Schema for GC Percent - GC Percent in 5-Base Windows
  Database: ailMel1    Primary Table: gc5Base    Row Count: 520,303   Data last updated: 2010-02-02
Format description: Wiggle track values to display as y-values (first 6 fields are bed6)
fieldexampleSQL type description
bin 585smallint(5) unsigned Indexing field to speed chromosome range queries.
chrom GL192338.1varchar(255) Reference sequence chromosome or scaffold
chromStart 0int(10) unsigned Start position in chromosome
chromEnd 5120int(10) unsigned End position in chromosome
name GL192338.1.0varchar(255) Name of item
span 5int(10) unsigned each value spans this many bases
count 1024int(10) unsigned number of values in this block
offset 0int(10) unsigned offset in File to fetch data
file /gbdb/ailMel1/wib/gc5Base.wibvarchar(255) path name to data file, one byte per value
lowerLimit 0double lowest data value in this block
dataRange 100double lowerLimit + dataRange = upperLimit
validCount 1011int(10) unsigned number of valid data values in this block
sumData 51030double sum of the data points, for average and stddev calc
sumSquares 3140500double sum of data points squared, for stddev calc

Sample Rows
 
binchromchromStartchromEndnamespancountoffsetfilelowerLimitdataRangevalidCountsumDatasumSquares
585GL192338.105120GL192338.1.0510240/gbdb/ailMel1/wib/gc5Base.wib01001011510303140500
585GL192338.1512010240GL192338.1.1510241024/gbdb/ailMel1/wib/gc5Base.wib01001024493802919600
585GL192338.11024015360GL192338.1.2510242048/gbdb/ailMel1/wib/gc5Base.wib01001024464202610800
585GL192338.11536020480GL192338.1.3510243072/gbdb/ailMel1/wib/gc5Base.wib01001024522803166400
585GL192338.12048025600GL192338.1.4510244096/gbdb/ailMel1/wib/gc5Base.wib01001024528403224000
585GL192338.12560030720GL192338.1.5510245120/gbdb/ailMel1/wib/gc5Base.wib01001024484002856000
585GL192338.13072035840GL192338.1.6510246144/gbdb/ailMel1/wib/gc5Base.wib01001024504003042400
585GL192338.13584040960GL192338.1.7510247168/gbdb/ailMel1/wib/gc5Base.wib01001024440802363200
585GL192338.14096046080GL192338.1.8510248192/gbdb/ailMel1/wib/gc5Base.wib01001016389902014900
585GL192338.14608051200GL192338.1.9510249216/gbdb/ailMel1/wib/gc5Base.wib0100854381202201600

Note: all start coordinates in our database are 0-based, not 1-based. See explanation here.

GC Percent (gc5Base) Track Description
 

Description

The GC percent track shows the percentage of G (guanine) and C (cytosine) bases in 5-base windows. High GC content is typically associated with gene-rich areas.

This track may be configured in a variety of ways to highlight different apsects of the displayed information. Click the "Graph configuration help" link for an explanation of the configuration options.

Credits

The data and presentation of this graph were prepared by Hiram Clawson.