Xq28 [hg17] annotation has definitely changed on your end. Up until recently, Xq/Yq PAR2 was located at chrX:154494747-154824267. Now, in UCSC hg17, the last nucleotide on Xq28 is 154824264. This is likely the source of errors we are seeing. ???
Pat Patrick R. Gonzales, MS, CLSp(CG) Development Technologist I Array CGH-Cytogenetics Laboratory Phone: (507)284-8338 >Fax: (507)284-0043 E-mail: [email protected] ________________________________ Mayo Clinic 200 First Street SW Rochester, MN 55905 www.mayoclinic.org -----Original Message----- From: Jennifer Jackson [mailto:[email protected]] Sent: Tuesday, May 26, 2009 5:23 PM To: Gonzales, Patrick R. Cc: [email protected]; Seger, Pamela R. Subject: Re: [Genome] Problems with Xq28 in hg17/May 2004 Hello, We are unable to duplicate. Would you be able to provide a few more details? 1) are you using the UCSC Browser at http://genome.ucsc.edu ? or a different location/local mirror? 2) are you just entering "Xq28" into the position/search box? Or actual coordinates? If coordinates, double check that the assembly is set correctly. The new human assembly hg19 (Feb. 2009) was recently added to the gateway page and may cause some confusion. Thank you, Jennifer Jackson Gonzales, Patrick R. wrote: > Hello: > > When we try to view human Xq28 in UCSC hg17/May 2004, we get this error > message below the ChrX idiogram display... > > nib read past end of file (154824267 154824264) in file: > /gbdb/hg17/nib/chrX.nib > > Can you help with this? Thanks. > > Pat > > Patrick R. Gonzales, MS, CLSp(CG) > Development Technologist I > Array CGH-Cytogenetics Laboratory > Phone: (507)284-8338 > >> Fax: (507)284-0043 >> > E-mail: [email protected] > ________________________________ > Mayo Clinic > 200 First Street SW > Rochester, MN 55905 > www.mayoclinic.org > > _______________________________________________ > Genome maillist - [email protected] > https://lists.soe.ucsc.edu/mailman/listinfo/genome > _______________________________________________ Genome maillist - [email protected] https://lists.soe.ucsc.edu/mailman/listinfo/genome
