De novo sequencing generates an initial genomic sequence of a particular organism without a reference sequence. Through de novo sequencing, complex genomic variations such as Indel, CNV, and SV can be easily identified. It is also valuable in evolutionary and demographic history, agricultural breeding, and genetic variations calling.
With extensive experience in experimental operations and bioinformatics analyses, Novogene offers an accurate, rapid, and comprehensive characterization of species and generates reliable results. Furthermore, Novogene’s end-to-end services guarantee you ultra-fast turnaround time.
For individual research：
For population research：
NC/QC:NanoDrop concetration/Qubit concentration
From sample preparation library preparation, short and long-read sequencing, and data quality control, to bioinformatics analysis, Novogene provides high-quality products and professional services. Each step is performed in agreement with a high scientific standard and meticulous design to ensure high-quality research results.
The genome of jojoba (Simmondsia chinensis): A taxonomically isolated species that direct waxester accumulation in its seeds
Science Advances Date: April 2020IF: 12.804DOI: https://www.science.org/doi/10.1126/sciadv.aay3240
Deciphering the High Quality Genome Sequence of Coriander that Causes Controversial Feeling
Plant Biotechnology JournalIssue Date:2019IF: 6.84DOI: https://onlinelibrary.wiley.com/doi/10.1111/pbi.13310
The Reference Genome Sequence of Scutellaria baicalensis Provides Insights into the Evolution of Wogonin Biosynthesis
Molecular Plant Date: 2019IF: 9.326DOI: https://www.cell.com/molecular-plant/fulltext/S1674-2052(19)30131-5?
Chromosome-level genome assembly of the razor clam Sinonovacula constricta (Lamarck, 1818)
Molecular Ecology ResourcesIssue Date: July 2019IF: 7.049DOI: https://onlinelibrary.wiley.com/doi/10.1111/1755-0998.13086
Genome assembly provides insights into the genome evolution and flowering regulation of orchardgrass
Plant Biotechnology JournalIssue Date: 2019IF: 6.84DOI: https://onlinelibrary.wiley.com/doi/10.1111/pbi.13205
Grain Aphid genome A/T/G/C content statistics
BUSCO assessment results
Note:C：Complete BUSCOs; S：Complete and single-copy BUSCOs; D：Complete Duplicated BUSCOs; F：Fragmented BUSCOs; M：Missing BUSCOs; n：Total BUSCO groups searched
Sequencing depth distribution
X-axis: sequencing depth/X; y-axis, proportion of bases in the genome
GC content and depth distribution
X-axis: GC contents; y-axis: sequencing depth.
Upper: GC content distribution. Lower right: sequencing depth distribution.
Augustus, GlimmerHMM, SNAP, Geneid and Genscan are used in De novo gene structure prediction.
Venn diagram of gene set evidence support
Protein sequences predicted by gene structure are aligned with known protein databases. Results suggest that the function of 95.8% of the genes could be predicted.
Venn diagram of gene function annotation
Kmer=17analyses and genome size evaluation
(1)K-mer:Selected K-mer length.
(2)Depth:The expected value of K-mer depth.
(3)n_K-mer:The total number of K-mer from SOAPdenovo.
(4)Genome size(M):The genome size in Mb estimated by formula: Genome Size=K-mer_num/Peak_depth.
(5)Revise Genome size(M):Revised genome size after error correction from wrong K-mer.
(6)Heteozygous ratio:The percent of heteozygous positions.
(7)Repeat:Calculated by the percentage of K-mer numbers after 1.8-fold of the main peak of total K-mer numbers.
Note: The repeat here is a mathematically repeated sequence but not a repeat element with certain biological functions.
Distribution of K-mer number/type frequency and depth
X-coordinate is K-mer depth. Y-coordinate is the frequency of each K-mer depth.
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