ucsc genome browser variants read
hi all,
I have a question in UCSC genome browser. why in some reads the "C" variants is written on them but in others no?
• 1,183 views
•
link
updated
by
H.Hasani
•
written
by
khatami.mahshid •
•
written
by
khatami.mahshid •
2 answers
'C' is the alternative allele, the other reads have the reference allele 'T'
• 0 views
•
link
written
by
Pierre Lindenbaum
If you also click on the bar bellow (pink and blue) you will retrieve the details of both alleles (see Variant Calls from High-Coverage Genome Sequence of an Archaic Denisovan Individual ), for example the allele frequency of both alleles is 50%.
Log in to answer this question.
More posts like this
-
Discrepancy between Genome Browser hg19 phyloP Score and that of wig data
written by progistar •
-
Extract Info from chromosome locations
written by BDK_compbio
-
ClinVar and HGVS variant (insertion) definition for protein sequence
written by Yu
-
Why the list of genes in UCSC "knownGene" table is strikingly different than the list of genes in U…
written by lakhujanivijay
-
Download Gene Expression Data from UCSC
written by landscape95
-
Distinguishing coding DNA using NCBI and UCSC databases
written by pairwiseseq •
-
Data Mining from my Genomic Coordinates
written by Paul
-
Finding miRNA promoter in UCSC genome browser?
written by g-frans •
-
rRNA of E coli in UCSC browser
written by joerodger2017 •
-
Visualization of maf alignments in JBrowse
written by ifreecell
