Assembly Track Settings
Assembly from Fragments   (All Mapping and Sequencing tracks)

Display mode:      Duplicate track
Data schema/format description and download
Assembly: Mouse Jun. 2020 (GRCm39/mm39)
Data last updated at UCSC: 2020-07-27


This track shows the sequences used in the Jun. 2020 mouse genome assembly.

Genome assembly procedures are covered in the NCBI assembly documentation.
NCBI also provides specific information about this assembly.

The definition of this assembly is from the AGP file delivered with the sequence. The NCBI document AGP Specification describes the format of the AGP file.

In dense mode, this track depicts the contigs that make up the currently viewed scaffold. Contig boundaries are distinguished by the use of alternating gold and brown coloration. Where gaps exist between contigs, spaces are shown between the gold and brown blocks. The relative order and orientation of the contigs within a scaffold is always known; therefore, a line is drawn in the graphical display to bridge the blocks.

Component types found in this track (with counts of that type in parentheses):

  • F - finished sequence (20,878)
  • W - whole genome shotgun (1,264)
  • O - other sequence (118)
  • P - pre draft (12)
  • A - active finishing (1)