Alignment Coverage Track Settings

Alignment Coverage of Genome Against Itself (All Variation and Repeats tracks)

Display mode: Reset to defaults

Overlay method:
Type of graph:
Track height:	pixels (range: 11 to 110)
Data view scaling:	Always include zero:
Vertical viewing range:	min:	max: (range: 1 to 8000)
Transform function:	Transform data points by:
Windowing function:		Smoothing window:	pixels
Negate values:
Draw y indicator lines:	at y = 0.0: at y =

Graph configuration help

List subtracks: only selected/visible all
	LASTZ Coverage	LASTZ Alignment Coverage	Schema
	BLASTN Coverage	BLASTN Alignment Coverage	Schema
	PALS Coverage	PALS Alignment Coverage	Schema

Description

This composite track shows the per-base alignment coverage of searching the D. melanogaster genome against itself. The aligners used in this evidence track include:

References

Harris, R.S. Improved pairwise alignment of genomic DNA. 2007. Ph.D. Thesis, The Pennsylvania State University.
Camacho C., Coulouris G., Avagyan V., Ma N., Papadopoulos J., Bealer K., and Madden T.L. BLAST+: architecture and applications. BMC Bioinformatics 10:421
R.C. Edgar and E.W. Myers. PILER: identification and classification of genomic repeats. Bioinformatics. 2005 Jun 1;21 Suppl 1:i152-i158