Hello ZC,
For the region you've indicated, on the hg18 assembly, I do see conservation between human and chimp. I agree that if you open the browser at this position, it looks as though there is no conservation. But if you go into the track controls, and change the scaling of the y-axis to "auto", you can see that the conservation with chimp is represented. Please see this previously answered mailing list question on related topics, which may help you with your understanding of this data: https://lists.soe.ucsc.edu/pipermail/genome/2007-July/014231.html I hope this information is helpful to you. Please don't hesitate to contact us again if you require further asssistance. Kayla Smith UCSC Genome Bioinformatics Group ----- "zhuocheng Hou" <[email protected]> wrote: > Hi all, > > I found the phastCon score is different between genome browser and > original > phastCon file which downloaded from genome bowser website. > For example, if we input human chr15:18,295,803-18,295,903 on the > browser, > and you will find no conservation score/no multiple alignment for > this > region for 28way phastCon result. But, if we directly open the file > for > 28way_placenta(chr15.wigFix) file, the first step is this region, you > would > find the conservation score is not low(ranged from 0.181-0.361). > > I think there are some problems for some parts of the data/genome > browser/update. > > Can anyone check it or give me some comments? > > ZC > _______________________________________________ > Genome maillist - [email protected] > https://lists.soe.ucsc.edu/mailman/listinfo/genome _______________________________________________ Genome maillist - [email protected] https://lists.soe.ucsc.edu/mailman/listinfo/genome
