Description

This track represents copy number estimates. Copy number is estimated over 500 bp windows of uniquely mappable sequence. Sequences are colored from cold to hot (0 - 120+) and exact copy can be found by clicking on the region of interest.

Code Availability

GitHub

Copy Number Key

Copy numberColor
0
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1
■
2
■
3
■
4
■
5
■
6
■
7
■
8
■
9
■
10
■
20
■
30
■
40
■
50
■
60
■
70
■
80
■
90
■
100
■
110
■
120
■

Credits

Please feel free to contact William Harvey or Mitchell Vollger with any questions and/or concerns regarding this track.

References

Bailey JA, Gu Z, Clark RA, Reinert K, Samonte RV, Schwartz S, Adams MD, Myers EW, Li PW, Eichler EE. Recent segmental duplications in the human genome. Science 2002

Pendleton AL, Shen F, Taravella AM, Emery S, Veeramah KR, Boyko AR, Kidd JM. Comparison of village dog and wolf genomes highlights the role of the neural crest in dog domestication. BMC Biol. 2018

Sudmant PH, Mallick S, Nelson BJ, Hormozdiari F, Krumm N, Huddleston J, et al. Global diversity, population stratification, and selection of human copy-number variation. Science. 2015

Sudmant PH, Kitzman JO, Antonacci F, Alkan C, Malig M, Tsalenko A, et al. Diversity of human copy number. Science. 2010

Sample table

SampleRead file
D0116-M01/net/eichler/vol26/projects/sidra_ref_genome/nobackups/data/D0116-M01/Illumina_ALL.fastq.gz
D0116-M02/net/eichler/vol26/projects/sidra_ref_genome/nobackups/data/D0116-M02/Illumina_ALL.fastq.gz
D0116-M03/net/eichler/vol26/projects/sidra_ref_genome/nobackups/data/D0116-M03/Illumina_ALL.fastq.gz
D0216-M01/net/eichler/vol26/projects/sidra_ref_genome/nobackups/data/D0216-M01/Illumina_ALL.fastq.gz
D0216-M02/net/eichler/vol26/projects/sidra_ref_genome/nobackups/data/D0216-M02/Illumina_ALL.fastq.gz
D0216-M03/net/eichler/vol26/projects/sidra_ref_genome/nobackups/data/D0216-M03/Illumina_ALL.fastq.gz
D1002-M01/net/eichler/vol26/projects/sidra_ref_genome/nobackups/data/D1002-M01/Illumina_ALL.fastq.gz
D1002-M02/net/eichler/vol26/projects/sidra_ref_genome/nobackups/data/D1002-M02/Illumina_ALL.fastq.gz
D1002-M03/net/eichler/vol26/projects/sidra_ref_genome/nobackups/data/D1002-M03/Illumina_ALL.fastq.gz
D1121-M01/net/eichler/vol26/projects/sidra_ref_genome/nobackups/data/D1121-M01/Illumina_ALL.fastq.gz
D1121-M02/net/eichler/vol26/projects/sidra_ref_genome/nobackups/data/D1121-M02/Illumina_ALL.fastq.gz
D1121-M03/net/eichler/vol26/projects/sidra_ref_genome/nobackups/data/D1121-M03/Illumina_ALL.fastq.gz
D1231-M01/net/eichler/vol26/projects/sidra_ref_genome/nobackups/data/D1231-M01/Illumina_ALL.fastq.gz
D1231-M02/net/eichler/vol26/projects/sidra_ref_genome/nobackups/data/D1231-M02/Illumina_ALL.fastq.gz
D1231-M03/net/eichler/vol26/projects/sidra_ref_genome/nobackups/data/D1231-M03/Illumina_ALL.fastq.gz
N0416-M01/net/eichler/vol26/projects/sidra_ref_genome/nobackups/data/N0416-M01/Illumina_ALL.fastq.gz
N0416-M02/net/eichler/vol26/projects/sidra_ref_genome/nobackups/data/N0416-M02/Illumina_ALL.fastq.gz
N0416-M03/net/eichler/vol26/projects/sidra_ref_genome/nobackups/data/N0416-M03/Illumina_ALL.fastq.gz