[Genome] question about BACs shown in genome browser

[Archana Thakkapallayil]

Hello Todd,

1) The difference in thickness of the lines at the end of the BAC clones 
reflect the size of the BAC end pairs mapped to the genome.

2) The direction of the arrows show the strand for the BAC clone. The 
BAC clone is the sequence between (and including the ends). If a BAC 
end, that is the forward end maps to the + strand and that from the 
reverse end maps to the - strand, then the BAC clone is from the + 
strand. In this case the arrows look like this: >>>>. If the reverse end 
maps to the + strand and the forward end maps to the - strand, then the 
BAC clone maps to the - strand. In this case the arrows look like this: 
<<<<. In each case, one end maps to the + strand and the other to the - 
strand.

I hope this information is helpful to you. If you have further 
questions, please do not hesitate to contact us again.

Regards,

Archana
UCSC genome Bioinformatics Group


Todd Anthony wrote:
> Hello,
>
> I have two questions that I would be grateful if you could answer:
>
> 1) I noticed that the BAC clones shown in the genome browser differ in the thickness of the lines at the ends; some have thin lines and others thick lines. Does this reflect some difference in the end sequences (e.g. repetitive seqs)?
>
> 2) The BAC clones also differ in the direction of the arrows, some pointing left and others right, even for overlapping clones. What does that mean?
>
> Thank you very much for your time and consideration,
> Yours Sincerely,
> Todd Anthony
>
> ___________________________
> Todd E. Anthony, Ph.D.
> California Institute of Technology
> D. Anderson Laboratory
> 1200 E. California Boulevard
> Division of Biology  216-76
> Pasadena, CA 91125-7600
> Phone: (626) 395-6822
> FAX:    (626) 564-8243
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