[Genome] (no subject)

[Kayla Smith]

Yanhong,

chr6_qb1_hap2 is a haplotype of chr6.  We have a FAQ on these types of 
chromosomes here:
http://genome.ucsc.edu/FAQ/FAQdownloads#download10

Also, if you scroll down on the gateway page for hg18:
http://genome.ucsc.edu/cgi-bin/hgGateway

You will see some additional information on chr6_qb1_hap2

"chr6_qbl_hap2 -- an A26-B18-DR3 alternate haplotype assembly of the 
chromosome 6 MHC region based on sequence data from the QBL library 
(NT_113892.1, NT_113893.1, NT_113894.1, NT_113895.1, NT_113896.1, 
NT_113897.1)."

I hope this information is helpful to you.  Please don't hesitate to 
contact us again if you require further assistance.

Kayla Smith
UCSC Genome Bioinformatics Group




I was Blat a sequence results is multiple match

Human BLAT Results	

	
	BLAT Search Results
    ACTIONS      QUERY           SCORE START  END QSIZE IDENTITY CHRO
STRAND  START    END      SPAN
------------------------------------------------------------------------
---------------------------
browser
<../cgi-bin/hgTracks?position=chr6_qbl_hap2:3854125-3854615&db=hg18&ss=.
./trash/hgSs/hgSs_genome_4549_9a9c80.pslx+../trash/hgSs/hgSs_genome_4549
_9a9c80.fa&hgsid=93708370>  details
<../cgi-bin/hgc?o=3854124&g=htcUserAli&i=../trash/hgSs/hgSs_genome_4549_
9a9c80.pslx+..%2Ftrash%2FhgSs%2FhgSs_genome_4549_9a9c80.fa+YourSeq&c=chr
6_qbl_hap2&l=3854124&r=3854615&db=hg18&hgsid=93708370>  YourSeq
478     1   492   492  99.0%  6_qbl_hap2   +    3854125   3854615    491
browser
<../cgi-bin/hgTracks?position=chr6_cox_hap1:4050051-4050541&db=hg18&ss=.
./trash/hgSs/hgSs_genome_4549_9a9c80.pslx+../trash/hgSs/hgSs_genome_4549
_9a9c80.fa&hgsid=93708370>  details
<../cgi-bin/hgc?o=4050050&g=htcUserAli&i=../trash/hgSs/hgSs_genome_4549_
9a9c80.pslx+..%2Ftrash%2FhgSs%2FhgSs_genome_4549_9a9c80.fa+YourSeq&c=chr
6_cox_hap1&l=4050050&r=4050541&db=hg18&hgsid=93708370>  YourSeq
478     1   492   492  99.0%  6_cox_hap1   +    4050051   4050541    491
browser
<../cgi-bin/hgTracks?position=chr6:32776054-32776544&db=hg18&ss=../trash
/hgSs/hgSs_genome_4549_9a9c80.pslx+../trash/hgSs/hgSs_genome_4549_9a9c80
.fa&hgsid=93708370>  details
<../cgi-bin/hgc?o=32776053&g=htcUserAli&i=../trash/hgSs/hgSs_genome_4549
_9a9c80.pslx+..%2Ftrash%2FhgSs%2FhgSs_genome_4549_9a9c80.fa+YourSeq&c=ch
r6&l=32776053&r=32776544&db=hg18&hgsid=93708370>  YourSeq          476
1   492   492  98.8%     6   +   32776054  32776544    491
browser
<../cgi-bin/hgTracks?position=chr6_cox_hap1:4135394-4135862&db=hg18&ss=.
./trash/hgSs/hgSs_genome_4549_9a9c80.pslx+../trash/hgSs/hgSs_genome_4549
_9a9c80.fa&hgsid=93708370>  details
<../cgi-bin/hgc?o=4135393&g=htcUserAli&i=../trash/hgSs/hgSs_genome_4549_
9a9c80.pslx+..%2Ftrash%2FhgSs%2FhgSs_genome_4549_9a9c80.fa+YourSeq&c=chr
6_cox_hap1&l=4135393&r=4135862&db=hg18&hgsid=93708370>  YourSeq
394     1   477   492  91.9%  6_cox_hap1   +    4135394   4135862    469
browser
<../cgi-bin/hgTracks?position=chr6_qbl_hap2:3939527-3939995&db=hg18&ss=.
./trash/hgSs/hgSs_genome_4549_9a9c80.pslx+../trash/hgSs/hgSs_genome_4549
_9a9c80.fa&hgsid=93708370>  details
<../cgi-bin/hgc?o=3939526&g=htcUserAli&i=../trash/hgSs/hgSs_genome_4549_
9a9c80.pslx+..%2Ftrash%2FhgSs%2FhgSs_genome_4549_9a9c80.fa+YourSeq&c=chr
6_qbl_hap2&l=3939526&r=3939995&db=hg18&hgsid=93708370>  YourSeq
390     1   477   492  91.4%  6_qbl_hap2   +    3939527   3939995    469



What is chr6_qb1_hap2?  Thanks.