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<h1>DNAnalyzer <span class="gradient-text">Features</span></h1>
<p>Advanced DNA analysis capabilities powered by machine learning, designed for researchers,
educators, and enthusiasts.</p>
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<section class="section feature-highlights">
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<div class="section-title">
<h2>Key Capabilities</h2>
<p>Our comprehensive suite of DNA analysis tools provides insights from basic sequence statistics to
advanced protein prediction</p>
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<div class="features-grid">
<div class="feature-card" data-aos="fade-up">
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<h3>Sequence Analysis</h3>
<p>Get detailed statistics about your DNA sequence, including length, GC content, and nucleotide
composition with intuitive visualizations.</p>
<a href="#sequence-analysis" class="feature-link">Learn more <i
class="fas fa-arrow-right"></i></a>
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<h3>Codon Detection</h3>
<p>Identify start and stop codons across your sequence to locate potential protein-coding
regions with high precision.</p>
<a href="#codon-detection" class="feature-link">Learn more <i
class="fas fa-arrow-right"></i></a>
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<h3>Reading Frames</h3>
<p>Analyze all six reading frames to identify potential protein-coding regions and open reading
frames (ORFs).</p>
<a href="#reading-frames" class="feature-link">Learn more <i class="fas fa-arrow-right"></i></a>
</div>
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<i class="fas fa-chart-bar"></i>
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<h3>Coverage Analysis</h3>
<p>Identify high-coverage (GC-rich) regions, often associated with gene-dense areas and promoter
regions.</p>
<a href="#coverage-analysis" class="feature-link">Learn more <i
class="fas fa-arrow-right"></i></a>
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</div>
<h3>Protein Prediction</h3>
<p>Predict potential proteins from your DNA sequence and analyze their amino acid composition.
</p>
<a href="#protein-prediction" class="feature-link">Learn more <i
class="fas fa-arrow-right"></i></a>
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<h3>Local Server</h3>
<p>Deploy DNAnalyzer as a local server for secure, high-throughput analysis of sensitive genomic
data.</p>
<a href="#local-server" class="feature-link">Learn more <i class="fas fa-arrow-right"></i></a>
</div>
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</section>
<section id="sequence-analysis" class="section section-detailed feature-section-odd">
<div class="container">
<div class="feature-detailed">
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<div class="feature-image-wrapper">
<img src="../assets/screenshots/sequence-analysis.png" alt="Sequence Analysis"
onerror="this.src='../assets/icons/Icon_Dark_BG.svg'">
</div>
</div>
<div class="feature-content" data-aos="fade-left">
<h2>Sequence Analysis</h2>
<p>Our basic sequence analysis tools give you immediate insights into your DNA sequence
properties.</p>
<ul class="feature-list">
<li>
<i class="fas fa-check-circle"></i>
<div>
<h4>Base Composition</h4>
<p>Interactive visualization of nucleotide distribution with precise percentages</p>
</div>
</li>
<li>
<i class="fas fa-check-circle"></i>
<div>
<h4>GC Content Calculation</h4>
<p>Identify regions with high GC content, important for gene density and stability
</p>
</div>
</li>
<li>
<i class="fas fa-check-circle"></i>
<div>
<h4>Sequence Length Analysis</h4>
<p>Get exact measurements of your DNA sequence with support for very large genomes
</p>
</div>
</li>
</ul>
<a href="../analyzer/analyzer.html" class="btn btn-primary">Try Sequence Analysis</a>
</div>
</div>
</div>
</section>
<section id="codon-detection" class="section section-detailed feature-section-even">
<div class="container">
<div class="feature-detailed reverse">
<div class="feature-image" data-aos="fade-left">
<div class="feature-image-wrapper">
<img src="../assets/screenshots/codon-detection.png" alt="Codon Detection"
onerror="this.src='../assets/icons/Icon_Dark_BG.svg'">
</div>
</div>
<div class="feature-content" data-aos="fade-right">
<h2>Codon Detection</h2>
<p>Identify critical codon patterns in your DNA sequence with our advanced detection algorithms.
</p>
<ul class="feature-list">
<li>
<i class="fas fa-check-circle"></i>
<div>
<h4>Start Codon Identification</h4>
<p>Automatically detect ATG start codons that initiate protein translation</p>
</div>
</li>
<li>
<i class="fas fa-check-circle"></i>
<div>
<h4>Stop Codon Recognition</h4>
<p>Find all TAA, TAG, and TGA stop codons that terminate protein synthesis</p>
</div>
</li>
<li>
<i class="fas fa-check-circle"></i>
<div>
<h4>Codon Frequency Analysis</h4>
<p>Analyze codon usage patterns across your sequence to identify potential gene
regions</p>
</div>
</li>
</ul>
<a href="../analyzer/analyzer.html" class="btn btn-primary">Try Codon Detection</a>
</div>
</div>
</div>
</section>
<section id="reading-frames" class="section section-detailed feature-section-odd">
<div class="container">
<div class="feature-detailed">
<div class="feature-image" data-aos="fade-right">
<div class="feature-image-wrapper">
<img src="../assets/screenshots/reading-frames.png" alt="Reading Frames"
onerror="this.src='../assets/icons/Icon_Dark_BG.svg'">
</div>
</div>
<div class="feature-content" data-aos="fade-left">
<h2>Reading Frames Analysis</h2>
<p>Comprehensive analysis of all six reading frames to identify potential genes and coding
regions.</p>
<ul class="feature-list">
<li>
<i class="fas fa-check-circle"></i>
<div>
<h4>Six-Frame Translation</h4>
<p>Analyze three forward and three reverse reading frames simultaneously</p>
</div>
</li>
<li>
<i class="fas fa-check-circle"></i>
<div>
<h4>Open Reading Frame (ORF) Detection</h4>
<p>Identify complete ORFs from start to stop codons across all frames</p>
</div>
</li>
<li>
<i class="fas fa-check-circle"></i>
<div>
<h4>Gene Prediction</h4>
<p>Find potential genes based on ORF length and composition characteristics</p>
</div>
</li>
</ul>
<a href="../analyzer/analyzer.html" class="btn btn-primary">Try Reading Frames Analysis</a>
</div>
</div>
</div>
</section>
<section id="coverage-analysis" class="section section-detailed feature-section-even">
<div class="container">
<div class="feature-detailed reverse">
<div class="feature-image" data-aos="fade-left">
<div class="feature-image-wrapper">
<img src="../assets/screenshots/coverage-analysis.png" alt="Coverage Analysis"
onerror="this.src='../assets/icons/Icon_Dark_BG.svg'">
</div>
</div>
<div class="feature-content" data-aos="fade-right">
<h2>Coverage Analysis</h2>
<p>Identify regions of interest with our powerful coverage analysis tools to spot regulatory
elements and gene-dense areas.</p>
<ul class="feature-list">
<li>
<i class="fas fa-check-circle"></i>
<div>
<h4>GC-Rich Region Detection</h4>
<p>Find CpG islands and GC-rich regions often associated with gene promoters</p>
</div>
</li>
<li>
<i class="fas fa-check-circle"></i>
<div>
<h4>Promoter Element Identification</h4>
<p>Detect TATA boxes, BRE, INR, and DPE motifs that indicate promoter regions</p>
</div>
</li>
<li>
<i class="fas fa-check-circle"></i>
<div>
<h4>Visualization Tools</h4>
<p>Graphical representation of coverage across your sequence for easy interpretation
</p>
</div>
</li>
</ul>
<a href="../analyzer/analyzer.html" class="btn btn-primary">Try Coverage Analysis</a>
</div>
</div>
</div>
</section>
<section id="protein-prediction" class="section section-detailed feature-section-odd">
<div class="container">
<div class="feature-detailed">
<div class="feature-image" data-aos="fade-right">
<div class="feature-image-wrapper">
<img src="../assets/screenshots/protein-prediction.png" alt="Protein Prediction"
onerror="this.src='../assets/icons/Icon_Dark_BG.svg'">
</div>
</div>
<div class="feature-content" data-aos="fade-left">
<h2>Protein Prediction</h2>
<p>Translate DNA sequences into proteins and analyze their properties with our advanced
prediction tools.</p>
<ul class="feature-list">
<li>
<i class="fas fa-check-circle"></i>
<div>
<h4>ORF Translation</h4>
<p>Convert open reading frames to amino acid sequences using the standard genetic
code</p>
</div>
</li>
<li>
<i class="fas fa-check-circle"></i>
<div>
<h4>Protein Length Filtering</h4>
<p>Focus on proteins of significant length to identify functional gene products</p>
</div>
</li>
<li>
<i class="fas fa-check-circle"></i>
<div>
<h4>Amino Acid Composition</h4>
<p>Analyze the distribution of amino acids within predicted proteins</p>
</div>
</li>
</ul>
<a href="../analyzer/analyzer.html" class="btn btn-primary">Try Protein Prediction</a>
</div>
</div>
</div>
</section>
<section id="local-server" class="section section-detailed feature-section-even">
<div class="container">
<div class="feature-detailed reverse">
<div class="feature-image" data-aos="fade-left">
<div class="feature-image-wrapper">
<img src="../assets/screenshots/local-server.png" alt="Local Server"
onerror="this.src='../assets/icons/Icon_Dark_BG.svg'">
</div>
</div>
<div class="feature-content" data-aos="fade-right">
<h2>Local Server Deployment</h2>
<p>Run DNAnalyzer as a local server for secure, high-throughput analysis of sensitive genomic
data.</p>
<ul class="feature-list">
<li>
<i class="fas fa-check-circle"></i>
<div>
<h4>Privacy-Focused Analysis</h4>
<p>Keep sensitive genetic data on your own infrastructure with no external data
transfer</p>
</div>
</li>
<li>
<i class="fas fa-check-circle"></i>
<div>
<h4>High-Performance Processing</h4>
<p>Optimized for multi-core systems to handle large datasets and batch processing
</p>
</div>
</li>
<li>
<i class="fas fa-check-circle"></i>
<div>
<h4>API Integration</h4>
<p>RESTful API for seamless integration with your existing bioinformatics pipelines
</p>
</div>
</li>
</ul>
<a href="../server/server.html" class="btn btn-primary">Learn About Server Setup</a>
</div>
</div>
</div>
</section>
<section class="section comparison-section">
<div class="container">
<div class="section-title">
<h2>Why Choose DNAnalyzer?</h2>
<p>See how DNAnalyzer compares to traditional DNA analysis tools</p>
</div>
<div class="comparison-table-container" data-aos="fade-up">
<table class="comparison-table">
<thead>
<tr>
<th>Feature</th>
<th>DNAnalyzer</th>
<th>Traditional Tools</th>
</tr>
</thead>
<tbody>
<tr>
<td>User Interface</td>
<td><i class="fas fa-check-circle check-icon"></i> Modern web interface</td>
<td><i class="fas fa-times-circle x-icon"></i> Often command-line only</td>
</tr>
<tr>
<td>Privacy</td>
<td><i class="fas fa-check-circle check-icon"></i> On-device processing</td>
<td><i class="fas fa-times-circle x-icon"></i> May require server upload</td>
</tr>
<tr>
<td>Machine Learning</td>
<td><i class="fas fa-check-circle check-icon"></i> Advanced ML algorithms</td>
<td><i class="fas fa-times-circle x-icon"></i> Often rule-based only</td>
</tr>
<tr>
<td>Setup Complexity</td>
<td><i class="fas fa-check-circle check-icon"></i> Simple, instant setup</td>
<td><i class="fas fa-times-circle x-icon"></i> Complex dependencies</td>
</tr>
<tr>
<td>Visualization</td>
<td><i class="fas fa-check-circle check-icon"></i> Interactive graphics</td>
<td><i class="fas fa-times-circle x-icon"></i> Often text-only output</td>
</tr>
<tr>
<td>Multiple File Support</td>
<td><i class="fas fa-check-circle check-icon"></i> FASTA, FASTQ, plain text</td>
<td><i class="fas fa-check-circle check-icon"></i> Various formats</td>
</tr>
<tr>
<td>Cost</td>
<td><i class="fas fa-check-circle check-icon"></i> Free, open-source</td>
<td><i class="fas fa-minus-circle minus-icon"></i> Often commercial</td>
</tr>
</tbody>
</table>
</div>
</div>
</section>
<section class="section testimonials-section">
<div class="container">
<div class="section-title">
<h2>What Our Users Say</h2>
<p>Hear from researchers and educators who use DNAnalyzer</p>
</div>
<div class="testimonials-grid">
<div class="testimonial-card" data-aos="fade-up">
<div class="testimonial-content">
<p>"DNAnalyzer has transformed how I teach genomics to undergraduates. The visual interface
makes complex concepts accessible, and students can perform real analysis without a
steep learning curve."</p>
</div>
<div class="testimonial-author">
<div class="author-info">
<h4>Dr. Sarah Chen</h4>
<p>Associate Professor, Molecular Biology</p>
</div>
</div>
</div>
<div class="testimonial-card" data-aos="fade-up" data-aos-delay="100">
<div class="testimonial-content">
<p>"As a researcher focusing on genetic disorders, I appreciate DNAnalyzer's privacy-first
approach. The local server option allows me to analyze sensitive patient data without
exposing it to third parties."</p>
</div>
<div class="testimonial-author">
<div class="author-info">
<h4>Dr. Michael Rodriguez</h4>
<p>Genetic Researcher</p>
</div>
</div>
</div>
<div class="testimonial-card" data-aos="fade-up" data-aos-delay="200">
<div class="testimonial-content">
<p>"The ability to quickly identify promoter regions and protein-coding sequences has
accelerated my synthetic biology project significantly. DNAnalyzer is now a core part of
our design verification process."</p>
</div>
<div class="testimonial-author">
<div class="author-info">
<h4>Emily Takahashi</h4>
<p>Synthetic Biology Engineer</p>
</div>
</div>
</div>
</div>
</div>
</section>
<section class="section cta-section">
<div class="container text-center">
<h2>Ready to start analyzing DNA sequences?</h2>
<p>Experience the power of DNAnalyzer's features today</p>
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<i class="fas fa-dna btn-icon"></i> Try DNAnalyzer Now
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