Please find details forAssignment 3 (Total of 5 data files + PDF with details about the assignment itself). The first file (PDF) details the question/s. The ptt extension files...

Please find details forAssignment 3


(Total of 5 data files + PDF with details about the assignment itself). The first file (PDF) details the question/s. The ptt extension files (forE_coli,B_subtilis,SynechocystisandHalobacterium) are actually zipped so you will have to unzip them before using and these files are all in tab-delimited text format. As always I am expecting the scripts to be submitted so that when they are run on each of the ptt file I have operon predictions for the genome and like wise another script (for the second part) which can predict the operons in themetagenomefile.


Assignment 1 Assignment 3 • Predict the operons (defined as longest contigous multi-gene transcriptional units) using the PTT files (attached) for the following genomes. (Tip: adjacent co-directional genes with intervening distance less than 50bp can be considered to be in the same operon) 1) Escherichia coli K12 2) Bacillus Subtilis 3) Halobacterium 4) Synechocystis • Now predict the operons in a Crop microbiome from Hoatzin (IMG id 2088090036 obtained from http://img.jgi.doe.gov/cgi- bin/m/main.cgi) using the attached gff file (which is equivalent to ptt file although not identical). The first column comprises of the contig with the fourth and fifth columns comprising the gene start and stops. http://img.jgi.doe.gov/cgi-bin/m/main.cgi http://img.jgi.doe.gov/cgi-bin/m/main.cgi http://img.jgi.doe.gov/cgi-bin/m/main.cgi