Vkuehn Week 4

Transcription and Translation

• cat infA-E.coli-K12.txt | sed "s/cat[at]at/ <minus10box>&<\/minus10box> /g" | sed "s/................. <minus10/<\/minus35box> &/g" | sed "s/tt[gt]ac[at]<\/minus35box/ <minus35box>&/g" | sed "s/<\/minus10box> ......./& <tss> /g" |sed "s/<tss> .../& <\/tss> /g" | sed "s/gagg/ <rbs> & <\/rbs> /g"
• Added Start codon- terminator:

cat infA-E.coli-K12.txt | sed "s/cat[at]at/ <minus10box>&<\/minus10box> /g" | sed "s/................. <minus10/<\/minus35box> &/g" | sed "s/tt[gt]ac[at]<\/minus35box/ <minus35box>&/g" | sed "s/<\/minus10box> ......./& <tss> /g" |sed "s/<tss> ./& <\/tss> /g" | sed "s/gagg/ <rbs> & <\/rbs> \n/g" | sed "2s/atg/ <start_codon> & <\/start_codon> \n/1" | sed "3s/.../& /g" | sed "3s/t[ag][ag]/ <stop_codon>&<\/stop_codon>/g" | sed "3s/ //g" | sed "s/\/stop_codon>/&\n/g" | sed "4s/aaaaggt.*gcctttt..../ <terminator> & <\/terminator> /g"