Affy Zebrafish Track Settings

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Alignments of Affymetrix Consensus Sequences from Zebrafish Chip (All Expression and Regulation tracks)

Display mode:

Alignment Gap/Insertion Display Options Help on display options
	Draw double horizontal lines when both genome and query have an insertion
	Draw a vertical purple line for an insertion at the beginning or end of the query, orange for insertion in the middle of the query

Display data as a density graph:

View table schema

Data last updated at UCSC: 2006-09-28

Description

This track shows the location of the consensus sequences used for the selection of probes on the Affymetrix Zebrafish genome chip.

Methods

Consensus sequences were downloaded from the Affymetrix Product Support web page. The sequences were mapped to the genome with blat followed by pslCDnaFilter using the parameters -localNearBest=0.005, -minQSize=20, -minNonRepSize=16, -ignoreNs, -bestOverlap, -minId=0.95 and -minCover=0.15.

Credits

Thanks to Affymetrix for the data underlying this track.