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
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9
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20
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120
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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
Baboon_SRS455970/net/eichler/vol26/projects/primate_sv/nobackups/NHP_Pop_bam/Baboon/Baboon_SRS455970.bam
Baboon_SRS657381/net/eichler/vol26/projects/primate_sv/nobackups/NHP_Pop_bam/Baboon/Baboon_SRS657381.bam
Baboon_SRS659271/net/eichler/vol26/projects/primate_sv/nobackups/NHP_Pop_bam/Baboon/Baboon_SRS659271.bam
Baboon_SRS660354/net/eichler/vol26/projects/primate_sv/nobackups/NHP_Pop_bam/Baboon/Baboon_SRS660354.bam
Baboon_SRS661352/net/eichler/vol26/projects/primate_sv/nobackups/NHP_Pop_bam/Baboon/Baboon_SRS661352.bam
Baboon_SRS742664/net/eichler/vol26/projects/primate_sv/nobackups/NHP_Pop_bam/Baboon/Baboon_SRS742664.bam
Baboon_SRS743201/net/eichler/vol26/projects/primate_sv/nobackups/NHP_Pop_bam/Baboon/Baboon_SRS743201.bam
Baboon_SRS743354/net/eichler/vol26/projects/primate_sv/nobackups/NHP_Pop_bam/Baboon/Baboon_SRS743354.bam
Baboon_SRS743355/net/eichler/vol26/projects/primate_sv/nobackups/NHP_Pop_bam/Baboon/Baboon_SRS743355.bam
Baboon_SRS743356/net/eichler/vol26/projects/primate_sv/nobackups/NHP_Pop_bam/Baboon/Baboon_SRS743356.bam
Gibbon_Asia/net/eichler/vol26/projects/primate_sv/nobackups/NHP_Pop_bam/Gibbon/Gibbon_Asia.bam
Gibbon_Asterisks/net/eichler/vol26/projects/primate_sv/nobackups/NHP_Pop_bam/Gibbon/Gibbon_Asterisks.bam
Gibbon_Bobby/net/eichler/vol26/projects/primate_sv/nobackups/NHP_Pop_bam/Gibbon/Gibbon_Bobby.bam
Gibbon_China/net/eichler/vol26/projects/primate_sv/nobackups/NHP_Pop_bam/Gibbon/Gibbon_China.bam
Gibbon_Johannes/net/eichler/vol26/projects/primate_sv/nobackups/NHP_Pop_bam/Gibbon/Gibbon_Johannes.bam
Gibbon_Khao/net/eichler/vol26/projects/primate_sv/nobackups/NHP_Pop_bam/Gibbon/Gibbon_Khao.bam
Gibbon_Melouprey/net/eichler/vol26/projects/primate_sv/nobackups/NHP_Pop_bam/Gibbon/Gibbon_Melouprey.bam
Gibbon_Nancy/net/eichler/vol26/projects/primate_sv/nobackups/NHP_Pop_bam/Gibbon/Gibbon_Nancy.bam
Gibbon_Phyllis/net/eichler/vol26/projects/primate_sv/nobackups/NHP_Pop_bam/Gibbon/Gibbon_Phyllis.bam
Gibbon_Ricky/net/eichler/vol26/projects/primate_sv/nobackups/NHP_Pop_bam/Gibbon/Gibbon_Ricky.bam
Gibbon_Vok/net/eichler/vol26/projects/primate_sv/nobackups/NHP_Pop_bam/Gibbon/Gibbon_Vok.bam
Macaque_11433-07b/net/eichler/vol26/projects/primate_sv/nobackups/NHP_Pop_bam/Macaque/Macaque_11433-07b.bam
Macaque_23138/net/eichler/vol26/projects/primate_sv/nobackups/NHP_Pop_bam/Macaque/Macaque_23138.bam
Macaque_35045/net/eichler/vol26/projects/primate_sv/nobackups/NHP_Pop_bam/Macaque/Macaque_35045.bam
Macaque_35091/net/eichler/vol26/projects/primate_sv/nobackups/NHP_Pop_bam/Macaque/Macaque_35091.bam
Macaque_38550/net/eichler/vol26/projects/primate_sv/nobackups/NHP_Pop_bam/Macaque/Macaque_38550.bam
Macaque_38572/net/eichler/vol26/projects/primate_sv/nobackups/NHP_Pop_bam/Macaque/Macaque_38572.bam
Macaque_38615/net/eichler/vol26/projects/primate_sv/nobackups/NHP_Pop_bam/Macaque/Macaque_38615.bam
Macaque_38629/net/eichler/vol26/projects/primate_sv/nobackups/NHP_Pop_bam/Macaque/Macaque_38629.bam
Macaque_38655/net/eichler/vol26/projects/primate_sv/nobackups/NHP_Pop_bam/Macaque/Macaque_38655.bam
Macaque_38660/net/eichler/vol26/projects/primate_sv/nobackups/NHP_Pop_bam/Macaque/Macaque_38660.bam
OWLGEN_39093/net/eichler/vol26/projects/primate_sv/nobackups/NHP_Pop_bam/Owl_monkey/OWLGEN_39093.bam
OWLGEN_39094/net/eichler/vol26/projects/primate_sv/nobackups/NHP_Pop_bam/Owl_monkey/OWLGEN_39094.bam
OWLGEN_39095/net/eichler/vol26/projects/primate_sv/nobackups/NHP_Pop_bam/Owl_monkey/OWLGEN_39095.bam
OWLGEN_39099/net/eichler/vol26/projects/primate_sv/nobackups/NHP_Pop_bam/Owl_monkey/OWLGEN_39099.bam
OWLGEN_39100/net/eichler/vol26/projects/primate_sv/nobackups/NHP_Pop_bam/Owl_monkey/OWLGEN_39100.bam
OWLGEN_39101/net/eichler/vol26/projects/primate_sv/nobackups/NHP_Pop_bam/Owl_monkey/OWLGEN_39101.bam
OWLGEN_39104/net/eichler/vol26/projects/primate_sv/nobackups/NHP_Pop_bam/Owl_monkey/OWLGEN_39104.bam
OWLGEN_39105/net/eichler/vol26/projects/primate_sv/nobackups/NHP_Pop_bam/Owl_monkey/OWLGEN_39105.bam
OWLGEN_39106/net/eichler/vol26/projects/primate_sv/nobackups/NHP_Pop_bam/Owl_monkey/OWLGEN_39106.bam
OWLGEN_39110/net/eichler/vol26/projects/primate_sv/nobackups/NHP_Pop_bam/Owl_monkey/OWLGEN_39110.bam
OWLGEN_39113/net/eichler/vol26/projects/primate_sv/nobackups/NHP_Pop_bam/Owl_monkey/OWLGEN_39113.bam
OWLGEN_39114/net/eichler/vol26/projects/primate_sv/nobackups/NHP_Pop_bam/Owl_monkey/OWLGEN_39114.bam
OWLGEN_39115/net/eichler/vol26/projects/primate_sv/nobackups/NHP_Pop_bam/Owl_monkey/OWLGEN_39115.bam
OWLGEN_39118/net/eichler/vol26/projects/primate_sv/nobackups/NHP_Pop_bam/Owl_monkey/OWLGEN_39118.bam
OWLGEN_39119/net/eichler/vol26/projects/primate_sv/nobackups/NHP_Pop_bam/Owl_monkey/OWLGEN_39119.bam
OWLGEN_39120/net/eichler/vol26/projects/primate_sv/nobackups/NHP_Pop_bam/Owl_monkey/OWLGEN_39120.bam
Bonobo_Bono/net/eichler/vol26/projects/primate_sv/nobackups/NHP_Pop_bam/Bonobo/Bonobo_Bono.bam
Bonobo_Catherine/net/eichler/vol26/projects/primate_sv/nobackups/NHP_Pop_bam/Bonobo/Bonobo_Catherine.bam
Bonobo_Desmond/net/eichler/vol26/projects/primate_sv/nobackups/NHP_Pop_bam/Bonobo/Bonobo_Desmond.bam
Bonobo_Dzeeta/net/eichler/vol26/projects/primate_sv/nobackups/NHP_Pop_bam/Bonobo/Bonobo_Dzeeta.bam
Bonobo_Hermien/net/eichler/vol26/projects/primate_sv/nobackups/NHP_Pop_bam/Bonobo/Bonobo_Hermien.bam
Bonobo_Hortense/net/eichler/vol26/projects/primate_sv/nobackups/NHP_Pop_bam/Bonobo/Bonobo_Hortense.bam
Bonobo_Kombote/net/eichler/vol26/projects/primate_sv/nobackups/NHP_Pop_bam/Bonobo/Bonobo_Kombote.bam
Bonobo_Kosana/net/eichler/vol26/projects/primate_sv/nobackups/NHP_Pop_bam/Bonobo/Bonobo_Kosana.bam
Bonobo_Kumbuka/net/eichler/vol26/projects/primate_sv/nobackups/NHP_Pop_bam/Bonobo/Bonobo_Kumbuka.bam
Bonobo_Natalie/net/eichler/vol26/projects/primate_sv/nobackups/NHP_Pop_bam/Bonobo/Bonobo_Natalie.bam
Chimp_ERS1286216/net/eichler/vol26/projects/primate_sv/nobackups/NHP_Pop_bam/Chimp/Chimp_ERS1286216.bam
Chimp_ERS1286218/net/eichler/vol26/projects/primate_sv/nobackups/NHP_Pop_bam/Chimp/Chimp_ERS1286218.bam
Chimp_ERS1286220/net/eichler/vol26/projects/primate_sv/nobackups/NHP_Pop_bam/Chimp/Chimp_ERS1286220.bam
Chimp_ERS1286221/net/eichler/vol26/projects/primate_sv/nobackups/NHP_Pop_bam/Chimp/Chimp_ERS1286221.bam
Chimp_ERS1286222/net/eichler/vol26/projects/primate_sv/nobackups/NHP_Pop_bam/Chimp/Chimp_ERS1286222.bam
Chimp_ERS1286238/net/eichler/vol26/projects/primate_sv/nobackups/NHP_Pop_bam/Chimp/Chimp_ERS1286238.bam
Chimp_ERS1286240/net/eichler/vol26/projects/primate_sv/nobackups/NHP_Pop_bam/Chimp/Chimp_ERS1286240.bam
Chimp_ERS1286241/net/eichler/vol26/projects/primate_sv/nobackups/NHP_Pop_bam/Chimp/Chimp_ERS1286241.bam
Chimp_ERS1286243/net/eichler/vol26/projects/primate_sv/nobackups/NHP_Pop_bam/Chimp/Chimp_ERS1286243.bam
Chimp_ERS1286245/net/eichler/vol26/projects/primate_sv/nobackups/NHP_Pop_bam/Chimp/Chimp_ERS1286245.bam
Gorilla_Amani/net/eichler/vol26/projects/primate_sv/nobackups/NHP_Pop_bam/Gorilla/Gorilla_Amani.bam
Gorilla_Banjo/net/eichler/vol26/projects/primate_sv/nobackups/NHP_Pop_bam/Gorilla/Gorilla_Banjo.bam
Gorilla_Delphi/net/eichler/vol26/projects/primate_sv/nobackups/NHP_Pop_bam/Gorilla/Gorilla_Delphi.bam
Gorilla_Dian/net/eichler/vol26/projects/primate_sv/nobackups/NHP_Pop_bam/Gorilla/Gorilla_Dian.bam
Gorilla_Kaisi/net/eichler/vol26/projects/primate_sv/nobackups/NHP_Pop_bam/Gorilla/Gorilla_Kaisi.bam
Gorilla_Kolo/net/eichler/vol26/projects/primate_sv/nobackups/NHP_Pop_bam/Gorilla/Gorilla_Kolo.bam
Gorilla_Mimi/net/eichler/vol26/projects/primate_sv/nobackups/NHP_Pop_bam/Gorilla/Gorilla_Mimi.bam
Human_HG00450/net/eichler/vol26/projects/primate_sv/nobackups/NHP_Pop_bam/Human/Human_HG00450.cram.bam
Human_HG00582/net/eichler/vol26/projects/primate_sv/nobackups/NHP_Pop_bam/Human/Human_HG00582.cram.bam
Human_HG00703/net/eichler/vol26/projects/primate_sv/nobackups/NHP_Pop_bam/Human/Human_HG00703.cram.bam
Human_HG01323/net/eichler/vol26/projects/primate_sv/nobackups/NHP_Pop_bam/Human/Human_HG01323.cram.bam
Human_HG01325/net/eichler/vol26/projects/primate_sv/nobackups/NHP_Pop_bam/Human/Human_HG01325.cram.bam
Human_HG01486/net/eichler/vol26/projects/primate_sv/nobackups/NHP_Pop_bam/Human/Human_HG01486.cram.bam
Human_HG01501/net/eichler/vol26/projects/primate_sv/nobackups/NHP_Pop_bam/Human/Human_HG01501.cram.bam
Human_HG01777/net/eichler/vol26/projects/primate_sv/nobackups/NHP_Pop_bam/Human/Human_HG01777.cram.bam
Human_HG01895/net/eichler/vol26/projects/primate_sv/nobackups/NHP_Pop_bam/Human/Human_HG01895.cram.bam
Human_HG02032/net/eichler/vol26/projects/primate_sv/nobackups/NHP_Pop_bam/Human/Human_HG02032.cram.bam
Human_HG02252/net/eichler/vol26/projects/primate_sv/nobackups/NHP_Pop_bam/Human/Human_HG02252.cram.bam
Human_HG02286/net/eichler/vol26/projects/primate_sv/nobackups/NHP_Pop_bam/Human/Human_HG02286.cram.bam
Human_HG02644/net/eichler/vol26/projects/primate_sv/nobackups/NHP_Pop_bam/Human/Human_HG02644.cram.bam
Human_HG02704/net/eichler/vol26/projects/primate_sv/nobackups/NHP_Pop_bam/Human/Human_HG02704.cram.bam
Human_HG03445/net/eichler/vol26/projects/primate_sv/nobackups/NHP_Pop_bam/Human/Human_HG03445.cram.bam
Human_HG03556/net/eichler/vol26/projects/primate_sv/nobackups/NHP_Pop_bam/Human/Human_HG03556.cram.bam
Human_HG03857/net/eichler/vol26/projects/primate_sv/nobackups/NHP_Pop_bam/Human/Human_HG03857.cram.bam
Human_HG04014/net/eichler/vol26/projects/primate_sv/nobackups/NHP_Pop_bam/Human/Human_HG04014.cram.bam
Human_HG04153/net/eichler/vol26/projects/primate_sv/nobackups/NHP_Pop_bam/Human/Human_HG04153.cram.bam
Human_NA07347/net/eichler/vol26/projects/primate_sv/nobackups/NHP_Pop_bam/Human/Human_NA07347.cram.bam
Human_NA10860/net/eichler/vol26/projects/primate_sv/nobackups/NHP_Pop_bam/Human/Human_NA10860.cram.bam
Human_NA11831/net/eichler/vol26/projects/primate_sv/nobackups/NHP_Pop_bam/Human/Human_NA11831.cram.bam
Human_NA12890/net/eichler/vol26/projects/primate_sv/nobackups/NHP_Pop_bam/Human/Human_NA12890.cram.bam
Human_NA18506/net/eichler/vol26/projects/primate_sv/nobackups/NHP_Pop_bam/Human/Human_NA18506.cram.bam
Human_NA18859/net/eichler/vol26/projects/primate_sv/nobackups/NHP_Pop_bam/Human/Human_NA18859.cram.bam
Human_NA19323/net/eichler/vol26/projects/primate_sv/nobackups/NHP_Pop_bam/Human/Human_NA19323.cram.bam
Human_NA19721/net/eichler/vol26/projects/primate_sv/nobackups/NHP_Pop_bam/Human/Human_NA19721.cram.bam
Human_NA19749/net/eichler/vol26/projects/primate_sv/nobackups/NHP_Pop_bam/Human/Human_NA19749.cram.bam
Human_NA21089/net/eichler/vol26/projects/primate_sv/nobackups/NHP_Pop_bam/Human/Human_NA21089.cram.bam
Human_NA21122/net/eichler/vol26/projects/primate_sv/nobackups/NHP_Pop_bam/Human/Human_NA21122.cram.bam
Orangutan_Babu/net/eichler/vol26/projects/primate_sv/nobackups/NHP_Pop_bam/Orangutan/Orangutan_Babu.bam
Orangutan_Buschi/net/eichler/vol26/projects/primate_sv/nobackups/NHP_Pop_bam/Orangutan/Orangutan_Buschi.bam
Orangutan_Dunja/net/eichler/vol26/projects/primate_sv/nobackups/NHP_Pop_bam/Orangutan/Orangutan_Dunja.bam
Orangutan_Elsi/net/eichler/vol26/projects/primate_sv/nobackups/NHP_Pop_bam/Orangutan/Orangutan_Elsi.bam
Orangutan_Kiki/net/eichler/vol26/projects/primate_sv/nobackups/NHP_Pop_bam/Orangutan/Orangutan_Kiki.bam
Orangutan_Napoleon/net/eichler/vol26/projects/primate_sv/nobackups/NHP_Pop_bam/Orangutan/Orangutan_Napoleon.bam
Orangutan_Nonja/net/eichler/vol26/projects/primate_sv/nobackups/NHP_Pop_bam/Orangutan/Orangutan_Nonja.bam
Orangutan_Sari/net/eichler/vol26/projects/primate_sv/nobackups/NHP_Pop_bam/Orangutan/Orangutan_Sari.bam
Orangutan_Tilda/net/eichler/vol26/projects/primate_sv/nobackups/NHP_Pop_bam/Orangutan/Orangutan_Tilda.bam
Marmoset_469M/net/eichler/vol26/projects/primate_sv/nobackups/Pop_GT/Marmoset/469M/aln_realigned_reads.bam
Marmoset_CM34F/net/eichler/vol26/projects/primate_sv/nobackups/Pop_GT/Marmoset/CM34F/aln_realigned_reads.bam
Marmoset_CM413F/net/eichler/vol26/projects/primate_sv/nobackups/Pop_GT/Marmoset/CM413F/aln_realigned_reads.bam
Marmoset_CM526M/net/eichler/vol26/projects/primate_sv/nobackups/Pop_GT/Marmoset/CM526M/aln_realigned_reads.bam
Marmoset_S110001/net/eichler/vol26/projects/primate_sv/nobackups/Pop_GT/Marmoset/S110001/aln_realigned_reads.bam
Marmoset_S140029/net/eichler/vol26/projects/primate_sv/nobackups/Pop_GT/Marmoset/S140029/aln_realigned_reads.bam
Marmoset_S150127/net/eichler/vol26/projects/primate_sv/nobackups/Pop_GT/Marmoset/S150127/aln_realigned_reads.bam