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    "# Counting gaps per sequence\n",
    "\n",
    "We have several different ways of counting sequence gaps, and of visualising the results. By default, the `count_gaps_per_seq()` method returns a matrix of counts without the ability to visualise the results. When setting the argument `unique=True`, the counts are for gaps uniquely induced by each sequence. This can be a useful indicator of highly divergent sequences."
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       "<th>Caenolest</th>\n",
       "<th>Phascogale</th>\n",
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       "=================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================\n",
       "FlyingFox    DogFaced    FreeTaile    LittleBro    TombBat    RoundEare    FalseVamp    LeafNose    Horse    Rhino    Pangolin    Cat    Dog    Llama    Pig    Cow    Hippo    SpermWhale    HumpbackW    Mole    Hedgehog    TreeShrew    FlyingLem    Galago    HowlerMon    Rhesus    Orangutan    Gorilla    Human    Chimpanzee    Jackrabbit    FlyingSqu    OldWorld    Mouse    Rat    NineBande    HairyArma    Anteater    Sloth    Dugong    Manatee    AfricanEl    AsianElep    RockHyrax    TreeHyrax    Aardvark    GoldenMol    Madagascar    Tenrec    LesserEle    GiantElep    Caenolest    Phascogale    Wombat    Bandicoot\n",
       "-------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------\n",
       "        0           0            0            0          0            0            0           0        0        0           0      0      0        0      0      3        0             0            0       0           0            3            0         3           21         0            0          0        0             0             0           57           0        0      0            0            0           0        0         0          0            0            0            0            0           0            0             0         6            0            6            0             0         0            0\n",
       "-------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------"
      ]
     },
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   ],
   "source": [
    "from cogent3 import load_aligned_seqs\n",
    "\n",
    "aln = load_aligned_seqs('../../tests/data/brca1.fasta', moltype='dna')\n",
    "\n",
    "counts = aln.count_gaps_per_seq(unique=True)\n",
    "counts"
   ]
  },
  {
   "cell_type": "markdown",
   "metadata": {},
   "source": [
    "## Plotting counts of unique gaps\n",
    "\n",
    "There are three plot types supported. In all cases, placing the mouse pointer over a data point will show hover text with the sequence name."
   ]
  },
  {
   "cell_type": "markdown",
   "metadata": {},
   "source": [
    "### Displaying unique gaps as a bar chart"
   ]
  },
  {
   "cell_type": "code",
   "execution_count": 2,
   "metadata": {},
   "outputs": [
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  {
   "cell_type": "markdown",
   "metadata": {},
   "source": [
    "### Displaying unique gaps as a violin plot"
   ]
  },
  {
   "cell_type": "code",
   "execution_count": 3,
   "metadata": {},
   "outputs": [
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   "source": [
    "counts = aln.count_gaps_per_seq(unique=True, drawable='violin')\n",
    "counts.show(width=300, height=500)"
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   "cell_type": "markdown",
   "metadata": {},
   "source": [
    "### Displaying unique gaps as a box plot"
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   "cell_type": "code",
   "execution_count": 4,
   "metadata": {},
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