6/9/2023 0 Comments Codoncode aligner torrent![]() te Pas, Wageningen UR Livestock Research, NETHERLANDS (2015) Next Generation Semiconductor Based Sequencing of the Donkey ( Equus asinus) Genome Provided Comparative Sequence Data against the Horse Genome and a Few Millions of Single Nucleotide Polymorphisms. asinus and to establish monitoring systems for the conservation of donkey genetic resources.Ĭitation: Bertolini F, Scimone C, Geraci C, Schiavo G, Utzeri VJ, Chiofalo V, et al. The SNPs we identified constitute a first resource useful to describe variability at the population genomic level in E. A higher density of SNPs was present in regions homologous to horse chromosome 12, in which several studies reported a high frequency of copy number variants. Moreover, about 4.8 million of single nucleotide polymorphisms (SNPs) in the donkey genome were identified and annotated combining sequencing data from Ion Proton (whole genome sequencing) and Ion Torrent (RRL) runs with Illumina reads. Comparing Y-chromosome regions we identified variants that could be useful to track donkey paternal lineages. These regions might be evolutionally important in equids. Regions with low nucleotide divergence were identified in several autosomal chromosomes and in the whole chromosome X. This was due to the larger N50 for contigs and scaffolds of the horse genome. The number of next generation sequencing reads aligned with the EquCab2.0 horse genome was larger than those aligned with the draft donkey genome. Moreover, the Ion Torrent Personal Genome Analyzer was used to sequence reduced representation libraries (RRL) obtained from a DNA pool including donkeys of different breeds (Grigio Siciliano, Ragusano and Martina Franca). ![]() Here, we sequenced the genome of two male donkeys using a next generation semiconductor based sequencing platform (the Ion Proton sequencer) and compared obtained sequence information with the available donkey draft genome (and its Illumina reads from which it was originated) and with the EquCab2.0 assembly of the horse genome. NET (26) Robotics (26) In-vehicle (25) JavaScript (24) UI (24) Metashape (24) Cyber security (23) Support (23) Photogrammetry (22) TO DEAL (22) Measuring instrument (21) Next-generation sequencer (20) Deepearning (20) Image processing (20) AI (20) ROS (19) MATLAB (18) 3D model (18) Python (18) Web development / production (17) programming (17) Test tool (17) Deep learning (17) Visualization (17) Raspberry Pi (17) CAE (16) GIS (16) ア ニ メ ー シ ョ ン (16) modeling (16) Educational robot (16) Drone (15) Mobile robot (15) Structural analysis (15) chart (15) Library (15) Image analysis / image inspection (15) protocol (15) Arduino (15) ToF (15) Articles delivered in August 2022 (14) (I.e.Few studies investigated the donkey ( Equus asinus) at the whole genome level so far. VR (42) 3D camera (39) Analysis tool (38) RealSense (37) SBC (36) Statistical analysis (35) Small SBC (35) Robot arm (34) Spectrum (32) Depth camera (32) instrumentation (31) Machine learning (machine learning) (31) simulation (29) Video / Video (29) IoT (27) AR (26). Manufacturer (CodonCode Corporation) WEB site ■ Click here for product details and inquiriesĬodonCode Aligner / Program for sequence assembly and alignment of DNA * Codon Code Aligner is compatible with Windows and Mac OS X. ・ Analyze methylated sequences & view raw trace data ・ Find enzymes for RFLP analysis & create virtual gel ・ Assemble bacterial genomes and small NGS sequencing projects ・ See difference tables and protein translations ・ Run Phred and Phrap directly from Aligner projects ・ Generate phylogenetic trees and restriction maps ・ Quickly navigate between user-defined features ![]() ・ Define regions of interest (“features”), for example low quality consensus regions ・ Analyze heterozygous insertions and deletions ・ Assemble or align in groups, based on sample names ・ Align contigs to each other while keeping the links to the traces ・ Import sequences from ABI, SCF, and FASTQ files You can take advantage of the latest algorithms for base calling and array assembly without the need for complicated command line options or learning Perl programming.It also features an easy-to-learn user interface. It is compatible with Phred-Phrap and fully supports sequence quality scores. Programs for DNA sequence assembly and sequence alignment on the Unipos website Codon Code Aligner Page has been added.Ĭodon Code Aligner Is a program for performing sequence assembly, contig editing, mutation detection, and more.
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