[Genome] Help!

[Hiram Clawson]

Good Morning WenXin Zheng:

Please use the Mouse Chain and Net tracks on the Human genome browser
to observe the alignment between the Mouse and Human sequences.

The blastz operation between Mouse and Human is performed here on
a super computer with 394 CPUs (AMD Opteron's at 2 Ghz) with 4 Gb of memory.
The operation is typically broken into approximately 100,000 separate
instances of blastz, each job running for an average time of about
9 minutes.  A total run time of about 1.7 years on a single CPU.

--Hiram

ZhengWenXin wrote:
> Dear Prof.,
>        Would you please help me to resolve a problem about the conservation track of the UCSC genome browser?
>        I’m interested in the conservation of the human genome with other species. As described in the Methods part, pairwise alignments with the human genome were generated for each species using blastz from repeat-masked genomic sequence. For example, how can I get the best alignment of the human genome and the mouse genome? If I use the blastz software to do it on a PC, how long it will take? Would you please give me an estimate? And I also want to know you hardware environment in which you perform the pairwise alignments. 
>        Thank you very much! Your help will be greatly appreciated.
> Best wishes,
> WenXin Zheng
>  
>  
>  
>  
> Wen-Xin Zheng, PhD candidate
> Bioinformatics Center
> Tianjin University
> Tianjin 300072
> China
> Fax: +86-22-27402697
> Website: http://tubic.tju.edu.cn
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