Assume we have a `query.fa` file that contains sequences and we run: `blat -stepSize=5 -repMatch=2253 -minScore=20 -minIdentity=0 -out=pslx /genomes/mm10.fa.qz query.fa output.pslx` the output `output.pslx` file looks like this: match mis- rep. N's Q gap Q gap T gap T gap strand Q Q Q Q T T T T block blockSizes qStarts tStarts match match count bases count bases name size start end name size start end count --------------------------------------------------------------------------------------------------------------------------------------------------------------- 20 0 0 0 0 0 0 0 + seq 20 0 20 chr9 124595110 44046930 44046950 20, 0, 44046930, aaaagtatcagtgtgtatag, aaaagtatcagtgtgtatag, 20 0 0 0 0 0 0 0 + seq 20 0 20 chr9 124595110 44046930 44046950 20, 0, 44046930, aaaagtatcagtgtgtatag, aaaagtatcagtgtgtatag, What would be a reasonable way to get the genomic contexts (5bp upsteam and 5bp downstream) for each aligned sequence. For example, assume that `blat` found that the seq: `AAATTGGGGAAAA` aligns to `chr2:100-113`, so the question is how to get `chr2:95-118` easily without reinventing the wheel.