> ## Documentation Index
> Fetch the complete documentation index at: https://proto.evodesign.org/docs/llms.txt
> Use this file to discover all available pages before exploring further.

# Sequence Annotation

> Constraints grouped under Sequence Annotation. Each scores a sequence from 0.0 (perfectly satisfied) to 1.0 (maximally violated). Select a constraint below for its full reference and configuration.

Constraints grouped under Sequence Annotation. Each scores a sequence from 0.0 (perfectly satisfied) to 1.0 (maximally violated). Select a constraint below for its full reference and configuration.

<div class="tool-catalog-grid">
  <a href="/docs/language/constraints/alphagenome-interval-track" class="tool-catalog-card">
    <img noZoom class="card-art" src="https://proto-bio.github.io/proto-assets/images/constraint/alphagenome-interval-track/carousel.png" alt="" loading="lazy" />
  </a>

  <a href="/docs/language/constraints/borzoi-chromatin-accessibility-morse" class="tool-catalog-card">
    <img noZoom class="card-art" src="https://proto-bio.github.io/proto-assets/images/constraint/borzoi-chromatin-accessibility-morse/carousel.png" alt="" loading="lazy" />
  </a>

  <a href="/docs/language/constraints/borzoi-track-activity" class="tool-catalog-card">
    <img noZoom class="card-art" src="https://proto-bio.github.io/proto-assets/images/constraint/borzoi-track-activity/carousel.png" alt="" loading="lazy" />
  </a>

  <a href="/docs/language/constraints/crispr-array" class="tool-catalog-card">
    <img noZoom class="card-art" src="https://proto-bio.github.io/proto-assets/images/constraint/crispr-array/carousel.png" alt="" loading="lazy" />
  </a>

  <a href="/docs/language/constraints/crispr-tracr-rna" class="tool-catalog-card">
    <img noZoom class="card-art" src="https://proto-bio.github.io/proto-assets/images/constraint/crispr-tracr-rna/carousel.png" alt="" loading="lazy" />
  </a>

  <a href="/docs/language/constraints/enformer-chromatin-accessibility-morse" class="tool-catalog-card">
    <img noZoom class="card-art" src="https://proto-bio.github.io/proto-assets/images/constraint/enformer-chromatin-accessibility-morse/carousel.png" alt="" loading="lazy" />
  </a>

  <a href="/docs/language/constraints/longest-orf-length" class="tool-catalog-card">
    <img noZoom class="card-art" src="https://proto-bio.github.io/proto-assets/images/constraint/longest-orf-length/carousel.png" alt="" loading="lazy" />
  </a>

  <a href="/docs/language/constraints/malinois-activity" class="tool-catalog-card">
    <img noZoom class="card-art" src="https://proto-bio.github.io/proto-assets/images/constraint/malinois-activity/carousel.png" alt="" loading="lazy" />
  </a>

  <a href="/docs/language/constraints/mirna-specificity" class="tool-catalog-card">
    <img noZoom class="card-art" src="https://proto-bio.github.io/proto-assets/images/constraint/mirna-specificity/carousel.png" alt="" loading="lazy" />
  </a>

  <a href="/docs/language/constraints/mmseqs-gene-similarity" class="tool-catalog-card">
    <img noZoom class="card-art" src="https://proto-bio.github.io/proto-assets/images/constraint/mmseqs-gene-similarity/carousel.png" alt="" loading="lazy" />
  </a>

  <a href="/docs/language/constraints/operator-site" class="tool-catalog-card">
    <img noZoom class="card-art" src="https://proto-bio.github.io/proto-assets/images/constraint/operator-site/carousel.png" alt="" loading="lazy" />
  </a>

  <a href="/docs/language/constraints/promoter-strength" class="tool-catalog-card">
    <img noZoom class="card-art" src="https://proto-bio.github.io/proto-assets/images/constraint/promoter-strength/carousel.png" alt="" loading="lazy" />
  </a>

  <a href="/docs/language/constraints/puffin-promoter-activity" class="tool-catalog-card">
    <img noZoom class="card-art" src="https://proto-bio.github.io/proto-assets/images/constraint/puffin-promoter-activity/carousel.png" alt="" loading="lazy" />
  </a>

  <a href="/docs/language/constraints/seq-motif" class="tool-catalog-card">
    <img noZoom class="card-art" src="https://proto-bio.github.io/proto-assets/images/constraint/seq-motif/carousel.png" alt="" loading="lazy" />
  </a>

  <a href="/docs/language/constraints/sigma70-promoter" class="tool-catalog-card">
    <img noZoom class="card-art" src="https://proto-bio.github.io/proto-assets/images/constraint/sigma70-promoter/carousel.png" alt="" loading="lazy" />
  </a>

  <a href="/docs/language/constraints/targetscan-site" class="tool-catalog-card">
    <img noZoom class="card-art" src="https://proto-bio.github.io/proto-assets/images/constraint/targetscan-site/carousel.png" alt="" loading="lazy" />
  </a>
</div>