recombination analysis (Simplot Science)

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Simplot Science recombination analysis
<t>Recombination</t> analysis of NC2023. Similarity plots and bootscan analyses of NC2023 were performed using SimPlot v3.5.1. The complete genome of NC2023 was chosen as the query sequence, and the results were incorporated into R for graphing. The y -axis indicates the percentage similarity between the parental sequence and the query sequence.

<t>Recombination</t> analysis of NC2023. Similarity plots and bootscan analyses of NC2023 were performed using SimPlot v3.5.1. The complete genome of NC2023 was chosen as the query sequence, and the results were incorporated into R for graphing. The y -axis indicates the percentage similarity between the parental sequence and the query sequence.

Recombination Analysis, supplied by Simplot Science, used in various techniques. Bioz Stars score: 86/100, based on 1 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
https://www.bioz.com/product/recombination+analysis+software+simplot/analysis+recombination/pmc12536727-116-0-4
Average 86 stars, based on 1 article reviews

recombination analysis - by Bioz Stars, 2026-09

86/100 stars

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1) Product Images from "Isolation and genetic characterization of a novel recombinant HP-PRRSV strain in Jiangxi Province, China"

Article Title: Isolation and genetic characterization of a novel recombinant HP-PRRSV strain in Jiangxi Province, China

Journal: Frontiers in Veterinary Science

doi: 10.3389/fvets.2025.1678378

Recombination analysis of NC2023. Similarity plots and bootscan analyses of NC2023 were performed using SimPlot v3.5.1. The complete genome of NC2023 was chosen as the query sequence, and the results were incorporated into R for graphing. The y -axis indicates the percentage similarity between the parental sequence and the query sequence.

Figure Legend Snippet: Recombination analysis of NC2023. Similarity plots and bootscan analyses of NC2023 were performed using SimPlot v3.5.1. The complete genome of NC2023 was chosen as the query sequence, and the results were incorporated into R for graphing. The y -axis indicates the percentage similarity between the parental sequence and the query sequence.

Techniques Used: Sequencing

Amplification:

Article Title: Near-full-length genomic characterization and phylogenetic analysis of an HIV-1 CRF02_AG/G second-generation recombinant in Ningxia, China.
Article Snippet: .. This study utilized blood samples from one HIV-1 participant in Ningxia to determine recombination breakpoints through near-full-length genome (NFLG) amplification and phylogenetic analysis, combined with JPHMM and Simplot recombination analysis. ..

Sequencing:

Article Title: Genetic Characterization and Evolutionary Insights of Novel H1N1 Swine Influenza Viruses Identified from Pigs in Shandong Province, China.
Article Snippet: .. In addition, this study conducted a SimPlot recombination analysis of the NA gene using SD6592 as the query sequence, with the A/blue-winged teal/Alberta/141/199 strain and the A/duck/Fujian/JF47/2014 strain as backgrounds. ..

Article Title: Genetic Characterization and Evolutionary Insights of Novel H1N1 Swine Influenza Viruses Identified from Pigs in Shandong Province, China.
Article Snippet: .. This study utilized SimPlot software (verison 3.5.1), with SD6591 as the query sequence, to conduct recombination analysis with the A/Wild duck/Korea/UP122/2007 strain and the A/turkey/Kansas/4880/1980 strain. ..

Recombinant:

Article Title: Near-full-length genomic characterization and phylogenetic analysis of an HIV-1 CRF02_AG/G second-generation recombinant in Ningxia, China
Article Snippet: .. Recombination analysis using jpHMM and Simplot software confirmed that this strain utilizes the CRF02_AG (A1/G primary recombinant) as its genomic backbone, with two G subtype fragments inserted into the env region (HXB2 sites: 6194–7137 and 7788–8532). ..

Software:

Article Title: Next-Generation Sequencing Reveals Continued Circulation of Rare HIV-1 Subtypes in the Democratic Republic of the Congo and Refines the Estimate of the Emergence Dates of Three Subtypes
Article Snippet: .. Specimen 146, which branched the most basal to subtype H references on this ML tree, was further analyzed by SimPlot recombination analysis software using DRC and reference subtype H sequences ( B,C). ..

Article Title: Next-Generation Sequencing Reveals Continued Circulation of Rare HIV-1 Subtypes in the Democratic Republic of the Congo and Refines the Estimate of the Emergence Dates of Three Subtypes.
Article Snippet: .. Specimen 146, which branched the most basal to subtype H references on this ML tree, was further analyzed by SimPlot recombination analysis software using DRC and reference subtype H sequences (Figure 5B,C). ..

other:

Article Title: Increase of GII.17 Norovirus Infections During the 2024–2025 Season in Multiple Cities, China
Article Snippet: Recombination analysis was performed using SimPlot software.

Review