Hi Peng, The BLAT program author, Jim Kent, has full control over the functionality. We hope that by explaining the existing rules that you will be able to make any necessary adjustments to your data. We apologize for any inconvenience this may cause you.
Thank you again for your input! Jennifer --------------------------------- Jennifer Jackson UCSC Genome Informatics Group http://genome.ucsc.edu/ On 5/25/10 4:34 PM, Peng Yu wrote: > Is there a particular reason why it is designed this way? To me, it > seems that this trimming rule is not necessary. Does it give us a lot > of benefit in certain important cases? > > On Tue, May 25, 2010 at 6:31 PM, Mary Goldman<[email protected]> wrote: >> Hi Peng, >> >> Blat is designed to split the name of query if it finds a bar "|" or a space >> " " and the name is longer than 14 characters. If blat finds a space, it >> takes the characters to the left of space; if blat finds a bar, it takes the >> characters to the right of the bar. >> >> I hope this information is helpful. Please feel free to contact the mail >> list again if you require further assistance. >> >> Best, >> Mary >> ------------------ >> Mary Goldman >> UCSC Bioinformatics Group >> >> On 5/25/10 2:34 PM, Peng Yu wrote: >>> >>> Hi, >>> >>> I try blat the following sequence. The name turns out to be >>> '137307608' rather than 'uc009jzs.1|0|137307608'. Is it a bug in the >>> genome browser? >>> >>> >>>> >>>> uc009jzs.1|0|137307608 >>>> >>> >>> NNTCGAGAGGCTGGGTGAGATCCAAGTATTCCTCATTGGTTGTGAGAGTCAGAATTCGATNN >>> >>> >>> >> > > > _______________________________________________ Genome maillist - [email protected] https://lists.soe.ucsc.edu/mailman/listinfo/genome
