Description
This track shows the BLAT alignments of your sequence(s) to the genome
assembly.  In the Genome Browser, alignments of nucleotides use color
to highlight differences as follows:
- red: Genome and query sequence have 
different bases at this position.
- orange: The query sequence has an 
insertion (or genome has a deletion / alignment gap) at this point.
- purple: The query sequence extends 
beyond the end of the alignment.
- green: The query sequence appears to 
have a polyA tail which is not aligned to the genome.
Also, when the alignment has gaps for both genome and query sequence, 
double horizontal lines are drawn.Credits
This track was generated by 
Jim Kent of the UCSC Genome Bioinformatics Group.