Description

This track shows regions that have no GRCh38 LASTZ all alignment chain coverage chains (GRCh38 LASTZ All Alignment Chains track). Since these alignments have limited filtering, it is likely to fail to identify duplications that are not in not in GRCh38. It will also incorrectly show regions that are unalignable as unique.

Methods

Base-wise negation of LAST all alignment chains using featureBits.

Display Conventions and Configuration

Data access

Release history

  1. 2020-09-06 - t2tChm13_20200727

Contacts

Credits

Chain/Net:

Kent WJ, Baertsch R, Hinrichs A, Miller W, Haussler D. Evolution's cauldron: duplication, deletion, and rearrangement in the mouse and human genomes. Proc Natl Acad Sci U S A. 2003 Sep 30;100(20):11484-9. PMID: 14500911; PMC: PMC208784

Lastz:

Harris RS. Improved pairwise alignment of genomic DNA. Ph.D. Thesis. Pennsylvania State University, USA. 2007.

Schwartz S, Kent WJ, Smit A, Zhang Z, Baertsch R, Hardison RC, Haussler D, Miller W. Human-mouse alignments with BLASTZ. Genome Res. 2003 Jan;13(1):103-7. PMID: 12529312; PMC: PMC430961