cat infA-E.coli-K12.txt | sed "s/cat[at]at/ <-10box> & <\/-10box> /g" | sed "s/................. <-10box>/ <\/-35box> &/g" |sed "s/...... <\/-35box>/ <-35box> &/g" | sed "s/ <-10box> ...... <\/-10box> ...../& <tss> /g" | sed "s/ <tss> ./& <\/tss> /g" | sed "s/gagg/ <rbs> & <\/rbs>\n/g" | sed "2s/atg/ <start_codon> & <\/start_codon> /1" | sed -r "2s/<\/start_codon> .{3}*t[ag][ag]/& <\/stop_codon> /g" | sed "2s/... <\/stop_codon>/ <stop_codon> &/g" | sed "2s/aaaaggt/ <terminator> &/g" | sed "2s/tttt..../& <\/terminator> /2" | sed ':a;N;$!ba;s/\n//g' | sed "s/ atg <\/start_codon> /\natg/g" |sed "s/ <stop_codon> tga/tga\n/g" |sed 1D |sed 2D | sed "s/.../& /g" | sed "s/t/u/g" | sed -f genetic-code.sed </ins></div></td></tr>
<tr><td colspan="2"> </td><td class='diff-marker'>+</td><td style="background: #cfc; color:black; font-size: smaller;"><div><ins class="diffchange diffchange-inline">'''Output:'''M A K E D N I E M Q G T V L E T L P N T M F R V E L E N G H V V T A H I S G K M R K N Y I R I L T G D K V T V E L T P Y D L S K G R I V F R S R -</ins></div></td></tr>
<tr><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>[[User:Slouie|Slouie]] ([[User talk:Slouie|talk]]) 22:17, 19 September 2013 (PDT)</div></td><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>[[User:Slouie|Slouie]] ([[User talk:Slouie|talk]]) 22:17, 19 September 2013 (PDT)</div></td></tr>
<tr><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>[[Category: Journal Entry]]</div></td><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>[[Category: Journal Entry]]</div></td></tr>
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Slouie
https://xmlpipedb.lmucs.io/biodb/fall2013/index.php?title=Stephen_Louie_Week_4&diff=1940&oldid=prev
Slouie: Added category
2013-09-20T05:23:14Z
<p>Added category</p>
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<td colspan='2' style="background-color: white; color:black;">← Older revision</td>
<td colspan='2' style="background-color: white; color:black;">Revision as of 05:23, 20 September 2013</td>
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<tr><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>[[User:Slouie|Slouie]] ([[User talk:Slouie|talk]]) 22:17, 19 September 2013 (PDT)</div></td><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>[[User:Slouie|Slouie]] ([[User talk:Slouie|talk]]) 22:17, 19 September 2013 (PDT)</div></td></tr>
<tr><td colspan="2"> </td><td class='diff-marker'>+</td><td style="background: #cfc; color:black; font-size: smaller;"><div><ins style="color: red; font-weight: bold; text-decoration: none;">[[Category: Journal Entry]]</ins></div></td></tr>
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Slouie
https://xmlpipedb.lmucs.io/biodb/fall2013/index.php?title=Stephen_Louie_Week_4&diff=1934&oldid=prev
Slouie: added signature
2013-09-20T05:17:30Z
<p>added signature</p>
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<td colspan='2' style="background-color: white; color:black;">Revision as of 05:17, 20 September 2013</td>
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<tr><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div># '''Input:''' cat infA-E.coli-K12.txt  | sed "s/cat[at]at/ <-10box> & <\/-10box> /g" | sed "s/................. <-10box>/ <\/-35box> &/g" |sed "s/...... <\/-35box>/ <-35box> &/g" | sed "s/ <-10box> ...... <\/-10box> ...../& <tss> /g" | sed "s/ <tss> ./& <\/tss> /g" | sed "s/gagg/ <rbs> & <\/rbs>\n/g" | sed "2s/atg/ <start_codon> & <\/start_codon> /1" | sed -r "2s/<\/start_codon> .{3}*t[ag][ag]/& <\/stop_codon> /g" | sed "2s/... <\/stop_codon>/ <stop_codon> &/g" | sed "2s/aaaaggt/ <terminator> &/g" | sed "2s/tttt..../& <\/terminator> /2"  '''Output:'''ttttcaccacaagaatgaatgttttcggcacatttctccccagagtgttataattgcggtcgcagagttggttacgctcattaccccgctgccgataaggaatttttcgcgtcaggtaacgcccatcgtttatctcaccgctcccttatacgttgcgcttttggtgcggcttagccgtgtgttttcggagtaatgtgccgaacctgtttgttgcgatttagcgcgcaaatc <-35box> tttact </-35box> tatttacagaacttcgg <-10box> cattat </-10box> cttgc <tss> c </tss> ggttcaaattacggtagtgatacccca <rbs> gagg </rbs> attag <start_codon> atg </start_codon> gccaaagaagacaatattgaaatgcaaggtaccgttcttgaaacgttgcctaataccatgttccgcgtagagttagaaaacggtcacgtggttactgcacacatctccggtaaaatgcgcaaaaactacatccgcatcctgacgggcgacaaagtgactgttgaactgaccccgtacgacctgagcaaaggccgcattgtcttccgtagtcgc <stop_codon> tga </stop_codon> ttgttttaccgcctgatgggcgaagagaaagaacgagt <terminator> aaaaggtcggtttaaccggcctttttatt </terminator> ttat</div></td><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div># '''Input:''' cat infA-E.coli-K12.txt  | sed "s/cat[at]at/ <-10box> & <\/-10box> /g" | sed "s/................. <-10box>/ <\/-35box> &/g" |sed "s/...... <\/-35box>/ <-35box> &/g" | sed "s/ <-10box> ...... <\/-10box> ...../& <tss> /g" | sed "s/ <tss> ./& <\/tss> /g" | sed "s/gagg/ <rbs> & <\/rbs>\n/g" | sed "2s/atg/ <start_codon> & <\/start_codon> /1" | sed -r "2s/<\/start_codon> .{3}*t[ag][ag]/& <\/stop_codon> /g" | sed "2s/... <\/stop_codon>/ <stop_codon> &/g" | sed "2s/aaaaggt/ <terminator> &/g" | sed "2s/tttt..../& <\/terminator> /2"  '''Output:'''ttttcaccacaagaatgaatgttttcggcacatttctccccagagtgttataattgcggtcgcagagttggttacgctcattaccccgctgccgataaggaatttttcgcgtcaggtaacgcccatcgtttatctcaccgctcccttatacgttgcgcttttggtgcggcttagccgtgtgttttcggagtaatgtgccgaacctgtttgttgcgatttagcgcgcaaatc <-35box> tttact </-35box> tatttacagaacttcgg <-10box> cattat </-10box> cttgc <tss> c </tss> ggttcaaattacggtagtgatacccca <rbs> gagg </rbs> attag <start_codon> atg </start_codon> gccaaagaagacaatattgaaatgcaaggtaccgttcttgaaacgttgcctaataccatgttccgcgtagagttagaaaacggtcacgtggttactgcacacatctccggtaaaatgcgcaaaaactacatccgcatcctgacgggcgacaaagtgactgttgaactgaccccgtacgacctgagcaaaggccgcattgtcttccgtagtcgc <stop_codon> tga </stop_codon> ttgttttaccgcctgatgggcgaagagaaagaacgagt <terminator> aaaaggtcggtttaaccggcctttttatt </terminator> ttat</div></td></tr>
<tr><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>#'''Input:'''cat infA-E.coli-K12.txt  | sed "s/cat[at]at/ <-10box> & <\/-10box> /g" | sed "s/................. <-10box>/ <\/-35box> &/g" |sed "s/...... <\/-35box>/ <-35box> &/g" | sed "s/ <-10box> ...... <\/-10box> ...../& <tss> /g" | sed "s/ <tss> ./& <\/tss> /g" | sed "s/gagg/ <rbs> & <\/rbs>\n/g" | sed "2s/atg/ <start_codon> & <\/start_codon> /1" | sed -r "2s/<\/start_codon> .{3}*t[ag][ag]/& <\/stop_codon> /g" | sed "2s/... <\/stop_codon>/ <stop_codon> &/g" | sed "2s/aaaaggt/ <terminator> &/g" | sed "2s/tttt..../& <\/terminator> /2" | sed "y/atcg/uagc/" '''Output:'''gccaaguuuaaugccaucacuauggggucuccuaaucuaccgguuucuucuguuauaacuuuacguuccauggcaagaacuuugcaacggauuaugguacaaggcgcaucucaaucuuuugccagugcaccaaugacguguguagaggccauuuuacgcguuuuugauguaggcguaggacugcccgcuguuucacugacaacuugacuggggcaugcuggacucguuuccggcguaacagaaggcaucagcgacuaacaaaauggcggacuacccgcuucucuuucuugcucauuuuccagccaaauuggccggaaaaauaa</div></td><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>#'''Input:'''cat infA-E.coli-K12.txt  | sed "s/cat[at]at/ <-10box> & <\/-10box> /g" | sed "s/................. <-10box>/ <\/-35box> &/g" |sed "s/...... <\/-35box>/ <-35box> &/g" | sed "s/ <-10box> ...... <\/-10box> ...../& <tss> /g" | sed "s/ <tss> ./& <\/tss> /g" | sed "s/gagg/ <rbs> & <\/rbs>\n/g" | sed "2s/atg/ <start_codon> & <\/start_codon> /1" | sed -r "2s/<\/start_codon> .{3}*t[ag][ag]/& <\/stop_codon> /g" | sed "2s/... <\/stop_codon>/ <stop_codon> &/g" | sed "2s/aaaaggt/ <terminator> &/g" | sed "2s/tttt..../& <\/terminator> /2" | sed "y/atcg/uagc/" '''Output:'''gccaaguuuaaugccaucacuauggggucuccuaaucuaccgguuucuucuguuauaacuuuacguuccauggcaagaacuuugcaacggauuaugguacaaggcgcaucucaaucuuuugccagugcaccaaugacguguguagaggccauuuuacgcguuuuugauguaggcguaggacugcccgcuguuucacugacaacuugacuggggcaugcuggacucguuuccggcguaacagaaggcaucagcgacuaacaaaauggcggacuacccgcuucucuuucuugcucauuuuccagccaaauuggccggaaaaauaa</div></td></tr>
<tr><td colspan="2"> </td><td class='diff-marker'>+</td><td style="background: #cfc; color:black; font-size: smaller;"><div><ins style="color: red; font-weight: bold; text-decoration: none;"></ins></div></td></tr>
<tr><td colspan="2"> </td><td class='diff-marker'>+</td><td style="background: #cfc; color:black; font-size: smaller;"><div><ins style="color: red; font-weight: bold; text-decoration: none;">[[User:Slouie|Slouie]] ([[User talk:Slouie|talk]]) 22:17, 19 September 2013 (PDT)</ins></div></td></tr>
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Slouie
https://xmlpipedb.lmucs.io/biodb/fall2013/index.php?title=Stephen_Louie_Week_4&diff=1908&oldid=prev
Slouie: Edited second answer
2013-09-20T04:37:05Z
<p>Edited second answer</p>
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<td colspan='2' style="background-color: white; color:black;">Revision as of 04:37, 20 September 2013</td>
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<tr><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div># '''Input:''' cat infA-E.coli-K12.txt  | sed "s/cat[at]at/ <-10box> & <\/-10box> /g" | sed "s/................. <-10box>/ <\/-35box> &/g" |sed "s/...... <\/-35box>/ <-35box> &/g" | sed "s/ <-10box> ...... <\/-10box> ...../& <tss> /g" | sed "s/ <tss> ./& <\/tss> /g" | sed "s/gagg/ <rbs> & <\/rbs>\n/g" | sed "2s/atg/ <start_codon> & <\/start_codon> /1" | sed -r "2s/<\/start_codon> .{3}*t[ag][ag]/& <\/stop_codon> /g" | sed "2s/... <\/stop_codon>/ <stop_codon> &/g" | sed "2s/aaaaggt/ <terminator> &/g" | sed "2s/tttt..../& <\/terminator> /2"  '''Output:'''ttttcaccacaagaatgaatgttttcggcacatttctccccagagtgttataattgcggtcgcagagttggttacgctcattaccccgctgccgataaggaatttttcgcgtcaggtaacgcccatcgtttatctcaccgctcccttatacgttgcgcttttggtgcggcttagccgtgtgttttcggagtaatgtgccgaacctgtttgttgcgatttagcgcgcaaatc <-35box> tttact </-35box> tatttacagaacttcgg <-10box> cattat </-10box> cttgc <tss> c </tss> ggttcaaattacggtagtgatacccca <rbs> gagg </rbs> attag <start_codon> atg </start_codon> gccaaagaagacaatattgaaatgcaaggtaccgttcttgaaacgttgcctaataccatgttccgcgtagagttagaaaacggtcacgtggttactgcacacatctccggtaaaatgcgcaaaaactacatccgcatcctgacgggcgacaaagtgactgttgaactgaccccgtacgacctgagcaaaggccgcattgtcttccgtagtcgc <stop_codon> tga </stop_codon> ttgttttaccgcctgatgggcgaagagaaagaacgagt <terminator> aaaaggtcggtttaaccggcctttttatt </terminator> ttat</div></td><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div># '''Input:''' cat infA-E.coli-K12.txt  | sed "s/cat[at]at/ <-10box> & <\/-10box> /g" | sed "s/................. <-10box>/ <\/-35box> &/g" |sed "s/...... <\/-35box>/ <-35box> &/g" | sed "s/ <-10box> ...... <\/-10box> ...../& <tss> /g" | sed "s/ <tss> ./& <\/tss> /g" | sed "s/gagg/ <rbs> & <\/rbs>\n/g" | sed "2s/atg/ <start_codon> & <\/start_codon> /1" | sed -r "2s/<\/start_codon> .{3}*t[ag][ag]/& <\/stop_codon> /g" | sed "2s/... <\/stop_codon>/ <stop_codon> &/g" | sed "2s/aaaaggt/ <terminator> &/g" | sed "2s/tttt..../& <\/terminator> /2"  '''Output:'''ttttcaccacaagaatgaatgttttcggcacatttctccccagagtgttataattgcggtcgcagagttggttacgctcattaccccgctgccgataaggaatttttcgcgtcaggtaacgcccatcgtttatctcaccgctcccttatacgttgcgcttttggtgcggcttagccgtgtgttttcggagtaatgtgccgaacctgtttgttgcgatttagcgcgcaaatc <-35box> tttact </-35box> tatttacagaacttcgg <-10box> cattat </-10box> cttgc <tss> c </tss> ggttcaaattacggtagtgatacccca <rbs> gagg </rbs> attag <start_codon> atg </start_codon> gccaaagaagacaatattgaaatgcaaggtaccgttcttgaaacgttgcctaataccatgttccgcgtagagttagaaaacggtcacgtggttactgcacacatctccggtaaaatgcgcaaaaactacatccgcatcctgacgggcgacaaagtgactgttgaactgaccccgtacgacctgagcaaaggccgcattgtcttccgtagtcgc <stop_codon> tga </stop_codon> ttgttttaccgcctgatgggcgaagagaaagaacgagt <terminator> aaaaggtcggtttaaccggcctttttatt </terminator> ttat</div></td></tr>
<tr><td class='diff-marker'>−</td><td style="background: #ffa; color:black; font-size: smaller;"><div>#'''Input:'''cat infA-E.coli-K12.txt  | sed "s/cat[at]at/ <-10box> & <\/-10box> /g" | sed "s/................. <-10box>/ <\/-35box> &/g" |sed "s/...... <\/-35box>/ <-35box> &/g" | sed "s/ <-10box> ...... <\/-10box> ...../& <tss> /g" | sed "s/ <tss> ./& <\/tss> /g" | sed "s/gagg/ <rbs> & <\/rbs>\n/g" | sed "2s/atg/ <start_codon> & <\/start_codon> /1" | sed -r "2s/<\/start_codon> .{3}*t[ag][ag]/& <\/stop_codon> /g" | sed "2s/... <\/stop_codon>/ <stop_codon> &/g" | sed "2s/aaaaggt/ <terminator> &/g" | sed "2s/tttt..../& <\/terminator> /2" | sed "y/atcg/uagc/"</div></td><td class='diff-marker'>+</td><td style="background: #cfc; color:black; font-size: smaller;"><div>#'''Input:'''cat infA-E.coli-K12.txt  | sed "s/cat[at]at/ <-10box> & <\/-10box> /g" | sed "s/................. <-10box>/ <\/-35box> &/g" |sed "s/...... <\/-35box>/ <-35box> &/g" | sed "s/ <-10box> ...... <\/-10box> ...../& <tss> /g" | sed "s/ <tss> ./& <\/tss> /g" | sed "s/gagg/ <rbs> & <\/rbs>\n/g" | sed "2s/atg/ <start_codon> & <\/start_codon> /1" | sed -r "2s/<\/start_codon> .{3}*t[ag][ag]/& <\/stop_codon> /g" | sed "2s/... <\/stop_codon>/ <stop_codon> &/g" | sed "2s/aaaaggt/ <terminator> &/g" | sed "2s/tttt..../& <\/terminator> /2" | sed "y/atcg/uagc/" '''Output:'''gccaaguuuaaugccaucacuauggggucuccuaaucuaccgguuucuucuguuauaacuuuacguuccauggcaagaacuuugcaacggauuaugguacaaggcgcaucucaaucuuuugccagugcaccaaugacguguguagaggccauuuuacgcguuuuugauguaggcguaggacugcccgcuguuucacugacaacuugacuggggcaugcuggacucguuuccggcguaacagaaggcaucagcgacuaacaaaauggcggacuacccgcuucucuuucuugcucauuuuccagccaaauuggccggaaaaauaa</div></td></tr>
<tr><td class='diff-marker'>−</td><td style="background: #ffa; color:black; font-size: smaller;"><div>'''Output:'''gccaaguuuaaugccaucacuauggggucuccuaaucuaccgguuucuucuguuauaacuuuacguuccauggcaagaacuuugcaacggauuaugguacaaggcgcaucucaaucuuuugccagugcaccaaugacguguguagaggccauuuuacgcguuuuugauguaggcguaggacugcccgcuguuucacugacaacuugacuggggcaugcuggacucguuuccggcguaacagaaggcaucagcgacuaacaaaauggcggacuacccgcuucucuuucuugcucauuuuccagccaaauuggccggaaaaauaa</div></td><td class='diff-marker'>+</td><td style="background: #cfc; color:black; font-size: smaller;"><div></div></td></tr>
</table>
Slouie
https://xmlpipedb.lmucs.io/biodb/fall2013/index.php?title=Stephen_Louie_Week_4&diff=1906&oldid=prev
Slouie: Added second answer
2013-09-20T04:35:44Z
<p>Added second answer</p>
<table class='diff diff-contentalign-left'>
<col class='diff-marker' />
<col class='diff-content' />
<col class='diff-marker' />
<col class='diff-content' />
<tr style='vertical-align: top;'>
<td colspan='2' style="background-color: white; color:black;">← Older revision</td>
<td colspan='2' style="background-color: white; color:black;">Revision as of 04:35, 20 September 2013</td>
</tr><tr><td colspan="2" class="diff-lineno">Line 2:</td>
<td colspan="2" class="diff-lineno">Line 2:</td></tr>
<tr><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"></td><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"></td></tr>
<tr><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div># '''Input:''' cat infA-E.coli-K12.txt  | sed "s/cat[at]at/ <-10box> & <\/-10box> /g" | sed "s/................. <-10box>/ <\/-35box> &/g" |sed "s/...... <\/-35box>/ <-35box> &/g" | sed "s/ <-10box> ...... <\/-10box> ...../& <tss> /g" | sed "s/ <tss> ./& <\/tss> /g" | sed "s/gagg/ <rbs> & <\/rbs>\n/g" | sed "2s/atg/ <start_codon> & <\/start_codon> /1" | sed -r "2s/<\/start_codon> .{3}*t[ag][ag]/& <\/stop_codon> /g" | sed "2s/... <\/stop_codon>/ <stop_codon> &/g" | sed "2s/aaaaggt/ <terminator> &/g" | sed "2s/tttt..../& <\/terminator> /2"  '''Output:'''ttttcaccacaagaatgaatgttttcggcacatttctccccagagtgttataattgcggtcgcagagttggttacgctcattaccccgctgccgataaggaatttttcgcgtcaggtaacgcccatcgtttatctcaccgctcccttatacgttgcgcttttggtgcggcttagccgtgtgttttcggagtaatgtgccgaacctgtttgttgcgatttagcgcgcaaatc <-35box> tttact </-35box> tatttacagaacttcgg <-10box> cattat </-10box> cttgc <tss> c </tss> ggttcaaattacggtagtgatacccca <rbs> gagg </rbs> attag <start_codon> atg </start_codon> gccaaagaagacaatattgaaatgcaaggtaccgttcttgaaacgttgcctaataccatgttccgcgtagagttagaaaacggtcacgtggttactgcacacatctccggtaaaatgcgcaaaaactacatccgcatcctgacgggcgacaaagtgactgttgaactgaccccgtacgacctgagcaaaggccgcattgtcttccgtagtcgc <stop_codon> tga </stop_codon> ttgttttaccgcctgatgggcgaagagaaagaacgagt <terminator> aaaaggtcggtttaaccggcctttttatt </terminator> ttat</div></td><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div># '''Input:''' cat infA-E.coli-K12.txt  | sed "s/cat[at]at/ <-10box> & <\/-10box> /g" | sed "s/................. <-10box>/ <\/-35box> &/g" |sed "s/...... <\/-35box>/ <-35box> &/g" | sed "s/ <-10box> ...... <\/-10box> ...../& <tss> /g" | sed "s/ <tss> ./& <\/tss> /g" | sed "s/gagg/ <rbs> & <\/rbs>\n/g" | sed "2s/atg/ <start_codon> & <\/start_codon> /1" | sed -r "2s/<\/start_codon> .{3}*t[ag][ag]/& <\/stop_codon> /g" | sed "2s/... <\/stop_codon>/ <stop_codon> &/g" | sed "2s/aaaaggt/ <terminator> &/g" | sed "2s/tttt..../& <\/terminator> /2"  '''Output:'''ttttcaccacaagaatgaatgttttcggcacatttctccccagagtgttataattgcggtcgcagagttggttacgctcattaccccgctgccgataaggaatttttcgcgtcaggtaacgcccatcgtttatctcaccgctcccttatacgttgcgcttttggtgcggcttagccgtgtgttttcggagtaatgtgccgaacctgtttgttgcgatttagcgcgcaaatc <-35box> tttact </-35box> tatttacagaacttcgg <-10box> cattat </-10box> cttgc <tss> c </tss> ggttcaaattacggtagtgatacccca <rbs> gagg </rbs> attag <start_codon> atg </start_codon> gccaaagaagacaatattgaaatgcaaggtaccgttcttgaaacgttgcctaataccatgttccgcgtagagttagaaaacggtcacgtggttactgcacacatctccggtaaaatgcgcaaaaactacatccgcatcctgacgggcgacaaagtgactgttgaactgaccccgtacgacctgagcaaaggccgcattgtcttccgtagtcgc <stop_codon> tga </stop_codon> ttgttttaccgcctgatgggcgaagagaaagaacgagt <terminator> aaaaggtcggtttaaccggcctttttatt </terminator> ttat</div></td></tr>
<tr><td colspan="2"> </td><td class='diff-marker'>+</td><td style="background: #cfc; color:black; font-size: smaller;"><div><ins style="color: red; font-weight: bold; text-decoration: none;">#'''Input:'''cat infA-E.coli-K12.txt  | sed "s/cat[at]at/ <-10box> & <\/-10box> /g" | sed "s/................. <-10box>/ <\/-35box> &/g" |sed "s/...... <\/-35box>/ <-35box> &/g" | sed "s/ <-10box> ...... <\/-10box> ...../& <tss> /g" | sed "s/ <tss> ./& <\/tss> /g" | sed "s/gagg/ <rbs> & <\/rbs>\n/g" | sed "2s/atg/ <start_codon> & <\/start_codon> /1" | sed -r "2s/<\/start_codon> .{3}*t[ag][ag]/& <\/stop_codon> /g" | sed "2s/... <\/stop_codon>/ <stop_codon> &/g" | sed "2s/aaaaggt/ <terminator> &/g" | sed "2s/tttt..../& <\/terminator> /2" | sed "y/atcg/uagc/"</ins></div></td></tr>
<tr><td colspan="2"> </td><td class='diff-marker'>+</td><td style="background: #cfc; color:black; font-size: smaller;"><div><ins style="color: red; font-weight: bold; text-decoration: none;">'''Output:'''gccaaguuuaaugccaucacuauggggucuccuaaucuaccgguuucuucuguuauaacuuuacguuccauggcaagaacuuugcaacggauuaugguacaaggcgcaucucaaucuuuugccagugcaccaaugacguguguagaggccauuuuacgcguuuuugauguaggcguaggacugcccgcuguuucacugacaacuugacuggggcaugcuggacucguuuccggcguaacagaaggcaucagcgacuaacaaaauggcggacuacccgcuucucuuucuugcucauuuuccagccaaauuggccggaaaaauaa</ins></div></td></tr>
</table>
Slouie
https://xmlpipedb.lmucs.io/biodb/fall2013/index.php?title=Stephen_Louie_Week_4&diff=1895&oldid=prev
Slouie: Added output
2013-09-20T04:23:33Z
<p>Added output</p>
<table class='diff diff-contentalign-left'>
<col class='diff-marker' />
<col class='diff-content' />
<col class='diff-marker' />
<col class='diff-content' />
<tr style='vertical-align: top;'>
<td colspan='2' style="background-color: white; color:black;">← Older revision</td>
<td colspan='2' style="background-color: white; color:black;">Revision as of 04:23, 20 September 2013</td>
</tr><tr><td colspan="2" class="diff-lineno">Line 1:</td>
<td colspan="2" class="diff-lineno">Line 1:</td></tr>
<tr><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>==Transcription and Translation “Taken to the Next Level”==</div></td><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>==Transcription and Translation “Taken to the Next Level”==</div></td></tr>
<tr><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"></td><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"></td></tr>
<tr><td class='diff-marker'>−</td><td style="background: #ffa; color:black; font-size: smaller;"><div># cat infA-E.coli-K12.txt  | sed "s/cat[at]at/ <-10box> & <\/-10box> /g" | sed "s/................. <-10box>/ <\/-35box> &/g" |sed "s/...... <\/-35box>/ <-35box> &/g" | sed "s/ <-10box> ...... <\/-10box> ...../& <tss> /g" | sed "s/ <tss> ./& <\/tss> /g" | sed "s/gagg/ <rbs> & <\/rbs>\n/g" | sed "2s/atg/ <start_codon> & <\/start_codon> /1" | sed -r "2s/<\/start_codon> .{3}*t[ag][ag]/& <\/stop_codon> /g" | sed "2s/... <\/stop_codon>/ <stop_codon> &/g" | sed "2s/aaaaggt/ <terminator> &/g" | sed "2s/tttt..../& <\/terminator> /2"</div></td><td class='diff-marker'>+</td><td style="background: #cfc; color:black; font-size: smaller;"><div># <ins class="diffchange diffchange-inline">'''Input:''' </ins>cat infA-E.coli-K12.txt  | sed "s/cat[at]at/ <-10box> & <\/-10box> /g" | sed "s/................. <-10box>/ <\/-35box> &/g" |sed "s/...... <\/-35box>/ <-35box> &/g" | sed "s/ <-10box> ...... <\/-10box> ...../& <tss> /g" | sed "s/ <tss> ./& <\/tss> /g" | sed "s/gagg/ <rbs> & <\/rbs>\n/g" | sed "2s/atg/ <start_codon> & <\/start_codon> /1" | sed -r "2s/<\/start_codon> .{3}*t[ag][ag]/& <\/stop_codon> /g" | sed "2s/... <\/stop_codon>/ <stop_codon> &/g" | sed "2s/aaaaggt/ <terminator> &/g" | sed "2s/tttt..../& <\/terminator> /2" <ins class="diffchange diffchange-inline"> '''Output:'''ttttcaccacaagaatgaatgttttcggcacatttctccccagagtgttataattgcggtcgcagagttggttacgctcattaccccgctgccgataaggaatttttcgcgtcaggtaacgcccatcgtttatctcaccgctcccttatacgttgcgcttttggtgcggcttagccgtgtgttttcggagtaatgtgccgaacctgtttgttgcgatttagcgcgcaaatc <-35box> tttact </-35box> tatttacagaacttcgg <-10box> cattat </-10box> cttgc <tss> c </tss> ggttcaaattacggtagtgatacccca <rbs> gagg </rbs> attag <start_codon> atg </start_codon> gccaaagaagacaatattgaaatgcaaggtaccgttcttgaaacgttgcctaataccatgttccgcgtagagttagaaaacggtcacgtggttactgcacacatctccggtaaaatgcgcaaaaactacatccgcatcctgacgggcgacaaagtgactgttgaactgaccccgtacgacctgagcaaaggccgcattgtcttccgtagtcgc <stop_codon> tga </stop_codon> ttgttttaccgcctgatgggcgaagagaaagaacgagt <terminator> aaaaggtcggtttaaccggcctttttatt </terminator> ttat</ins></div></td></tr>
</table>
Slouie
https://xmlpipedb.lmucs.io/biodb/fall2013/index.php?title=Stephen_Louie_Week_4&diff=1880&oldid=prev
Slouie: Added command
2013-09-20T04:11:40Z
<p>Added command</p>
<table class='diff diff-contentalign-left'>
<col class='diff-marker' />
<col class='diff-content' />
<col class='diff-marker' />
<col class='diff-content' />
<tr style='vertical-align: top;'>
<td colspan='2' style="background-color: white; color:black;">← Older revision</td>
<td colspan='2' style="background-color: white; color:black;">Revision as of 04:11, 20 September 2013</td>
</tr><tr><td colspan="2" class="diff-lineno">Line 1:</td>
<td colspan="2" class="diff-lineno">Line 1:</td></tr>
<tr><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>==Transcription and Translation “Taken to the Next Level”==</div></td><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>==Transcription and Translation “Taken to the Next Level”==</div></td></tr>
<tr><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"></td><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"></td></tr>
<tr><td class='diff-marker'>−</td><td style="background: #ffa; color:black; font-size: smaller;"><div>#</div></td><td class='diff-marker'>+</td><td style="background: #cfc; color:black; font-size: smaller;"><div># <ins class="diffchange diffchange-inline">cat infA-E.coli-K12.txt  | sed "s/cat[at]at/ <-10box> & <\/-10box> /g" | sed "s/................. <-10box>/ <\/-35box> &/g" |sed "s/...... <\/-35box>/ <-35box> &/g" | sed "s/ <-10box> ...... <\/-10box> ...../& <tss> /g" | sed "s/ <tss> ./& <\/tss> /g" | sed "s/gagg/ <rbs> & <\/rbs>\n/g" | sed "2s/atg/ <start_codon> & <\/start_codon> /1" | sed -r "2s/<\/start_codon> .{3}*t[ag][ag]/& <\/stop_codon> /g" | sed "2s/... <\/stop_codon>/ <stop_codon> &/g" | sed "2s/aaaaggt/ <terminator> &/g" | sed "2s/tttt..../& <\/terminator> /2"</ins></div></td></tr>
</table>
Slouie
https://xmlpipedb.lmucs.io/biodb/fall2013/index.php?title=Stephen_Louie_Week_4&diff=1876&oldid=prev
Slouie: Added Transcription and Translation
2013-09-20T04:06:33Z
<p>Added Transcription and Translation</p>
<p><b>New page</b></p><div>==Transcription and Translation “Taken to the Next Level”==<br />
<br />
#</div>
Slouie