Hi, I am using standalone BLAT to search genomic locations for several sequences. In the test set I have 13 sequences with varying lengths totaling 1469 bases. For some reason, BLAT produces results for all except the last sequence. I checked that sequence by loading into UCSC Genome Browser BLAT server and it worked fine and pretty fast. See the attached snapshot of those results. I have tried to play a little with the BLAT parameters, it has no effect and if I lower too much the stepSize and tileSize it takes longer to finish. Any suggestion!
Thanks in advance. perdeep Perdeep K. Mehta, PhD Research Informatics, Information Sciences Division St. Jude Children's Research Hospital 262 Danny Thomas Place Memphis, TN 38105-2794 Tel: 901-495 3774 http://www.hatwellcenter.org/
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