Hi all, I recently downloaded blat and and have been using it from my computer (rather than using web based blat). I have been trying to use blat to gather my own SVA data using the SVA consensus sequence from RepBase. The output from blat, though, has never give me more than 32 results per chromosome. I even used a number of small random sequences for my query and I still got a max of 32 results per chromosome.
I tried installing blat from a number of different places in the hope that I simply had a corrupted blat executable but every download gives me the exact same results. I have also played with a number of parameters and none of them seem to change my results much. My database is a text file that has paths to .nib files for each chromosome of the human genome. If anyone knows why this may be happening or how I should fix it I would really appreciate it. Thanks T _______________________________________________ Genome maillist - [email protected] https://lists.soe.ucsc.edu/mailman/listinfo/genome
