Sorry copied the wrong row. Following is the row I find in chr11.chainSelf
725, 212246, 'chr11', 134452384, 18466024, 18469085, 'chr20', 62435964, '-', 19465389, 19472380, 80309, 77.2 while what I see in UCSC browser is *Human position:* chr11:18466025-18469085 size: 3061 *Strand:* - *Human position: * chr20:42963585-42970575 <http://ucsc.gis.a-star.edu.sg/cgi-bin/hgTracks?db=hg18&position=chr20%3A42963585-42970575> size: 6991 *Chain ID:* 80309 *Score:* 212246 *Approximate Score within browser window:* 1240 The browser reports reports the position to be in chr20:42963585-42970575 while what I get from the chr11.chainSelf is chr20:19465389-19472380. - atif On 3/24/2009 2:44 AM, Jennifer Jackson wrote: > Hello, > > The data reported for the region chr11:56259903-56260492 on the track > description page represents a subset of the data from the entire chain > record (chr11_chainSelf.id = 1118118). That is why the score is > approximate. The track description page explains the display > conventions in the Description section. > > We hope this helps to explain the data, > Jennifer Jackson > UCSC Genome Bioinformatics Group > > > > > > Atif Shahab wrote: >> Hi, >> >> In the UCSC browser I get the following info >> >> *Human position:* chr11:56259903-56260492 size: 590 >> *Strand:* - >> *Human position: * chr20:56904056-56908860 >> <http://ucsc.gis.a-star.edu.sg/cgi-bin/hgTracks?db=hg18&position=chr20%3A56904056-56908860> >> >> size: 4805 >> *Chain ID:* 1118118 >> *Score:* 38233 *Approximate Score within browser window:* 2221 >> >> But when I look into the mysql table for chr11. I find the following >> >> 725, 212246, 'chr11', 134452384, 18466024, 18469085, 'chr20', >> 62435964, '-', 19465389, 19472380, 80309, 77.2 >> >> Notice that the chr20 start/end are different from what is show in >> the browser. Does the browser use some formula to compute the >> start/end? >> >> Also the chain track displays boxes joined by single/double lines. >> Which table contains the info regarding the start/end positions of >> these boxes? >> >> - atif >> _______________________________________________ >> Genome maillist - [email protected] >> http://www.soe.ucsc.edu/mailman/listinfo/genome _______________________________________________ Genome maillist - [email protected] http://www.soe.ucsc.edu/mailman/listinfo/genome
