Mouse Genome Bed file

Please check your PM

Hi Employer who may or may not be Mike, Here's the rundown. First, business details. I can do this in a day, easy. I don't need $250; actually a reasonable price would be $50, but hey, if it ain't your money I might as well ask top-dollar... ;-) Pay me what you want, even beer, though I'd prefer cold hard cash, unmarked small bills, non-sequential, in a box with homemade cannoli from The Misses, all mob-bribe style. Second, what I'll give you. Two files, one bed, one fasta. They will each list all the sequences that match the inputs, the bed giving the loci, the fasta giving the sequence, each fasta entry being named by locus. I'll put them in the same order, so they match up easily. For each sequence, I'll give the locus/loci that it matched to, the number of nucleotides that filled in the n-gaps, and the sequence of what filled in the n-gaps. I can put each result in a separate pair of bed/fasta, so that you can separate the results by input. Also, as a third file, if you want, I can give you a tab-delimited spreadsheet where the first 6 columns are the bed file of the matches and the last 6 columns are a bed file of whatever annotated regions the hits intersect (i.e. genes, dbSNP, whatever, just let me know what databases you want intersections for). Third, what I need. Just the input sequences and how many n's you want to allow in the n-gaps. If you want to allow a range of numbers of n's in the gaps, just tell me how many. Doing a search for a range of gap sizes is only minimally more work. -- Chris