/* ===================================================================
   LOOM CRISPR Search — Clinical Laboratory Theme
   Typography: Sora (display) + Karla (body) + JetBrains Mono (DNA)
   =================================================================== */

:root {
  /* Surfaces */
  --bg:           #F5F6F8;
  --bg-grid:      #EBEDF1;
  --surface:      #FFFFFF;
  --surface-alt:  #F0F1F4;
  --surface-hover:#E8EAF0;

  /* Borders */
  --border:       #D8DBE3;
  --border-light: #E8EBF0;
  --border-focus: #0369A1;

  /* Text */
  --text:         #1A1D26;
  --text-2:       #4A5068;
  --text-3:       #7C8298;
  --text-inv:     #FFFFFF;

  /* Accents */
  --primary:      #0369A1;
  --primary-soft: #E0F2FE;
  --primary-hover:#075985;
  --teal:         #0D9488;
  --teal-soft:    #CCFBF1;
  --green:        #059669;
  --green-soft:   #D1FAE5;
  --amber:        #D97706;
  --amber-soft:   #FEF3C7;
  --red:          #DC2626;
  --red-soft:     #FEE2E2;

  /* DNA nucleotide colors */
  --nuc-a: #16A34A;
  --nuc-t: #DC2626;
  --nuc-c: #2563EB;
  --nuc-g: #D97706;

  /* Spacing */
  --sp-1: 4px;
  --sp-2: 8px;
  --sp-3: 12px;
  --sp-4: 16px;
  --sp-5: 24px;
  --sp-6: 32px;
  --sp-8: 48px;

  /* Radius */
  --r-sm: 4px;
  --r-md: 8px;
  --r-lg: 12px;

  /* Shadows */
  --shadow-sm: 0 1px 2px rgba(26,29,38,.06);
  --shadow-md: 0 2px 8px rgba(26,29,38,.08);
  --shadow-lg: 0 8px 32px rgba(26,29,38,.10);

  /* Fonts */
  --font-display: 'Sora', sans-serif;
  --font-body:    'Karla', sans-serif;
  --font-mono:    'JetBrains Mono', monospace;
}

/* ---- Reset ---- */
*, *::before, *::after { box-sizing: border-box; }

body {
  margin: 0;
  min-height: 100vh;
  font-family: var(--font-body);
  font-size: 15px;
  line-height: 1.6;
  color: var(--text);
  background: var(--bg);
  -webkit-font-smoothing: antialiased;
  overflow-x: hidden;
}

/* Subtle grid background */
.grid-bg {
  position: fixed;
  inset: 0;
  pointer-events: none;
  z-index: 0;
  opacity: 0.4;
  background-image:
    linear-gradient(var(--bg-grid) 1px, transparent 1px),
    linear-gradient(90deg, var(--bg-grid) 1px, transparent 1px);
  background-size: 24px 24px;
}

.container {
  width: min(1200px, 94vw);
  margin: 0 auto;
  position: relative;
  z-index: 1;
}

/* =============== HEADER =============== */
.site-header {
  background: var(--surface);
  border-bottom: 1px solid var(--border);
  padding: var(--sp-4) 0;
  position: sticky;
  top: 0;
  z-index: 100;
  backdrop-filter: blur(12px);
  background: rgba(255,255,255,.92);
}

.site-header .container {
  display: flex;
  align-items: center;
  justify-content: space-between;
  flex-wrap: wrap;
  gap: var(--sp-4);
}

.header-left {
  display: flex;
  flex-direction: column;
  gap: 2px;
}

.logo {
  display: flex;
  align-items: center;
  gap: var(--sp-2);
}

.logo-mark {
  font-size: 1.4rem;
  color: var(--primary);
}

.logo-text {
  margin: 0;
  font-family: var(--font-display);
  font-size: 1.4rem;
  font-weight: 700;
  letter-spacing: -0.03em;
  color: var(--text);
}

.logo-accent {
  color: var(--primary);
  font-weight: 600;
}

.tagline {
  margin: 0;
  font-size: 0.82rem;
  color: var(--text-3);
}

.header-stats {
  display: flex;
  gap: var(--sp-2);
  flex-wrap: wrap;
}

.stat-chip {
  display: flex;
  flex-direction: column;
  align-items: center;
  padding: var(--sp-1) var(--sp-3);
  background: var(--surface-alt);
  border: 1px solid var(--border-light);
  border-radius: var(--r-md);
  min-width: 64px;
}

.stat-val {
  font-family: var(--font-display);
  font-size: 0.9rem;
  font-weight: 600;
  color: var(--text);
}

.stat-lbl {
  font-size: 0.65rem;
  text-transform: uppercase;
  letter-spacing: 0.08em;
  color: var(--text-3);
}

/* =============== SECTIONS =============== */
.section {
  margin-top: var(--sp-6);
}

.section-header {
  margin-bottom: var(--sp-4);
}

.section-header h2 {
  margin: 0;
  font-family: var(--font-display);
  font-size: 1.15rem;
  font-weight: 600;
  letter-spacing: -0.02em;
}

.section-sub {
  margin: 2px 0 0;
  font-size: 0.85rem;
  color: var(--text-3);
}

/* =============== PATHOGEN GRID =============== */
.pathogen-grid {
  display: grid;
  grid-template-columns: repeat(auto-fill, minmax(180px, 1fr));
  gap: var(--sp-3);
}

.pathogen-card {
  background: var(--surface);
  border: 1.5px solid var(--border);
  border-radius: var(--r-lg);
  padding: var(--sp-4);
  cursor: pointer;
  transition: all 0.15s ease;
  position: relative;
  overflow: hidden;
}

.pathogen-card::before {
  content: '';
  position: absolute;
  top: 0;
  left: 0;
  right: 0;
  height: 3px;
  background: var(--primary);
  transform: scaleX(0);
  transition: transform 0.2s ease;
}

.pathogen-card:hover {
  border-color: var(--primary);
  box-shadow: var(--shadow-md);
  transform: translateY(-1px);
}

.pathogen-card:hover::before {
  transform: scaleX(1);
}

.pathogen-card.selected {
  border-color: var(--primary);
  background: var(--primary-soft);
  box-shadow: 0 0 0 3px rgba(3,105,161,.12);
}

.pathogen-card.selected::before {
  transform: scaleX(1);
}

.pathogen-name {
  font-family: var(--font-display);
  font-weight: 600;
  font-size: 0.95rem;
  margin: 0 0 var(--sp-1);
  color: var(--text);
}

.pathogen-family {
  font-size: 0.72rem;
  color: var(--text-3);
  font-style: italic;
  margin: 0 0 var(--sp-3);
}

.pathogen-meta {
  display: flex;
  justify-content: space-between;
  font-size: 0.75rem;
  color: var(--text-2);
}

.pathogen-meta strong {
  font-weight: 600;
}

/* =============== TABS =============== */
.tab-bar {
  display: flex;
  gap: 0;
  margin-top: var(--sp-6);
  border-bottom: 2px solid var(--border);
  overflow-x: auto;
  -webkit-overflow-scrolling: touch;
  scrollbar-width: none;
}

.tab-bar::-webkit-scrollbar {
  display: none;
}

.tab-btn {
  display: flex;
  align-items: center;
  gap: var(--sp-2);
  padding: var(--sp-3) var(--sp-5);
  border: none;
  background: none;
  font-family: var(--font-body);
  font-size: 0.88rem;
  font-weight: 600;
  color: var(--text-3);
  cursor: pointer;
  border-bottom: 2px solid transparent;
  margin-bottom: -2px;
  transition: all 0.15s ease;
  white-space: nowrap;
  flex-shrink: 0;
}

.tab-btn:hover {
  color: var(--text);
}

.tab-btn.active {
  color: var(--primary);
  border-bottom-color: var(--primary);
}

.tab-btn svg {
  flex-shrink: 0;
}

.tab-panel {
  display: none;
  margin-top: var(--sp-5);
}

.tab-panel.active {
  display: block;
}

/* =============== TOOLBAR =============== */
.toolbar {
  display: flex;
  align-items: center;
  justify-content: space-between;
  flex-wrap: wrap;
  gap: var(--sp-3);
  margin-bottom: var(--sp-4);
}

.toolbar-left {
  display: flex;
  align-items: center;
  gap: var(--sp-3);
  flex-wrap: wrap;
  flex: 1;
}

.toolbar-right {
  display: flex;
  gap: var(--sp-2);
}

.search-field {
  position: relative;
  flex: 1;
  min-width: 200px;
  max-width: 360px;
}

.search-field .search-icon {
  position: absolute;
  left: var(--sp-3);
  top: 50%;
  transform: translateY(-50%);
  color: var(--text-3);
  pointer-events: none;
}

.search-field input {
  width: 100%;
  padding: var(--sp-2) var(--sp-3) var(--sp-2) 36px;
  border: 1.5px solid var(--border);
  border-radius: var(--r-md);
  font-family: var(--font-mono);
  font-size: 0.82rem;
  background: var(--surface);
  color: var(--text);
  transition: border-color 0.15s;
}

.search-field input:focus {
  outline: none;
  border-color: var(--border-focus);
  box-shadow: 0 0 0 3px rgba(3,105,161,.08);
}

.search-field input::placeholder {
  color: var(--text-3);
}

/* Chips */
.chip-group {
  display: flex;
  gap: var(--sp-1);
  flex-wrap: wrap;
}

.chip {
  padding: var(--sp-1) var(--sp-3);
  border: 1.5px solid var(--border);
  border-radius: 100px;
  background: var(--surface);
  font-family: var(--font-body);
  font-size: 0.78rem;
  font-weight: 500;
  color: var(--text-2);
  cursor: pointer;
  transition: all 0.15s ease;
  display: flex;
  align-items: center;
  gap: var(--sp-1);
}

.chip small {
  font-size: 0.68rem;
  color: var(--text-3);
  font-weight: 400;
}

.chip:hover {
  border-color: var(--primary);
  color: var(--primary);
}

.chip.active {
  background: var(--primary);
  border-color: var(--primary);
  color: var(--text-inv);
}

.chip.active small {
  color: rgba(255,255,255,.7);
}

/* Buttons */
.btn {
  display: inline-flex;
  align-items: center;
  gap: var(--sp-2);
  padding: var(--sp-2) var(--sp-4);
  border: 1.5px solid var(--border);
  border-radius: var(--r-md);
  background: var(--surface);
  font-family: var(--font-body);
  font-size: 0.85rem;
  font-weight: 600;
  color: var(--text);
  cursor: pointer;
  transition: all 0.15s ease;
}

.btn:hover:not(:disabled) {
  border-color: var(--primary);
  color: var(--primary);
}

.btn:disabled {
  opacity: 0.4;
  cursor: not-allowed;
}

.btn-primary {
  background: var(--primary);
  border-color: var(--primary);
  color: var(--text-inv);
}

.btn-primary:hover:not(:disabled) {
  background: var(--primary-hover);
  border-color: var(--primary-hover);
  color: var(--text-inv);
}

.btn-icon {
  display: inline-flex;
  align-items: center;
  gap: var(--sp-1);
  padding: var(--sp-1) var(--sp-3);
  border: 1.5px solid var(--border);
  border-radius: var(--r-md);
  background: var(--surface);
  font-family: var(--font-body);
  font-size: 0.78rem;
  font-weight: 500;
  color: var(--text-2);
  cursor: pointer;
  transition: all 0.15s;
}

.btn-icon:hover:not(:disabled) {
  border-color: var(--primary);
  color: var(--primary);
}

.btn-icon:disabled {
  opacity: 0.35;
  cursor: not-allowed;
}

/* =============== RESULTS STATUS =============== */
.results-status {
  padding: var(--sp-2) var(--sp-3);
  background: var(--surface-alt);
  border-radius: var(--r-sm);
  margin-bottom: var(--sp-3);
  font-size: 0.82rem;
  color: var(--text-2);
}

.results-status .count {
  font-weight: 600;
  color: var(--text);
}

/* =============== TABLE =============== */
.table-container {
  background: var(--surface);
  border: 1px solid var(--border);
  border-radius: var(--r-lg);
  overflow-x: auto;
  -webkit-overflow-scrolling: touch;
  box-shadow: var(--shadow-sm);
}

.data-table {
  width: 100%;
  border-collapse: collapse;
  font-size: 0.85rem;
}

.data-table thead {
  background: var(--surface-alt);
  border-bottom: 1px solid var(--border);
}

.data-table th {
  padding: var(--sp-3) var(--sp-4);
  text-align: left;
  font-family: var(--font-display);
  font-size: 0.72rem;
  font-weight: 600;
  text-transform: uppercase;
  letter-spacing: 0.06em;
  color: var(--text-3);
  white-space: nowrap;
  cursor: pointer;
  user-select: none;
  transition: color 0.15s;
}

.data-table th:hover {
  color: var(--text);
}

.data-table th.sortable::after {
  content: '';
  display: inline-block;
  margin-left: 4px;
  opacity: 0.3;
  font-size: 0.65rem;
}

.data-table th.sortable.sort-asc::after {
  content: '▲';
  opacity: 0.8;
}

.data-table th.sortable.sort-desc::after {
  content: '▼';
  opacity: 0.8;
}

.data-table th:not(.sortable) {
  cursor: default;
}

.data-table td {
  padding: var(--sp-2) var(--sp-4);
  border-bottom: 1px solid var(--border-light);
  vertical-align: middle;
}

.data-table tbody tr {
  transition: background 0.1s;
}

.data-table tbody tr:hover {
  background: rgba(3,105,161,.03);
}

.data-table tbody tr:last-child td {
  border-bottom: none;
}

.col-num {
  width: 48px;
  color: var(--text-3);
  font-feature-settings: "tnum";
}

.col-seq {
  min-width: 300px;
}

.col-pos {
  width: 100px;
  font-feature-settings: "tnum";
}

.col-occ {
  width: 130px;
  font-feature-settings: "tnum";
  text-align: right;
}

.coverage-bar {
  display: inline-block;
  height: 4px;
  border-radius: 2px;
  background: var(--primary);
  margin-left: 4px;
  vertical-align: middle;
  opacity: 0.6;
}

.coverage-pct {
  font-size: 0.72rem;
  color: var(--text-3);
  margin-left: 4px;
}

.col-pam {
  width: 100px;
}

/* Score column */
.col-score { width: 60px; text-align: center; }
.col-actions { width: 60px; text-align: center; }

.guide-score {
  display: inline-block;
  min-width: 28px;
  padding: 1px 6px;
  border-radius: 6px;
  font-size: 0.78rem;
  font-weight: 600;
  font-feature-settings: "tnum";
  text-align: center;
}
.score-high { background: #DCFCE7; color: #166534; }
.score-med  { background: #FEF3C7; color: #92400E; }
.score-low  { background: #FEE2E2; color: #991B1B; }
.score-na   { color: var(--text-3); font-weight: 400; }

/* BLAST link */
.blast-link {
  display: inline-block;
  padding: 2px 8px;
  border-radius: 4px;
  font-size: 0.72rem;
  font-weight: 600;
  color: var(--primary);
  background: var(--primary-soft);
  text-decoration: none;
  transition: background 0.15s;
}
.blast-link:hover { background: var(--primary); color: var(--text-inv); }

/* Cross-reactivity badges */
.xr-badge {
  display: inline-block;
  padding: 1px 6px;
  border-radius: 100px;
  font-size: 0.68rem;
  font-weight: 600;
  margin-left: 4px;
  vertical-align: middle;
}
.xr-specific { background: #DCFCE7; color: #166534; }
.xr-reactive { background: #FEE2E2; color: #991B1B; }

/* Resistance badge */
.res-badge {
  display: inline-block;
  padding: 1px 6px;
  border-radius: 100px;
  font-size: 0.68rem;
  font-weight: 600;
  margin-left: 4px;
  vertical-align: middle;
  background: #FEF3C7;
  color: #92400E;
}

/* Methods source card */
.source-card-methods .cite-block {
  white-space: pre-wrap;
  font-size: 0.78rem;
  line-height: 1.5;
}

/* DNA sequence rendering */
.dna-seq {
  font-family: var(--font-mono);
  font-size: 0.82rem;
  letter-spacing: 0.05em;
  word-break: break-all;
}

.nuc-a { color: var(--nuc-a); }
.nuc-t { color: var(--nuc-t); }
.nuc-c { color: var(--nuc-c); }
.nuc-g { color: var(--nuc-g); }

/* PAM badges */
.pam-badge {
  display: inline-block;
  padding: 1px 8px;
  border-radius: 100px;
  font-family: var(--font-mono);
  font-size: 0.72rem;
  font-weight: 500;
}

.pam-ngg {
  background: var(--green-soft);
  color: var(--green);
  border: 1px solid rgba(5,150,105,.2);
}

.pam-tttn {
  background: var(--amber-soft);
  color: var(--amber);
  border: 1px solid rgba(217,119,6,.2);
}

.pam-none {
  background: var(--surface-alt);
  color: var(--text-3);
  border: 1px solid var(--border-light);
}

/* Empty state */
.empty-state {
  display: flex;
  flex-direction: column;
  align-items: center;
  justify-content: center;
  padding: var(--sp-8) var(--sp-5);
  color: var(--text-3);
  text-align: center;
  gap: var(--sp-3);
}

.empty-state svg {
  opacity: 0.3;
}

.empty-state p {
  margin: 0;
  font-size: 0.9rem;
  max-width: 400px;
}

.table-container:has(tbody:empty) .empty-state {
  display: flex;
}

.table-container:has(tbody:not(:empty)) .empty-state {
  display: none;
}

/* =============== PAGINATION =============== */
.pagination {
  display: flex;
  align-items: center;
  justify-content: center;
  gap: var(--sp-1);
  margin-top: var(--sp-4);
  margin-bottom: var(--sp-6);
}

.page-btn {
  width: 36px;
  height: 36px;
  display: flex;
  align-items: center;
  justify-content: center;
  border: 1.5px solid var(--border);
  border-radius: var(--r-sm);
  background: var(--surface);
  font-family: var(--font-display);
  font-size: 0.82rem;
  font-weight: 500;
  color: var(--text-2);
  cursor: pointer;
  transition: all 0.15s;
}

.page-btn:hover {
  border-color: var(--primary);
  color: var(--primary);
}

.page-btn.active {
  background: var(--primary);
  border-color: var(--primary);
  color: var(--text-inv);
}

.page-btn:disabled {
  opacity: 0.35;
  cursor: not-allowed;
}

.page-info {
  font-size: 0.78rem;
  color: var(--text-3);
  padding: 0 var(--sp-3);
}

/* =============== LIVE SEARCH =============== */
.search-hero {
  display: flex;
  flex-direction: column;
  gap: var(--sp-5);
}

.index-badge {
  display: inline-flex;
  align-items: center;
  gap: var(--sp-2);
  padding: var(--sp-2) var(--sp-3);
  background: var(--surface);
  border: 1px solid var(--border);
  border-radius: var(--r-md);
  font-size: 0.82rem;
  color: var(--text-2);
  align-self: flex-start;
}

.badge-dot {
  width: 8px;
  height: 8px;
  border-radius: 50%;
  background: var(--text-3);
  flex-shrink: 0;
}

.badge-dot.loading {
  background: var(--amber);
  animation: pulse 1s infinite;
}

.badge-dot.ready {
  background: var(--green);
}

@keyframes pulse {
  0%, 100% { opacity: 1; }
  50% { opacity: 0.4; }
}

.search-box {
  display: flex;
  flex-direction: column;
  gap: var(--sp-3);
  max-width: 700px;
}

.search-label {
  font-size: 0.85rem;
  font-weight: 600;
  color: var(--text);
}

.sequence-input-wrap {
  position: relative;
}

.sequence-input-wrap textarea {
  width: 100%;
  padding: var(--sp-3) var(--sp-4);
  border: 1.5px solid var(--border);
  border-radius: var(--r-md);
  font-family: var(--font-mono);
  font-size: 0.9rem;
  letter-spacing: 0.06em;
  background: var(--surface);
  color: var(--text);
  resize: vertical;
  transition: border-color 0.15s;
}

.sequence-input-wrap textarea:focus {
  outline: none;
  border-color: var(--border-focus);
  box-shadow: 0 0 0 3px rgba(3,105,161,.08);
}

.sequence-input-wrap textarea:disabled {
  opacity: 0.5;
  cursor: not-allowed;
}

.sequence-input-wrap textarea::placeholder {
  color: var(--text-3);
  letter-spacing: 0.03em;
}

.sequence-info {
  font-size: 0.78rem;
  color: var(--text-3);
  margin-top: var(--sp-1);
}

/* Progress bar */
.progress-bar {
  position: relative;
  height: 32px;
  background: var(--surface-alt);
  border: 1px solid var(--border);
  border-radius: var(--r-md);
  overflow: hidden;
}

.progress-fill {
  height: 100%;
  background: linear-gradient(90deg, var(--primary), var(--teal));
  border-radius: var(--r-md);
  transition: width 0.3s ease;
  width: 0%;
}

.progress-text {
  position: absolute;
  inset: 0;
  display: flex;
  align-items: center;
  justify-content: center;
  font-size: 0.78rem;
  font-weight: 500;
  color: var(--text-2);
  z-index: 1;
}

/* Live search results */
.live-results {
  margin-top: var(--sp-4);
}

.live-results .result-card {
  background: var(--surface);
  border: 1px solid var(--border);
  border-radius: var(--r-md);
  padding: var(--sp-3) var(--sp-4);
  margin-bottom: var(--sp-2);
  transition: border-color 0.15s;
}

.live-results .result-card:hover {
  border-color: var(--primary);
}

.result-header {
  display: flex;
  justify-content: space-between;
  align-items: center;
  margin-bottom: var(--sp-2);
}

.result-file {
  font-size: 0.82rem;
  font-weight: 600;
  color: var(--text);
}

.result-pos {
  font-family: var(--font-mono);
  font-size: 0.75rem;
  color: var(--text-3);
}

.result-context {
  font-family: var(--font-mono);
  font-size: 0.82rem;
  line-height: 1.8;
  color: var(--text-2);
  word-break: break-all;
  background: var(--surface-alt);
  padding: var(--sp-2) var(--sp-3);
  border-radius: var(--r-sm);
}

.result-context .match {
  background: rgba(3,105,161,.15);
  border-bottom: 2px solid var(--primary);
  padding: 1px 2px;
  border-radius: 2px;
  color: var(--text);
  font-weight: 500;
}

.live-results-count {
  font-size: 0.85rem;
  color: var(--text-2);
  margin-bottom: var(--sp-3);
  padding: var(--sp-2) var(--sp-3);
  background: var(--surface-alt);
  border-radius: var(--r-sm);
  display: flex;
  justify-content: space-between;
  align-items: center;
}

.live-results-count .count {
  font-weight: 600;
  color: var(--text);
}

.search-time {
  font-family: var(--font-mono);
  font-size: 0.75rem;
  color: var(--teal);
}

/* =============== LITERATURE SCANNER =============== */
.lit-intro {
  margin-bottom: var(--sp-5);
}

.lit-intro h3 {
  margin: 0;
  font-family: var(--font-display);
  font-size: 1.15rem;
  font-weight: 600;
}

.lit-search-box {
  display: flex;
  flex-direction: column;
  gap: var(--sp-3);
  margin-bottom: var(--sp-5);
}

.lit-input-row {
  display: flex;
  gap: var(--sp-3);
  align-items: stretch;
}

.lit-search-field {
  flex: 1;
  max-width: none;
}

.lit-quick-actions {
  display: flex;
  align-items: center;
  gap: var(--sp-2);
  flex-wrap: wrap;
}

.lit-quick-label {
  font-size: 0.78rem;
  color: var(--text-3);
  font-weight: 500;
}

.lit-scan-btn {
  font-size: 0.78rem !important;
}

.lit-scan-btn strong {
  color: var(--primary);
}

.lit-status {
  margin-bottom: var(--sp-4);
}

.lit-results .lit-summary {
  background: var(--surface);
  border: 1px solid var(--border);
  border-radius: var(--r-lg);
  padding: var(--sp-5);
  margin-bottom: var(--sp-5);
}

.lit-summary h4 {
  margin: 0 0 var(--sp-3);
  font-family: var(--font-display);
  font-size: 1rem;
  font-weight: 600;
}

.lit-stats-row {
  display: flex;
  gap: var(--sp-4);
  flex-wrap: wrap;
  margin-bottom: var(--sp-4);
}

.lit-stat {
  display: flex;
  flex-direction: column;
  padding: var(--sp-3) var(--sp-4);
  background: var(--surface-alt);
  border-radius: var(--r-md);
  min-width: 120px;
}

.lit-stat .lit-stat-val {
  font-family: var(--font-display);
  font-size: 1.3rem;
  font-weight: 700;
  color: var(--text);
}

.lit-stat .lit-stat-lbl {
  font-size: 0.72rem;
  color: var(--text-3);
  text-transform: uppercase;
  letter-spacing: 0.06em;
}

.lit-stat.novel .lit-stat-val { color: var(--green); }
.lit-stat.published .lit-stat-val { color: var(--primary); }

/* Paper cards */
.paper-list {
  display: flex;
  flex-direction: column;
  gap: var(--sp-2);
}

.paper-card {
  background: var(--surface);
  border: 1px solid var(--border);
  border-radius: var(--r-md);
  padding: var(--sp-3) var(--sp-4);
  transition: border-color 0.15s;
}

.paper-card:hover {
  border-color: var(--primary);
}

.paper-title {
  font-weight: 600;
  font-size: 0.88rem;
  color: var(--text);
  margin-bottom: 2px;
}

.paper-title a {
  color: inherit;
  text-decoration: none;
}

.paper-title a:hover {
  color: var(--primary);
  text-decoration: underline;
}

.paper-meta {
  font-size: 0.78rem;
  color: var(--text-3);
  display: flex;
  gap: var(--sp-3);
  flex-wrap: wrap;
}

.paper-meta .journal {
  font-style: italic;
}

.paper-meta .year {
  font-weight: 600;
}

.paper-query {
  margin-top: var(--sp-1);
  font-size: 0.72rem;
  color: var(--text-3);
  font-family: var(--font-mono);
}

.novelty-badge {
  display: inline-block;
  padding: 1px 8px;
  border-radius: 4px;
  font-size: 0.72rem;
  font-weight: 600;
  vertical-align: middle;
  margin-left: var(--sp-2);
}

.novelty-badge.novel {
  background: var(--green-soft);
  color: var(--green);
  border: 1px solid rgba(5,150,105,.2);
}

.novelty-badge.published {
  background: var(--primary-soft);
  color: var(--primary);
  border: 1px solid rgba(3,105,161,.15);
}

/* Novel targets list */
.novel-targets-list {
  margin-top: var(--sp-4);
}

.novel-targets-list h4 {
  margin: 0 0 var(--sp-3);
  font-family: var(--font-display);
  font-size: 0.95rem;
}

.novel-target-item {
  display: flex;
  align-items: center;
  gap: var(--sp-3);
  padding: var(--sp-2) var(--sp-3);
  background: var(--green-soft);
  border: 1px solid rgba(5,150,105,.15);
  border-radius: var(--r-sm);
  margin-bottom: var(--sp-1);
  font-family: var(--font-mono);
  font-size: 0.82rem;
}

.novel-target-item .pam-badge {
  flex-shrink: 0;
}

.view-targets-btn {
  margin-top: var(--sp-2);
  padding: var(--sp-1) var(--sp-3);
  background: var(--primary);
  color: #fff;
  border: none;
  border-radius: var(--r-sm);
  font-size: 0.78rem;
  font-weight: 600;
  font-family: var(--font-display);
  cursor: pointer;
  transition: background .15s;
}
.view-targets-btn:hover {
  background: var(--primary-hover);
}

/* Lit scanner — opportunity cards */
.lit-opp-card {
  background: var(--surface);
  border: 1px solid var(--border);
  border-radius: var(--r-lg);
  padding: var(--sp-4);
  margin-bottom: var(--sp-3);
}
.lit-opp-header {
  display: flex;
  justify-content: space-between;
  align-items: flex-start;
  gap: var(--sp-3);
  margin-bottom: var(--sp-2);
}
.lit-opp-gaps {
  display: flex;
  flex-wrap: wrap;
  gap: var(--sp-1);
  margin-bottom: var(--sp-3);
}
.lit-gap-tag {
  display: inline-flex;
  align-items: center;
  gap: 4px;
  padding: 2px 10px;
  background: var(--green-soft);
  border: 1px solid rgba(5,150,105,.2);
  border-radius: var(--r-full);
  font-size: 0.74rem;
  font-weight: 600;
  color: var(--green-dark, #065f46);
}
.lit-seq-label {
  font-size: 0.76rem;
  color: var(--text-3);
  font-weight: 600;
  text-transform: uppercase;
  letter-spacing: 0.05em;
  margin-bottom: var(--sp-1);
}
.lit-seq-list {
  display: flex;
  flex-direction: column;
  gap: 2px;
}
.lit-seq-row {
  display: flex;
  align-items: center;
  gap: var(--sp-2);
  padding: 4px var(--sp-2);
  background: var(--bg);
  border-radius: var(--r-sm);
  font-size: 0.82rem;
}
.lit-seq-row:hover {
  background: var(--hover);
}
.lit-seq-row .dna-seq {
  flex: 1;
  min-width: 0;
  overflow: hidden;
  text-overflow: ellipsis;
  white-space: nowrap;
}
.lit-seq-meta {
  flex-shrink: 0;
  font-size: 0.72rem;
  color: var(--text-3);
  white-space: nowrap;
}
.copy-seq-btn {
  flex-shrink: 0;
  padding: 2px 10px;
  background: var(--primary);
  color: #fff;
  border: none;
  border-radius: var(--r-sm);
  font-size: 0.7rem;
  font-weight: 600;
  cursor: pointer;
  transition: background .15s;
  white-space: nowrap;
}
.copy-seq-btn:hover {
  background: var(--primary-hover);
}
.copy-seq-btn.copied {
  background: #059669;
}
.lit-show-more {
  margin-top: var(--sp-2);
  padding: var(--sp-1) var(--sp-3);
  background: none;
  color: var(--primary);
  border: 1px solid var(--primary);
  border-radius: var(--r-sm);
  font-size: 0.76rem;
  font-weight: 600;
  cursor: pointer;
  transition: all .15s;
}
.lit-show-more:hover {
  background: var(--primary);
  color: #fff;
}

/* =============== DATA SOURCES =============== */
.sources-grid {
  display: grid;
  grid-template-columns: repeat(auto-fill, minmax(340px, 1fr));
  gap: var(--sp-4);
}

.source-card {
  background: var(--surface);
  border: 1px solid var(--border);
  border-radius: var(--r-lg);
  padding: var(--sp-5);
  display: flex;
  flex-direction: column;
  gap: var(--sp-3);
}

.source-card-how {
  border: 2px solid var(--primary);
  background: var(--primary-soft);
}

.source-header {
  display: flex;
  align-items: center;
  gap: var(--sp-3);
}

.source-header h3 {
  margin: 0;
  font-family: var(--font-display);
  font-size: 1rem;
  font-weight: 600;
}

.source-icon {
  width: 40px;
  height: 40px;
  display: flex;
  align-items: center;
  justify-content: center;
  border-radius: var(--r-md);
  font-family: var(--font-display);
  font-size: 0.72rem;
  font-weight: 700;
  flex-shrink: 0;
}

.source-icon.ncbi { background: #1a5276; color: white; }
.source-icon.grch { background: #7D3C98; color: white; font-size: 0.6rem; }
.source-icon.tool { background: var(--primary); color: white; }
.source-icon.pubmed { background: #326599; color: white; }
.source-icon.ontology { background: #1E8449; color: white; font-size: 0.7rem; }
.source-icon.who { background: #0072BC; color: white; font-size: 0.65rem; }
.source-icon.how { background: var(--text); color: white; font-size: 1rem; }

.source-card p {
  margin: 0;
  font-size: 0.88rem;
  color: var(--text-2);
  line-height: 1.5;
}

.source-details {
  display: grid;
  grid-template-columns: auto 1fr;
  gap: var(--sp-1) var(--sp-3);
  margin: 0;
  font-size: 0.82rem;
}

.source-details dt {
  color: var(--text-3);
  font-weight: 500;
}

.source-details dd {
  margin: 0;
  color: var(--text);
}

.source-details a {
  color: var(--primary);
  text-decoration: none;
}

.source-details a:hover {
  text-decoration: underline;
}

.source-details code {
  font-family: var(--font-mono);
  font-size: 0.82rem;
  background: var(--surface-alt);
  padding: 1px 4px;
  border-radius: 3px;
}

.source-cite {
  font-size: 0.78rem;
  color: var(--text-2);
  line-height: 1.5;
  padding-top: var(--sp-2);
  border-top: 1px solid var(--border-light);
}

.source-cite em {
  color: var(--text);
}

.cite-block {
  background: var(--surface);
  border: 1px solid var(--border);
  border-radius: var(--r-md);
  padding: var(--sp-3) var(--sp-4);
  margin-bottom: var(--sp-3);
}

.cite-block code {
  font-family: var(--font-mono);
  font-size: 0.78rem;
  white-space: pre-wrap;
  line-height: 1.6;
  color: var(--text);
}

/* =============== GLOSSARY =============== */
.glossary {
  margin-top: var(--sp-8);
  padding-top: var(--sp-6);
  border-top: 1px solid var(--border);
}

.glossary-title {
  font-family: var(--font-display);
  font-size: 1.3rem;
  font-weight: 600;
  margin: 0 0 var(--sp-1);
}

.glossary-grid {
  display: grid;
  grid-template-columns: repeat(auto-fill, minmax(320px, 1fr));
  gap: var(--sp-3);
  margin-top: var(--sp-4);
}

.glossary-card {
  background: var(--surface);
  border: 1px solid var(--border);
  border-radius: var(--r-md);
  padding: var(--sp-3) var(--sp-4);
}

.glossary-card dt {
  font-family: var(--font-display);
  font-weight: 600;
  font-size: 0.95rem;
  color: var(--text);
  margin-bottom: var(--sp-1);
}

.glossary-aka {
  font-weight: 400;
  font-size: 0.78rem;
  color: var(--text-3);
}

.glossary-card dd {
  margin: 0;
  font-size: 0.85rem;
  color: var(--text-2);
  line-height: 1.55;
}

.glossary-card dd strong {
  color: var(--text);
}

.glossary-card dd code {
  font-family: var(--font-mono);
  font-size: 0.82rem;
}

.dna-example {
  background: var(--surface-alt);
  padding: 1px 5px;
  border-radius: 3px;
  letter-spacing: 0.04em;
}

/* =============== PREPRINT BANNER =============== */
.preprint-banner {
  margin-top: var(--sp-8);
  padding: var(--sp-6) 0 var(--sp-5);
  border-top: 1px solid var(--border);
  background: linear-gradient(180deg, var(--surface) 0%, rgba(29, 78, 216, 0.04) 100%);
}

.preprint-title {
  margin: 0 0 0.2rem;
  font-size: 1.5rem;
  font-weight: 700;
  letter-spacing: -0.02em;
}

.preprint-subtitle {
  margin: 0 0 var(--sp-4);
  color: var(--text-3);
  font-size: 0.95rem;
}

.preprint-cards {
  display: grid;
  grid-template-columns: repeat(auto-fit, minmax(300px, 1fr));
  gap: var(--sp-4);
}

.preprint-card {
  display: flex;
  flex-direction: column;
  gap: 0.5rem;
  padding: var(--sp-4);
  border-radius: var(--radius-lg);
  border: 1px solid var(--border);
  background: var(--bg);
  text-decoration: none;
  color: var(--text-1);
  transition: transform 0.2s ease, box-shadow 0.2s ease, border-color 0.2s ease;
}

.preprint-card:hover {
  transform: translateY(-3px);
  box-shadow: 0 16px 32px rgba(0, 0, 0, 0.10);
  border-color: var(--primary);
}

.preprint-tag {
  display: inline-flex;
  align-self: flex-start;
  padding: 0.25rem 0.6rem;
  border-radius: 999px;
  background: rgba(29, 78, 216, 0.10);
  color: var(--primary);
  font-size: 0.72rem;
  font-weight: 700;
  text-transform: uppercase;
  letter-spacing: 0.08em;
}

.preprint-card strong {
  font-size: 1.05rem;
  line-height: 1.35;
}

.preprint-desc {
  color: var(--text-3);
  font-size: 0.88rem;
  line-height: 1.6;
}

.preprint-cta {
  margin-top: auto;
  color: var(--primary);
  font-weight: 600;
  font-size: 0.88rem;
}

/* =============== FOOTER =============== */
.site-footer {
  margin-top: var(--sp-8);
  padding: var(--sp-5) 0;
  border-top: 1px solid var(--border);
  background: var(--surface);
}

.footer-inner {
  display: flex;
  justify-content: space-between;
  flex-wrap: wrap;
  gap: var(--sp-3);
  font-size: 0.78rem;
  color: var(--text-3);
}

.footer-inner a {
  color: var(--primary);
  text-decoration: none;
}

.footer-attribution {
  text-align: center;
  padding-top: var(--sp-3);
  font-size: 0.78rem;
  color: var(--text-3);
  opacity: 0.7;
}

/* =============== RESPONSIVE =============== */
@media (max-width: 768px) {
  .site-header .container {
    flex-direction: column;
    align-items: flex-start;
  }

  .header-stats {
    width: 100%;
    justify-content: space-between;
  }

  .pathogen-grid {
    grid-template-columns: repeat(auto-fill, minmax(150px, 1fr));
  }

  .toolbar {
    flex-direction: column;
    align-items: stretch;
  }

  .toolbar-left {
    flex-direction: column;
  }

  .search-field {
    max-width: none;
  }

  .col-seq {
    min-width: 200px;
  }

  .data-table {
    font-size: 0.78rem;
    min-width: 640px;
  }

  .footer-inner {
    flex-direction: column;
    text-align: center;
  }

  /* Ensure all data containers scroll horizontally */
  .table-container,
  .gene-table-container,
  .lit-opp-card,
  .paper-card,
  .live-results .result-card,
  .result-context,
  .source-card,
  .glossary-card {
    overflow-x: auto;
    -webkit-overflow-scrolling: touch;
  }

  /* DNA sequences: show scrollable instead of breaking */
  .dna-seq {
    word-break: normal;
    white-space: nowrap;
  }

  .lit-seq-row .dna-seq {
    white-space: nowrap;
    overflow-x: auto;
    -webkit-overflow-scrolling: touch;
    text-overflow: clip;
  }

  /* Lit opportunity cards: content can extend */
  .lit-opp-header {
    flex-direction: column;
  }

  .lit-seq-row {
    overflow-x: auto;
    -webkit-overflow-scrolling: touch;
  }

  /* Top opportunities: stack on mobile */
  .opps-cards {
    grid-template-columns: 1fr;
  }

  /* Disease Context: stack grids */
  .context-epi-grid {
    grid-template-columns: 1fr;
  }

  .context-id-grid {
    flex-direction: column;
  }

  /* Gene table in Disease Context */
  .gene-table-container {
    overflow-x: auto;
    -webkit-overflow-scrolling: touch;
  }
}

@media (max-width: 480px) {
  .container {
    width: 100vw;
    padding-left: var(--sp-3);
    padding-right: var(--sp-3);
  }

  .pathogen-grid {
    grid-template-columns: 1fr 1fr;
  }

  .tab-nav {
    overflow-x: auto;
    -webkit-overflow-scrolling: touch;
    flex-wrap: nowrap;
  }

  .tab-btn {
    padding: var(--sp-2) var(--sp-3);
    font-size: 0.82rem;
    white-space: nowrap;
    flex-shrink: 0;
  }

  .data-table th,
  .data-table td {
    padding: var(--sp-2) var(--sp-2);
  }

  .col-seq {
    min-width: 160px;
  }

  .data-table {
    font-size: 0.74rem;
    min-width: 580px;
  }
}

/* =============== ANIMATIONS =============== */
@keyframes fadeIn {
  from { opacity: 0; transform: translateY(6px); }
  to { opacity: 1; transform: translateY(0); }
}

.tab-panel.active {
  animation: fadeIn 0.2s ease;
}

/* Loading skeleton */
.skeleton {
  background: linear-gradient(90deg, var(--surface-alt) 25%, var(--surface-hover) 50%, var(--surface-alt) 75%);
  background-size: 200% 100%;
  animation: shimmer 1.5s infinite;
  border-radius: var(--r-sm);
}

@keyframes shimmer {
  0% { background-position: 200% 0; }
  100% { background-position: -200% 0; }
}

/* =============== TOP NAVIGATION BAR =============== */
.top-nav {
  background: var(--text);
  padding: 0;
  position: sticky;
  top: 0;
  z-index: 200;
  overflow-x: auto;
  -webkit-overflow-scrolling: touch;
}

.top-nav .container {
  display: flex;
  align-items: center;
  gap: 0;
  white-space: nowrap;
}

.top-nav-brand {
  font-family: var(--font-display);
  font-size: 0.78rem;
  font-weight: 700;
  color: rgba(255,255,255,.5);
  letter-spacing: 0.06em;
  text-transform: uppercase;
  padding: var(--sp-2) var(--sp-4) var(--sp-2) 0;
  margin-right: var(--sp-4);
  border-right: 1px solid rgba(255,255,255,.1);
  text-decoration: none;
}

.top-nav-link {
  display: flex;
  align-items: center;
  gap: var(--sp-2);
  padding: var(--sp-2) var(--sp-4);
  font-family: var(--font-body);
  font-size: 0.82rem;
  font-weight: 600;
  color: rgba(255,255,255,.6);
  text-decoration: none;
  border-bottom: 2px solid transparent;
  transition: all 0.15s ease;
}

.top-nav-link:hover {
  color: rgba(255,255,255,.9);
}

.top-nav-link.active {
  color: #FFFFFF;
  border-bottom-color: var(--primary);
}

.top-nav-link .nav-dot {
  width: 8px;
  height: 8px;
  border-radius: 50%;
  flex-shrink: 0;
}

.top-nav-link .nav-dot.blue { background: var(--primary); }
.top-nav-link .nav-dot.green { background: #10B981; }

.top-nav-help {
  margin-left: auto;
}

/* Floating help button — lives outside nav to avoid overflow clipping */
.mobile-help-fab {
  display: none;
}
@media (max-width: 600px) {
  .top-nav-help { display: none; }
  .mobile-help-fab {
    display: flex;
    position: fixed;
    bottom: 1.25rem;
    right: 1.25rem;
    z-index: 900;
    width: 44px;
    height: 44px;
    border-radius: 50%;
    background: var(--primary, #2563eb);
    color: #fff;
    font-size: 1.2rem;
    font-weight: 700;
    align-items: center;
    justify-content: center;
    box-shadow: 0 2px 10px rgba(0,0,0,.3);
    text-decoration: none;
  }
}

/* ---- Animal (green) theme overrides ---- */
.theme-animal {
  --primary:      #059669;
  --primary-soft: #D1FAE5;
  --primary-hover:#047857;
  --border-focus: #059669;
}

.theme-animal .top-nav-link.active {
  border-bottom-color: #10B981;
}

.theme-animal .logo-accent {
  color: #059669;
}

.theme-animal .pathogen-card::before {
  background: #059669;
}

.theme-animal .pathogen-card.selected {
  border-color: #059669;
  background: #D1FAE5;
  box-shadow: 0 0 0 3px rgba(5,150,105,.12);
}

.theme-animal .pathogen-card:hover {
  border-color: #059669;
}

.theme-animal .tab-btn.active {
  color: #059669;
  border-bottom-color: #059669;
}

.theme-animal .chip.active {
  background: #059669;
  border-color: #059669;
}

.theme-animal .chip:hover {
  border-color: #059669;
  color: #059669;
}

.theme-animal .btn-primary {
  background: #059669;
  border-color: #059669;
}

.theme-animal .btn-primary:hover:not(:disabled) {
  background: #047857;
  border-color: #047857;
}

.theme-animal .stat-chip {
  border-color: rgba(5,150,105,.2);
}

/* Sticky header offset when top-nav is present */
.has-top-nav .site-header {
  top: 33px;
}

/* ===================================================================
   Disease Context Tab
   =================================================================== */

.context-intro {
  margin-bottom: var(--sp-4);
}

.context-intro h3 {
  font-family: var(--font-display);
  font-weight: 600;
  margin-bottom: var(--sp-1);
}

.context-id-grid {
  display: flex;
  flex-wrap: wrap;
  gap: var(--sp-2);
  margin-bottom: var(--sp-4);
}

.context-id-chip {
  display: flex;
  flex-direction: column;
  padding: var(--sp-2) var(--sp-3);
  background: var(--surface);
  border: 1px solid var(--border);
  border-radius: var(--r-lg);
  text-decoration: none;
  color: var(--text);
  transition: border-color 0.15s, box-shadow 0.15s;
  min-width: 120px;
}

.context-id-chip:hover {
  border-color: var(--primary);
  box-shadow: 0 0 0 3px var(--primary-soft);
}

.id-label {
  font-size: 0.7rem;
  font-weight: 600;
  text-transform: uppercase;
  letter-spacing: 0.05em;
  color: var(--text-3);
}

.id-val {
  font-family: var(--font-mono);
  font-size: 0.88rem;
  font-weight: 500;
  color: var(--primary);
}

.context-meta-row {
  display: flex;
  flex-wrap: wrap;
  gap: var(--sp-2);
  margin-bottom: var(--sp-4);
}

.context-meta-tag {
  font-size: 0.82rem;
  color: var(--text-2);
  padding: 4px 10px;
  background: var(--surface-alt);
  border-radius: var(--r-sm);
}

.context-who-priority {
  background: #FEE2E2;
  color: #DC2626;
  font-weight: 600;
  font-size: 0.78rem;
}

.context-definition {
  background: var(--surface);
  border: 1px solid var(--border-light);
  border-radius: var(--r-lg);
  padding: var(--sp-3) var(--sp-4);
  margin-bottom: var(--sp-4);
}

.context-definition h4 {
  font-family: var(--font-display);
  font-size: 0.88rem;
  font-weight: 600;
  margin-bottom: var(--sp-2);
}

.context-definition p {
  font-size: 0.85rem;
  color: var(--text-2);
  line-height: 1.6;
}

.context-who-section {
  background: var(--surface);
  border: 1px solid var(--border-light);
  border-radius: var(--r-lg);
  padding: var(--sp-3) var(--sp-4);
  margin-bottom: var(--sp-4);
}

.context-who-section h4 {
  font-family: var(--font-display);
  font-size: 0.88rem;
  font-weight: 600;
  margin-bottom: var(--sp-3);
}

.context-epi-grid {
  display: grid;
  grid-template-columns: repeat(auto-fill, minmax(200px, 1fr));
  gap: var(--sp-2);
  margin-bottom: var(--sp-3);
}

.epi-card {
  background: var(--surface-alt);
  border-radius: var(--r-md);
  padding: var(--sp-2) var(--sp-3);
  display: flex;
  flex-direction: column;
  gap: 2px;
}

.epi-label {
  font-size: 0.7rem;
  font-weight: 600;
  text-transform: uppercase;
  letter-spacing: 0.04em;
  color: var(--text-3);
}

.epi-val {
  font-size: 0.85rem;
  font-weight: 500;
  color: var(--text);
}

.epi-note {
  font-size: 0.82rem;
  color: var(--text-2);
  margin-top: var(--sp-2);
  line-height: 1.5;
}
.epi-note.epi-gap {
  color: var(--accent);
  font-weight: 500;
}

.context-details {
  background: var(--surface);
  border: 1px solid var(--border-light);
  border-radius: var(--r-lg);
  padding: var(--sp-3) var(--sp-4);
  margin-bottom: var(--sp-3);
}

.context-details summary {
  cursor: pointer;
  user-select: none;
}

.context-details summary h4 {
  font-family: var(--font-display);
  font-size: 0.88rem;
  font-weight: 600;
}

.context-badge {
  font-size: 0.72rem;
  font-weight: 600;
  color: var(--primary);
  background: var(--primary-soft);
  padding: 2px 8px;
  border-radius: var(--r-sm);
  margin-left: var(--sp-2);
}

.context-lineage {
  font-size: 0.82rem;
  color: var(--text-2);
  font-family: var(--font-mono);
  line-height: 1.6;
  margin-top: var(--sp-2);
  word-break: break-word;
}

.lineage-chips {
  display: flex;
  flex-wrap: wrap;
  gap: var(--sp-1);
  margin-top: var(--sp-2);
}

.lineage-chip {
  font-size: 0.75rem;
  padding: 3px 8px;
  background: var(--surface-alt);
  border-radius: var(--r-sm);
  color: var(--text-2);
}

.lineage-rank {
  font-weight: 600;
  color: var(--text-3);
  font-size: 0.68rem;
  text-transform: uppercase;
}

.gene-table-container {
  margin-top: var(--sp-2);
  overflow-x: auto;
}

.gene-table .gene-symbol {
  font-family: var(--font-mono);
  font-weight: 500;
  color: var(--primary);
}

.synonym-chips, .xref-chips {
  display: flex;
  flex-wrap: wrap;
  gap: var(--sp-1);
  margin-top: var(--sp-2);
}

.synonym-chip, .xref-chip {
  font-size: 0.78rem;
  padding: 3px 10px;
  background: var(--surface-alt);
  border: 1px solid var(--border-light);
  border-radius: var(--r-sm);
  color: var(--text-2);
}

.context-sources {
  margin-top: var(--sp-4);
  padding-top: var(--sp-3);
  border-top: 1px solid var(--border-light);
}

/* ---------------------------------------------------------------------------
   Gene column & filter
   --------------------------------------------------------------------------- */
.col-gene {
  width: 110px;
}

.gene-tag {
  display: inline-block;
  font-family: var(--font-mono);
  font-size: 0.78rem;
  padding: 1px 6px;
  border-radius: var(--r-sm);
  white-space: nowrap;
}

.gene-tag.gene-pc {
  background: rgba(3,105,161,.10);
  color: var(--primary);
  font-weight: 500;
}

.gene-tag.gene-other {
  background: rgba(168,85,247,.10);
  color: #9333ea;
}

.gene-tag.gene-inter {
  background: var(--surface-alt);
  color: var(--text-3);
  font-style: italic;
}

.gene-filter-select {
  appearance: none;
  background: var(--surface);
  border: 1.5px solid var(--border);
  border-radius: var(--r-md);
  padding: 6px 28px 6px 10px;
  font-size: 0.82rem;
  font-family: var(--font-body);
  color: var(--text);
  cursor: pointer;
  background-image: url("data:image/svg+xml,%3Csvg xmlns='http://www.w3.org/2000/svg' width='10' height='6'%3E%3Cpath d='M0 0l5 6 5-6z' fill='%23888'/%3E%3C/svg%3E");
  background-repeat: no-repeat;
  background-position: right 8px center;
  transition: border-color 0.15s;
}

.gene-filter-select:focus {
  outline: none;
  border-color: var(--primary);
}

/* ---------------------------------------------------------------------------
   Priority badges on pathogen cards
   --------------------------------------------------------------------------- */
.priority-badge {
  position: absolute;
  top: 8px;
  right: 8px;
  font-size: 0.68rem;
  font-weight: 600;
  font-family: var(--font-mono);
  padding: 2px 6px;
  border-radius: var(--r-sm);
  line-height: 1.2;
}

.priority-badge.priority-high {
  background: rgba(239,68,68,.12);
  color: #dc2626;
}

.priority-badge.priority-med {
  background: rgba(245,158,11,.12);
  color: #d97706;
}

.priority-badge.priority-low {
  background: rgba(34,197,94,.12);
  color: #16a34a;
}

/* ---------------------------------------------------------------------------
   Top Opportunities panel
   --------------------------------------------------------------------------- */
.top-opportunities {
  margin-bottom: var(--sp-4);
}

.opps-header {
  margin-bottom: var(--sp-3);
}

.opps-header h3 {
  font-family: var(--font-display);
  font-size: 1rem;
  font-weight: 600;
  margin: 0;
  color: var(--text);
}

.opps-sub {
  font-size: 0.78rem;
  color: var(--text-3);
}

.opps-cards {
  display: grid;
  grid-template-columns: repeat(auto-fit, minmax(240px, 1fr));
  gap: var(--sp-3);
}

.opp-card {
  display: flex;
  align-items: center;
  gap: var(--sp-3);
  padding: var(--sp-3) var(--sp-4);
  background: var(--surface);
  border: 1.5px solid var(--border);
  border-radius: var(--r-lg);
  cursor: pointer;
  transition: all 0.15s ease;
}

.opp-card:hover {
  border-color: #dc2626;
  box-shadow: var(--shadow-md);
  transform: translateY(-1px);
}

.opp-score {
  font-family: var(--font-mono);
  font-size: 1.5rem;
  font-weight: 700;
  color: #dc2626;
  line-height: 1;
  white-space: nowrap;
}

.opp-max {
  font-size: 0.7rem;
  font-weight: 500;
  color: var(--text-3);
}

.opp-name {
  font-family: var(--font-display);
  font-weight: 600;
  font-size: 0.88rem;
  color: var(--text);
}

.opp-detail {
  font-size: 0.75rem;
  color: var(--text-3);
  margin-top: 2px;
}

/* ---------------------------------------------------------------------------
   Gene Map bidirectional link highlights
   --------------------------------------------------------------------------- */
.gene-map-row {
  transition: background 0.15s;
}

.gene-map-row:hover {
  background: rgba(3,105,161,.06);
}

.gene-highlight {
  background: rgba(3,105,161,.12) !important;
  animation: gene-flash 1.5s ease;
}

@keyframes gene-flash {
  0% { background: rgba(3,105,161,.25); }
  100% { background: rgba(3,105,161,.12); }
}

/* ---------------------------------------------------------------------------
   Panel Designer
   --------------------------------------------------------------------------- */
.panel-config {
  display: grid;
  grid-template-columns: 1fr 260px;
  gap: 1.5rem;
  margin-bottom: 1.5rem;
}
.panel-pathogen-grid {
  display: grid;
  grid-template-columns: repeat(auto-fill, minmax(180px, 1fr));
  gap: 0.35rem 1rem;
}
.panel-pathogen-item {
  display: flex;
  align-items: center;
  gap: 0.4rem;
  font-size: 0.85rem;
  cursor: pointer;
}
.panel-pathogen-item input { accent-color: var(--teal); }
.panel-presets {
  margin-top: 0.75rem;
  display: flex;
  gap: 0.5rem;
  flex-wrap: wrap;
}
.panel-options {
  display: flex;
  flex-direction: column;
  gap: 0.6rem;
  font-size: 0.85rem;
}
.panel-options label { display: flex; align-items: center; gap: 0.5rem; }
.panel-options select { padding: 3px 6px; border-radius: 4px; border: 1px solid var(--border); }
.panel-options input[type="checkbox"] { accent-color: var(--teal); }
.panel-table {
  width: 100%;
  border-collapse: collapse;
  font-size: 0.82rem;
  margin-top: 0.75rem;
}
.panel-table th {
  text-align: left;
  padding: 6px 8px;
  border-bottom: 2px solid var(--border);
  font-weight: 600;
  font-size: 0.75rem;
  text-transform: uppercase;
  letter-spacing: 0.05em;
  color: var(--text-muted);
}
.panel-table td {
  padding: 5px 8px;
  border-bottom: 1px solid var(--border-light);
}
.panel-error { color: var(--red); font-weight: 500; }
.panel-warning { color: var(--amber); font-size: 0.85rem; }
.panel-results { margin-top: 1rem; }

@media (max-width: 700px) {
  .panel-config { grid-template-columns: 1fr; }
}