Dataset Open Access

Alternate genome assemblies of Halicephalobus mephisto

Asalone, Kathryn; Ryan, Kara; Yamadi, Maryam; Cohen, Annastelle; Farmer, William; George, Deborah; Joppert, Claudia; Kim, Kaitlyn; Mughal, Madeeha Froze; Said, Rana; Toksoz-Exley, Metin; Bisk, Evgeny; Bracht, John

Alternate genome assemblies were generated using Illumina data from a published study (Weinstein et al, 2019) publicly available on Sequence Reads Archive (SRA) at accession PRJNA528747. Assemblies were generated with either Platanus or SoapDenovo2 using varying step-sizes (Platanus) or kmers (SoapDenovo2) and using either a 1kb or 200bp cutoff on scaffold lengths. These assemblies were then analyzed in a separate study (under review) to identify regional expansions or contractions associated with high levels of heterozygosity.

Cited:

Weinstein, D.J., Allen, S.E., Lau, M.C.Y. et al. The genome of a subterrestrial nematode reveals adaptations to heat. Nat Commun 10, 5268 (2019). https://doi.org/10.1038/s41467-019-13245-8

Files (1.5 GB)
Name Size
Platanus_stepsize10_1kb_cutoff.fasta
md5:79ac30126b664b75aa67dfd2fb701156
62.1 MB Download
Platanus_stepsize10_200bp_cutoff.fasta
md5:e059ded7395478577b703072b5cda7c0
63.1 MB Download
Platanus_stepsize15_1kb_cutoff.fasta
md5:9afd035309b264f7e2580bbb77d13182
60.8 MB Download
Platanus_stepsize15_200bp_cutoff.fasta
md5:7802bf559f9c13030d736d0e1acdf881
61.8 MB Download
Platanus_stepsize1_1kb_cutoff.fasta
md5:8f50b1a169aca3337f7634d0242cee90
70.5 MB Download
Platanus_stepsize1_200bp_cutoff.fasta
md5:c484c14ceac77dc53cb77623c0ab569a
102.5 MB Download
Platanus_stepsize20_1kb_cutoff.fasta
md5:3e1b739914a2d6d4a0fb3ed7eaa1857f
62.7 MB Download
Platanus_stepsize20_200bp_cutoff.fasta
md5:9847d26c9f02d4ce0b4d1e4f8576044c
63.8 MB Download
Platanus_stepsize30_1kb_cutoff.fasta
md5:368daae39793df95172b9f6e44a1f554
62.7 MB Download
Platanus_stepsize30_200bp_cutoff.fasta
md5:0ced6d9e91130ea9122b5473091727ab
63.8 MB Download
Platanus_stepsize3_1kb_cutoff.fasta
md5:991c51174aaf956d75d8072e4a811b2f
63.9 MB Download
Platanus_stepsize3_200bp_cutoff.fasta
md5:58aae53256d7d5ba9a7dee139deffd62
64.9 MB Download
Platanus_stepsize5_1kb_cutoff.fasta
md5:97922428a9634a3663f46189bdde544d
60.3 MB Download
Platanus_stepsize5_200bp_cutoff.fasta
md5:109e735a03b4c6a465c24876dc89921f
61.7 MB Download
Platanus_stepsize7_1kb_cutoff.fasta
md5:bcc7bf3f44a85ab4055c9b3574b935ac
60.3 MB Download
Platanus_stepsize7_200bp_cutoff.fasta
md5:ec8bb4d688bf52e5071e260fb9e0b0b8
61.4 MB Download
SoapDenovo_kmer23_1kb_coutoff.fasta
md5:e077eba7d01697aa504eb89bbac6b796
39.4 MB Download
SoapDenovo_kmer23_200bp_cutoff.fasta
md5:66a2bccc15bb95e2b486d92f70096013
75.5 MB Download
SoapDenovo_kmer47_1kb_cutoff.fasta
md5:ad70839479b016d487684289f743551f
45.8 MB Download
SoapDenovo_kmer47_200bp_cutoff.fasta
md5:ae016f6a43482033e449255cfb9a0819
99.3 MB Download
SoapDenovo_kmer63_1kb_cutoff.fasta
md5:bf92d40501fa59c34df8f0095d34b4df
51.3 MB Download
SoapDenovo_kmer63_200bp_cutoff.fasta
md5:51c539218ab7a1424f57159bf063e699
105.9 MB Download
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