bootscan in simplot software Search Results


similarity and bootscanning plots implemented in simplot software  (Simplot Science)
90
Simplot Science similarity and bootscanning plots implemented in simplot software
Similarity And Bootscanning Plots Implemented In Simplot Software, supplied by Simplot Science, used in various techniques. Bioz Stars score: 90/100, based on 1 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
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Average 90 stars, based on 1 article reviews
similarity and bootscanning plots implemented in simplot software - by Bioz Stars, 2026-04
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bootscaning software  (Simplot Science)
90
Simplot Science bootscaning software
Bootscaning Software, supplied by Simplot Science, used in various techniques. Bioz Stars score: 90/100, based on 1 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
https://www.bioz.com/result/bootscaning software/product/Simplot Science
Average 90 stars, based on 1 article reviews
bootscaning software - by Bioz Stars, 2026-04
90/100 stars
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bootscan software  (Simplot Science)
90
Simplot Science bootscan software
Similarity plots and <t>Bootscan</t> analyses of potential HCV recombinants determined on the basis of the IRES complete sequence using Simplot version 3.5.1 and Simplot ++ V1.3 software. Simplot++ analyses (left panels) display the percentage of sequence similarity over the IRES sequences of the HCV genome (nucleotide positions 41 to 359 according to strain 1a H77 numbering). Bootscan analysis (right panels) shows the percentage of permuted trees (y-axis). This approach permits to observe levels of phylogenetic relatedness between a query sequence and a reference sequence in different genomic regions. Query sequences (shown on the upper part of the figure) correspond to ( A ) clone B12 (putative 1a/3a recombinant), ( B ) clone C4 (putative 3a/1a recombinant), and ( C ) clone A33 (putative 3a/1a recombinant). Reference and/or putative parental sequences are indicated in purple for genotype 1a (strain H77, NCBI Accession No. AF009606) and green for genotype 3a (strain NZL1, NCBI Accession No. D17763). All analyses were performed using a 100 bp sliding window and a 10 bp step size. For Simplot++ analyses, a GTR optimized model of nucleotide substitution was employed, whereas for Bootscan, a Kimura two-parameter model was used.
Bootscan Software, supplied by Simplot Science, used in various techniques. Bioz Stars score: 90/100, based on 1 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
https://www.bioz.com/result/bootscan software/product/Simplot Science
Average 90 stars, based on 1 article reviews
bootscan software - by Bioz Stars, 2026-04
90/100 stars
  Buy from Supplier
software bootscanning tool  (Simplot Science)
90
Simplot Science software bootscanning tool
Similarity plots and <t>Bootscan</t> analyses of potential HCV recombinants determined on the basis of the IRES complete sequence using Simplot version 3.5.1 and Simplot ++ V1.3 software. Simplot++ analyses (left panels) display the percentage of sequence similarity over the IRES sequences of the HCV genome (nucleotide positions 41 to 359 according to strain 1a H77 numbering). Bootscan analysis (right panels) shows the percentage of permuted trees (y-axis). This approach permits to observe levels of phylogenetic relatedness between a query sequence and a reference sequence in different genomic regions. Query sequences (shown on the upper part of the figure) correspond to ( A ) clone B12 (putative 1a/3a recombinant), ( B ) clone C4 (putative 3a/1a recombinant), and ( C ) clone A33 (putative 3a/1a recombinant). Reference and/or putative parental sequences are indicated in purple for genotype 1a (strain H77, NCBI Accession No. AF009606) and green for genotype 3a (strain NZL1, NCBI Accession No. D17763). All analyses were performed using a 100 bp sliding window and a 10 bp step size. For Simplot++ analyses, a GTR optimized model of nucleotide substitution was employed, whereas for Bootscan, a Kimura two-parameter model was used.
Software Bootscanning Tool, supplied by Simplot Science, used in various techniques. Bioz Stars score: 90/100, based on 1 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
https://www.bioz.com/result/software bootscanning tool/product/Simplot Science
Average 90 stars, based on 1 article reviews
software bootscanning tool - by Bioz Stars, 2026-04
90/100 stars
  Buy from Supplier

Image Search Results


Similarity plots and Bootscan analyses of potential HCV recombinants determined on the basis of the IRES complete sequence using Simplot version 3.5.1 and Simplot ++ V1.3 software. Simplot++ analyses (left panels) display the percentage of sequence similarity over the IRES sequences of the HCV genome (nucleotide positions 41 to 359 according to strain 1a H77 numbering). Bootscan analysis (right panels) shows the percentage of permuted trees (y-axis). This approach permits to observe levels of phylogenetic relatedness between a query sequence and a reference sequence in different genomic regions. Query sequences (shown on the upper part of the figure) correspond to ( A ) clone B12 (putative 1a/3a recombinant), ( B ) clone C4 (putative 3a/1a recombinant), and ( C ) clone A33 (putative 3a/1a recombinant). Reference and/or putative parental sequences are indicated in purple for genotype 1a (strain H77, NCBI Accession No. AF009606) and green for genotype 3a (strain NZL1, NCBI Accession No. D17763). All analyses were performed using a 100 bp sliding window and a 10 bp step size. For Simplot++ analyses, a GTR optimized model of nucleotide substitution was employed, whereas for Bootscan, a Kimura two-parameter model was used.

Journal: Viruses

Article Title: Mixed Infections Unravel Novel HCV Inter-Genotypic Recombinant Forms within the Conserved IRES Region

doi: 10.3390/v16040560

Figure Lengend Snippet: Similarity plots and Bootscan analyses of potential HCV recombinants determined on the basis of the IRES complete sequence using Simplot version 3.5.1 and Simplot ++ V1.3 software. Simplot++ analyses (left panels) display the percentage of sequence similarity over the IRES sequences of the HCV genome (nucleotide positions 41 to 359 according to strain 1a H77 numbering). Bootscan analysis (right panels) shows the percentage of permuted trees (y-axis). This approach permits to observe levels of phylogenetic relatedness between a query sequence and a reference sequence in different genomic regions. Query sequences (shown on the upper part of the figure) correspond to ( A ) clone B12 (putative 1a/3a recombinant), ( B ) clone C4 (putative 3a/1a recombinant), and ( C ) clone A33 (putative 3a/1a recombinant). Reference and/or putative parental sequences are indicated in purple for genotype 1a (strain H77, NCBI Accession No. AF009606) and green for genotype 3a (strain NZL1, NCBI Accession No. D17763). All analyses were performed using a 100 bp sliding window and a 10 bp step size. For Simplot++ analyses, a GTR optimized model of nucleotide substitution was employed, whereas for Bootscan, a Kimura two-parameter model was used.

Article Snippet: Moreover, the Bootscan graphs generated by Simplot software (version 3.5.1) indicated similar results ( , right panels).

Techniques: Sequencing, Software, Recombinant

Recombination events detected by RDP4 in HCV IRES clones from sample 05.

Journal: Viruses

Article Title: Mixed Infections Unravel Novel HCV Inter-Genotypic Recombinant Forms within the Conserved IRES Region

doi: 10.3390/v16040560

Figure Lengend Snippet: Recombination events detected by RDP4 in HCV IRES clones from sample 05.

Article Snippet: Moreover, the Bootscan graphs generated by Simplot software (version 3.5.1) indicated similar results ( , right panels).

Techniques: Clone Assay, Recombinant, Sequencing